Query 001353
Match_columns 1093
No_of_seqs 637 out of 3939
Neff 7.9
Searched_HMMs 46136
Date Thu Mar 28 22:37:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001353.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/001353hhsearch_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 8E-149 2E-153 1250.5 62.6 721 77-1091 9-747 (750)
2 TIGR02938 nifL_nitrog nitrogen 100.0 2.4E-50 5.2E-55 486.3 42.2 446 618-1085 4-494 (494)
3 PRK13560 hypothetical protein; 100.0 1E-46 2.2E-51 483.3 52.1 442 607-1088 193-806 (807)
4 PRK11091 aerobic respiration c 100.0 9.3E-45 2E-49 462.7 43.4 358 605-1090 142-510 (779)
5 COG5002 VicK Signal transducti 100.0 2.9E-45 6.3E-50 387.6 28.2 341 608-1090 101-453 (459)
6 PRK11006 phoR phosphate regulo 100.0 2E-37 4.2E-42 368.5 35.7 325 729-1088 78-426 (430)
7 COG3852 NtrB Signal transducti 100.0 2.3E-37 5E-42 324.4 30.9 320 753-1087 11-356 (363)
8 PRK11073 glnL nitrogen regulat 100.0 3.9E-35 8.4E-40 338.8 39.4 337 618-1085 7-347 (348)
9 PRK10618 phosphotransfer inter 100.0 1.4E-35 2.9E-40 373.9 37.7 328 741-1088 335-675 (894)
10 PRK13557 histidine kinase; Pro 100.0 1.4E-34 3E-39 353.8 42.9 353 613-1087 25-396 (540)
11 PRK10841 hybrid sensory kinase 100.0 7.8E-35 1.7E-39 372.5 40.3 327 742-1088 327-670 (924)
12 PRK11360 sensory histidine kin 100.0 5.5E-34 1.2E-38 352.5 41.4 328 740-1089 253-605 (607)
13 TIGR02966 phoR_proteo phosphat 100.0 2.1E-34 4.6E-39 328.9 33.6 306 745-1083 2-333 (333)
14 PRK09959 hybrid sensory histid 100.0 4.8E-33 1E-37 371.1 38.9 348 731-1088 558-939 (1197)
15 COG2205 KdpD Osmosensitive K+ 100.0 3.2E-33 7E-38 327.1 25.4 219 857-1089 655-883 (890)
16 PF00360 PHY: Phytochrome regi 100.0 7E-34 1.5E-38 293.6 11.9 157 427-585 19-178 (182)
17 COG5000 NtrY Signal transducti 100.0 1.9E-31 4.1E-36 302.0 32.6 337 604-1086 356-709 (712)
18 PRK13559 hypothetical protein; 100.0 1.2E-30 2.5E-35 303.2 36.9 310 615-1086 40-360 (361)
19 PRK09303 adaptive-response sen 100.0 3.5E-31 7.5E-36 309.1 27.0 217 858-1086 147-378 (380)
20 PRK11086 sensory histidine kin 100.0 1.1E-29 2.3E-34 311.2 40.4 334 712-1089 146-539 (542)
21 COG4191 Signal transduction hi 100.0 4.7E-29 1E-33 284.7 37.3 208 863-1085 385-601 (603)
22 PRK15053 dpiB sensor histidine 100.0 2.9E-28 6.4E-33 298.8 42.7 336 712-1089 147-543 (545)
23 TIGR02956 TMAO_torS TMAO reduc 100.0 2.2E-29 4.7E-34 329.6 27.6 227 851-1089 453-687 (968)
24 PRK15347 two component system 100.0 6E-29 1.3E-33 323.8 28.5 222 854-1087 390-616 (921)
25 PRK11466 hybrid sensory histid 100.0 2.8E-28 6.1E-33 317.1 29.2 223 854-1088 436-665 (914)
26 PRK11107 hybrid sensory histid 100.0 3E-28 6.6E-33 317.2 28.7 229 854-1089 285-522 (919)
27 PRK10490 sensor protein KdpD; 100.0 2.2E-27 4.8E-32 302.7 33.9 216 860-1089 662-886 (895)
28 PRK13837 two-component VirA-li 100.0 3.5E-26 7.6E-31 292.6 40.8 219 861-1087 449-677 (828)
29 COG3290 CitA Signal transducti 100.0 2.2E-25 4.7E-30 253.9 39.4 344 705-1089 133-535 (537)
30 PRK10364 sensor protein ZraS; 100.0 1.5E-26 3.2E-31 277.5 29.2 213 861-1089 236-452 (457)
31 PRK10815 sensor protein PhoQ; 99.9 4.6E-26 1E-30 273.8 28.5 213 861-1090 265-483 (485)
32 PRK10604 sensor protein RstB; 99.9 4.6E-26 9.9E-31 271.0 26.8 209 860-1089 210-427 (433)
33 TIGR03785 marine_sort_HK prote 99.9 1.5E-24 3.4E-29 270.7 40.1 210 861-1084 484-703 (703)
34 PRK10549 signal transduction h 99.9 6.5E-25 1.4E-29 263.8 27.5 218 859-1090 237-463 (466)
35 PRK10755 sensor protein BasS/P 99.9 6.9E-25 1.5E-29 254.3 26.6 210 862-1088 137-353 (356)
36 PRK09835 sensor kinase CusS; P 99.9 4E-24 8.7E-29 258.0 28.4 212 860-1085 260-480 (482)
37 TIGR01386 cztS_silS_copS heavy 99.9 9.7E-24 2.1E-28 252.7 26.4 209 861-1084 240-457 (457)
38 TIGR02916 PEP_his_kin putative 99.9 2.3E-23 5E-28 261.2 29.5 200 863-1084 476-679 (679)
39 PRK10337 sensor protein QseC; 99.9 3.1E-23 6.7E-28 248.2 26.3 206 862-1083 237-449 (449)
40 PRK11100 sensory histidine kin 99.9 7E-23 1.5E-27 246.4 27.0 211 862-1086 256-474 (475)
41 PRK09467 envZ osmolarity senso 99.9 9E-23 1.9E-27 243.1 27.0 205 857-1087 224-435 (435)
42 PRK09470 cpxA two-component se 99.9 1.2E-22 2.5E-27 243.8 27.3 210 860-1087 241-459 (461)
43 PF08446 PAS_2: PAS fold; Int 99.9 9.7E-25 2.1E-29 206.9 6.6 105 84-197 3-110 (110)
44 COG0642 BaeS Signal transducti 99.9 3.2E-22 7E-27 226.6 25.3 215 861-1090 114-334 (336)
45 PRK09776 putative diguanylate 99.9 1.9E-19 4.2E-24 239.0 43.1 239 608-854 400-664 (1092)
46 PRK09776 putative diguanylate 99.9 4.7E-21 1E-25 254.3 27.1 243 608-858 273-538 (1092)
47 COG4192 Signal transduction hi 99.9 3.7E-21 8E-26 210.7 20.3 207 864-1084 453-665 (673)
48 PRK11644 sensory histidine kin 99.8 1.9E-19 4.2E-24 216.5 25.8 193 860-1085 300-494 (495)
49 TIGR02040 PpsR-CrtJ transcript 99.8 3.9E-19 8.4E-24 212.3 24.4 221 610-848 125-368 (442)
50 PRK13560 hypothetical protein; 99.8 1.6E-18 3.4E-23 222.8 27.6 241 607-857 56-333 (807)
51 PRK11359 cyclic-di-GMP phospho 99.7 1.4E-16 3E-21 204.9 26.1 222 618-849 12-256 (799)
52 PF02518 HATPase_c: Histidine 99.7 9E-18 1.9E-22 160.6 11.2 103 973-1085 1-110 (111)
53 TIGR02040 PpsR-CrtJ transcript 99.7 5.5E-16 1.2E-20 185.3 20.6 210 623-848 1-247 (442)
54 PRK10935 nitrate/nitrite senso 99.7 1.4E-15 3E-20 187.6 24.8 194 863-1089 361-563 (565)
55 PRK10600 nitrate/nitrite senso 99.7 4E-15 8.6E-20 183.6 25.7 188 866-1087 366-558 (569)
56 COG3920 Signal transduction hi 99.6 8.4E-14 1.8E-18 148.7 25.3 198 861-1089 18-219 (221)
57 PRK10547 chemotaxis protein Ch 99.6 1.7E-14 3.7E-19 175.6 20.7 142 934-1088 343-526 (670)
58 COG4564 Signal transduction hi 99.5 3.8E-12 8.3E-17 135.4 21.0 353 624-1087 89-449 (459)
59 PF08448 PAS_4: PAS fold; Int 99.4 5.8E-13 1.2E-17 125.9 11.2 110 624-739 1-110 (110)
60 COG4585 Signal transduction hi 99.4 8.2E-12 1.8E-16 145.4 23.2 190 860-1085 169-365 (365)
61 PF00989 PAS: PAS fold; Inter 99.4 2E-12 4.3E-17 122.8 12.5 112 618-734 1-113 (113)
62 COG3851 UhpB Signal transducti 99.4 2.5E-11 5.4E-16 130.9 21.4 193 860-1084 301-493 (497)
63 PF13426 PAS_9: PAS domain; PD 99.4 2.2E-12 4.8E-17 120.4 11.9 104 628-736 1-104 (104)
64 PF01590 GAF: GAF domain; Int 99.4 3.2E-12 6.9E-17 128.9 13.0 153 230-396 1-154 (154)
65 COG3850 NarQ Signal transducti 99.4 3.7E-11 7.9E-16 136.9 22.4 184 864-1084 371-567 (574)
66 smart00387 HATPase_c Histidine 99.4 7E-12 1.5E-16 118.0 13.7 104 973-1086 1-111 (111)
67 COG0643 CheA Chemotaxis protei 99.3 1.5E-11 3.2E-16 150.7 17.5 166 902-1087 365-575 (716)
68 PRK04184 DNA topoisomerase VI 99.3 1.4E-11 3.1E-16 145.2 13.2 110 972-1088 31-155 (535)
69 PRK14868 DNA topoisomerase VI 99.2 1.1E-10 2.3E-15 140.0 14.6 112 954-1076 23-148 (795)
70 cd00075 HATPase_c Histidine ki 99.2 2.8E-10 6.1E-15 105.3 12.4 97 978-1083 1-103 (103)
71 TIGR01052 top6b DNA topoisomer 99.2 2.1E-10 4.7E-15 133.9 13.2 105 971-1084 22-141 (488)
72 TIGR01925 spIIAB anti-sigma F 99.1 5.4E-10 1.2E-14 111.1 12.4 94 974-1082 36-135 (137)
73 PRK11359 cyclic-di-GMP phospho 99.1 5.8E-08 1.3E-12 125.2 33.5 125 616-745 134-259 (799)
74 smart00065 GAF Domain present 99.1 4.7E-09 1E-13 102.5 16.2 139 230-398 1-141 (149)
75 PRK03660 anti-sigma F factor; 99.1 1.8E-09 3.9E-14 108.6 13.3 101 974-1089 36-142 (146)
76 KOG0519 Sensory transduction h 99.0 7.2E-11 1.6E-15 148.5 1.6 221 865-1090 224-493 (786)
77 PRK13558 bacterio-opsin activa 99.0 5E-09 1.1E-13 132.1 17.7 137 618-759 148-287 (665)
78 PRK14867 DNA topoisomerase VI 99.0 2.2E-09 4.8E-14 129.1 13.2 104 976-1087 35-151 (659)
79 PF13426 PAS_9: PAS domain; PD 99.0 1.1E-09 2.5E-14 102.0 8.4 81 763-843 2-104 (104)
80 PF00989 PAS: PAS fold; Inter 99.0 1.9E-09 4E-14 102.2 9.6 90 749-841 1-113 (113)
81 TIGR00229 sensory_box PAS doma 99.0 5.3E-09 1.1E-13 96.0 12.5 120 618-743 3-123 (124)
82 PRK10060 RNase II stability mo 99.0 7.9E-09 1.7E-13 129.7 18.0 166 612-782 105-285 (663)
83 PRK04069 serine-protein kinase 99.0 5.3E-09 1.1E-13 106.9 13.0 101 974-1088 39-146 (161)
84 PRK11091 aerobic respiration c 98.9 4.3E-09 9.4E-14 135.1 12.9 114 732-848 138-273 (779)
85 COG3275 LytS Putative regulato 98.9 1.2E-07 2.6E-12 106.9 21.6 131 932-1089 415-555 (557)
86 PF13596 PAS_10: PAS domain; P 98.9 1.1E-08 2.3E-13 97.0 11.2 106 620-735 1-106 (106)
87 PRK10060 RNase II stability mo 98.8 9.7E-08 2.1E-12 119.9 20.1 144 703-855 70-237 (663)
88 PF00512 HisKA: His Kinase A ( 98.8 1.1E-08 2.3E-13 88.5 7.6 65 861-925 1-68 (68)
89 PF08448 PAS_4: PAS fold; Int 98.8 1.4E-08 3.1E-13 95.7 9.0 88 755-846 1-110 (110)
90 COG3829 RocR Transcriptional r 98.8 8.7E-08 1.9E-12 111.0 16.9 211 621-853 4-231 (560)
91 COG2972 Predicted signal trans 98.8 2.1E-07 4.6E-12 111.5 21.1 183 866-1086 263-453 (456)
92 TIGR01924 rsbW_low_gc serine-p 98.8 4.4E-08 9.6E-13 99.8 12.9 101 975-1089 40-147 (159)
93 COG2203 FhlA FOG: GAF domain [ 98.7 5.3E-08 1.1E-12 98.5 10.2 157 215-399 5-165 (175)
94 PF14501 HATPase_c_5: GHKL dom 98.6 4E-07 8.6E-12 85.3 12.6 97 974-1084 2-100 (100)
95 PF08447 PAS_3: PAS fold; Int 98.6 2.1E-07 4.6E-12 84.9 9.3 86 640-731 1-91 (91)
96 PRK11360 sensory histidine kin 98.6 7.6E-07 1.6E-11 110.4 16.8 131 611-749 255-386 (607)
97 PF13492 GAF_3: GAF domain; PD 98.5 2E-06 4.2E-11 83.7 14.8 128 230-397 1-128 (129)
98 PF12860 PAS_7: PAS fold 98.5 3.4E-07 7.3E-12 88.0 8.6 104 624-742 1-115 (115)
99 cd00130 PAS PAS domain; PAS mo 98.5 2E-06 4.4E-11 74.6 12.5 103 627-734 1-103 (103)
100 PRK13559 hypothetical protein; 98.5 7.4E-07 1.6E-11 103.7 12.6 99 746-847 40-163 (361)
101 TIGR02966 phoR_proteo phosphat 98.5 1.2E-06 2.5E-11 100.0 12.9 114 614-745 2-115 (333)
102 KOG0787 Dehydrogenase kinase [ 98.4 1.4E-05 3E-10 88.2 19.1 191 882-1085 156-380 (414)
103 PF13581 HATPase_c_2: Histidin 98.4 1.9E-06 4.1E-11 84.1 11.4 95 974-1082 28-124 (125)
104 PRK13558 bacterio-opsin activa 98.4 3.6E-06 7.9E-11 106.3 15.9 101 751-854 150-275 (665)
105 TIGR02938 nifL_nitrog nitrogen 98.4 6.8E-07 1.5E-11 107.9 8.4 104 749-855 4-129 (494)
106 PRK13557 histidine kinase; Pro 98.4 4.2E-06 9E-11 102.6 15.3 104 742-848 23-151 (540)
107 PF13185 GAF_2: GAF domain; PD 98.4 6E-06 1.3E-10 82.3 13.8 137 230-397 3-148 (148)
108 TIGR00229 sensory_box PAS doma 98.3 4.4E-06 9.5E-11 76.3 9.9 96 749-848 3-121 (124)
109 TIGR01817 nifA Nif-specific re 98.2 4E-05 8.7E-10 93.9 19.9 151 215-397 6-157 (534)
110 PRK11006 phoR phosphate regulo 98.2 7E-06 1.5E-10 98.0 12.6 117 609-745 89-205 (430)
111 PRK11388 DNA-binding transcrip 98.2 5.3E-05 1.2E-09 94.9 19.4 205 618-844 62-309 (638)
112 PRK11086 sensory histidine kin 98.2 2.1E-05 4.5E-10 96.7 15.1 126 611-754 214-343 (542)
113 KOG3558 Hypoxia-inducible fact 98.2 1.6E-05 3.5E-10 93.3 12.9 207 618-843 118-378 (768)
114 PRK10820 DNA-binding transcrip 98.1 2.6E-05 5.6E-10 94.8 15.2 112 613-739 75-190 (520)
115 COG1389 DNA topoisomerase VI, 98.1 1.6E-05 3.4E-10 89.7 10.4 103 975-1085 34-150 (538)
116 COG2202 AtoS FOG: PAS/PAC doma 98.1 0.00028 6E-09 71.1 19.1 204 631-846 2-230 (232)
117 COG3829 RocR Transcriptional r 98.0 5.9E-05 1.3E-09 88.0 14.8 169 613-795 112-327 (560)
118 PRK15429 formate hydrogenlyase 98.0 0.00044 9.5E-09 87.4 23.8 146 228-399 197-344 (686)
119 PRK05022 anaerobic nitric oxid 98.0 0.00058 1.2E-08 83.1 22.9 153 217-399 7-159 (509)
120 COG3604 FhlA Transcriptional r 98.0 0.00018 3.8E-09 83.0 16.8 219 228-476 46-272 (550)
121 PF08447 PAS_3: PAS fold; Int 97.9 3.6E-05 7.7E-10 70.1 7.7 65 774-838 1-91 (91)
122 COG2172 RsbW Anti-sigma regula 97.9 0.00017 3.7E-09 72.1 12.4 95 973-1082 36-138 (146)
123 PF14598 PAS_11: PAS domain; P 97.8 0.00016 3.4E-09 69.0 11.1 101 631-736 5-108 (111)
124 PRK11061 fused phosphoenolpyru 97.8 0.00035 7.5E-09 88.1 17.2 151 217-398 6-156 (748)
125 TIGR00585 mutl DNA mismatch re 97.8 0.00014 3E-09 82.8 12.0 81 976-1074 21-114 (312)
126 smart00388 HisKA His Kinase A 97.7 8.4E-05 1.8E-09 62.6 6.6 62 862-923 2-64 (66)
127 COG3290 CitA Signal transducti 97.7 0.00028 6.1E-09 82.4 12.4 126 611-754 208-337 (537)
128 PRK15053 dpiB sensor histidine 97.6 0.00071 1.5E-08 83.4 15.9 126 611-754 215-342 (545)
129 COG2202 AtoS FOG: PAS/PAC doma 97.6 0.0012 2.5E-08 66.6 14.2 125 610-740 104-231 (232)
130 cd00130 PAS PAS domain; PAS mo 97.6 0.00057 1.2E-08 58.8 10.2 79 763-841 3-103 (103)
131 PF12860 PAS_7: PAS fold 97.5 0.00018 3.9E-09 69.0 6.0 83 756-848 2-114 (115)
132 PF13596 PAS_10: PAS domain; P 97.5 0.00041 8.9E-09 65.5 8.0 85 751-842 1-106 (106)
133 PF13188 PAS_8: PAS domain; PD 97.4 0.00016 3.5E-09 61.4 4.3 43 618-664 1-43 (64)
134 PRK11073 glnL nitrogen regulat 97.4 0.0019 4.1E-08 74.6 13.7 91 749-847 7-117 (348)
135 PRK15429 formate hydrogenlyase 97.3 0.054 1.2E-06 68.6 27.4 200 217-450 12-224 (686)
136 COG5002 VicK Signal transducti 97.2 0.0024 5.3E-08 70.2 10.6 109 732-844 93-218 (459)
137 cd00082 HisKA Histidine Kinase 97.1 0.0016 3.5E-08 54.1 7.1 59 862-920 4-64 (65)
138 PF13589 HATPase_c_3: Histidin 97.1 0.00025 5.3E-09 70.5 2.2 89 979-1084 4-106 (137)
139 PRK09959 hybrid sensory histid 97.1 0.0078 1.7E-07 81.5 17.3 139 607-751 565-705 (1197)
140 PRK11388 DNA-binding transcrip 97.0 0.011 2.3E-07 74.4 15.5 114 612-739 197-311 (638)
141 PRK00095 mutL DNA mismatch rep 96.9 0.0036 7.9E-08 77.7 10.9 80 977-1074 22-114 (617)
142 PRK10820 DNA-binding transcrip 96.9 0.0033 7.1E-08 76.7 10.0 95 744-844 75-188 (520)
143 COG2461 Uncharacterized conser 96.9 0.0026 5.6E-08 71.2 7.7 115 618-743 290-404 (409)
144 KOG3559 Transcriptional regula 96.8 0.0057 1.2E-07 67.7 10.0 187 621-828 82-313 (598)
145 KOG0501 K+-channel KCNQ [Inorg 96.7 0.0045 9.7E-08 71.6 8.2 114 619-740 15-139 (971)
146 smart00091 PAS PAS domain. PAS 96.6 0.0052 1.1E-07 48.4 6.1 64 619-683 2-65 (67)
147 TIGR02373 photo_yellow photoac 96.4 0.019 4.1E-07 54.8 8.8 74 623-696 21-95 (124)
148 PF13188 PAS_8: PAS domain; PD 96.3 0.0038 8.2E-08 52.9 3.6 36 749-788 1-36 (64)
149 KOG3560 Aryl-hydrocarbon recep 96.2 0.015 3.3E-07 67.0 8.2 207 621-843 114-385 (712)
150 KOG0501 K+-channel KCNQ [Inorg 96.1 0.0063 1.4E-07 70.4 4.7 76 771-846 39-138 (971)
151 COG5385 Uncharacterized protei 96.0 0.47 1E-05 47.1 16.6 189 865-1084 18-213 (214)
152 PF08670 MEKHLA: MEKHLA domain 96.0 0.079 1.7E-06 52.8 11.5 110 618-734 32-145 (148)
153 KOG3558 Hypoxia-inducible fact 95.9 0.0076 1.6E-07 71.6 4.8 85 632-721 278-362 (768)
154 PF14598 PAS_11: PAS domain; P 95.9 0.038 8.2E-07 52.7 8.5 79 765-843 5-108 (111)
155 PF10090 DUF2328: Uncharacteri 95.8 0.55 1.2E-05 48.9 17.3 175 878-1079 2-180 (182)
156 PRK05559 DNA topoisomerase IV 95.7 0.015 3.2E-07 72.2 6.5 75 974-1060 34-128 (631)
157 TIGR02916 PEP_his_kin putative 95.5 0.48 1E-05 60.2 19.1 151 217-398 308-459 (679)
158 TIGR01055 parE_Gneg DNA topois 95.1 0.034 7.3E-07 68.9 6.7 75 976-1062 29-123 (625)
159 COG3283 TyrR Transcriptional r 95.1 0.075 1.6E-06 59.2 8.3 57 617-674 79-135 (511)
160 PF07568 HisKA_2: Histidine ki 94.9 0.19 4.2E-06 44.3 9.0 73 869-949 2-74 (76)
161 TIGR01059 gyrB DNA gyrase, B s 94.6 0.082 1.8E-06 66.2 8.3 77 974-1062 27-123 (654)
162 PRK10841 hybrid sensory kinase 94.5 0.95 2.1E-05 59.5 18.0 118 608-753 324-442 (924)
163 COG3852 NtrB Signal transducti 94.5 0.35 7.5E-06 53.2 11.4 112 621-743 10-122 (363)
164 PRK05644 gyrB DNA gyrase subun 94.4 0.084 1.8E-06 65.6 7.7 77 974-1062 34-130 (638)
165 COG0323 MutL DNA mismatch repa 94.3 0.051 1.1E-06 67.5 5.4 55 978-1045 24-78 (638)
166 COG5000 NtrY Signal transducti 93.9 0.22 4.8E-06 59.3 9.1 99 743-847 364-480 (712)
167 PRK05218 heat shock protein 90 93.5 0.21 4.6E-06 62.0 8.7 57 971-1041 23-94 (613)
168 PRK10618 phosphotransfer inter 93.3 1.4 3E-05 57.4 16.0 45 609-653 334-379 (894)
169 smart00433 TOP2c Topoisomerase 92.8 0.083 1.8E-06 65.3 3.8 71 978-1060 2-92 (594)
170 KOG1229 3'5'-cyclic nucleotide 92.8 0.079 1.7E-06 59.6 3.2 113 611-729 151-264 (775)
171 KOG0519 Sensory transduction h 92.6 0.39 8.3E-06 61.6 9.4 218 852-1071 376-619 (786)
172 smart00086 PAC Motif C-termina 92.3 0.77 1.7E-05 31.7 7.1 40 804-843 3-42 (43)
173 PRK14939 gyrB DNA gyrase subun 92.0 0.23 4.9E-06 62.4 6.1 48 976-1035 36-84 (756)
174 TIGR02851 spore_V_T stage V sp 91.5 6.8 0.00015 40.8 15.4 125 230-396 53-179 (180)
175 KOG1229 3'5'-cyclic nucleotide 91.0 0.13 2.7E-06 58.0 2.1 73 764-836 169-264 (775)
176 COG3284 AcoR Transcriptional a 90.9 1.6 3.5E-05 52.9 11.4 175 608-794 64-265 (606)
177 PRK14083 HSP90 family protein; 90.5 0.27 5.8E-06 60.6 4.6 77 971-1060 20-117 (601)
178 smart00086 PAC Motif C-termina 88.7 2.1 4.6E-05 29.3 6.7 35 702-736 8-42 (43)
179 COG1956 GAF domain-containing 88.5 17 0.00036 36.6 14.3 123 231-395 34-159 (163)
180 COG5381 Uncharacterized protei 87.9 1.3 2.8E-05 43.1 6.1 44 976-1030 62-105 (184)
181 PTZ00272 heat shock protein 83 87.5 0.73 1.6E-05 57.6 5.5 58 971-1040 22-92 (701)
182 COG0326 HtpG Molecular chapero 85.7 0.96 2.1E-05 54.9 4.9 79 971-1061 24-133 (623)
183 smart00091 PAS PAS domain. PAS 85.4 1.3 2.8E-05 33.9 4.2 41 751-794 3-43 (67)
184 TIGR02373 photo_yellow photoac 85.0 2.8 6.1E-05 40.3 6.7 35 760-794 24-58 (124)
185 KOG3561 Aryl-hydrocarbon recep 84.8 0.42 9.1E-06 59.7 1.4 59 619-678 95-154 (803)
186 TIGR01058 parE_Gpos DNA topois 84.4 1.5 3.3E-05 54.5 6.0 49 975-1035 32-81 (637)
187 PTZ00108 DNA topoisomerase 2-l 83.8 1.9 4.1E-05 57.5 6.8 49 977-1036 57-110 (1388)
188 PHA02569 39 DNA topoisomerase 82.4 0.91 2E-05 56.1 3.0 46 978-1036 46-95 (602)
189 PF14689 SPOB_a: Sensor_kinase 82.3 7.1 0.00015 32.9 7.5 47 864-914 14-60 (62)
190 PLN03237 DNA topoisomerase 2; 82.1 2.8 6E-05 56.0 7.2 74 978-1063 78-173 (1465)
191 COG3887 Predicted signaling pr 82.0 12 0.00026 45.1 11.7 101 616-747 73-173 (655)
192 PRK13837 two-component VirA-li 81.0 64 0.0014 42.2 19.4 129 230-397 293-426 (828)
193 PTZ00109 DNA gyrase subunit b; 79.6 0.68 1.5E-05 58.5 0.6 49 977-1037 129-178 (903)
194 COG2461 Uncharacterized conser 79.4 2.7 5.8E-05 47.9 5.0 93 749-848 290-402 (409)
195 KOG3753 Circadian clock protei 78.9 2.5 5.4E-05 52.2 4.9 51 629-680 193-243 (1114)
196 KOG3560 Aryl-hydrocarbon recep 78.3 6.7 0.00014 46.2 7.8 95 636-736 291-385 (712)
197 PF07310 PAS_5: PAS domain; I 78.2 12 0.00026 37.1 8.8 86 638-731 51-136 (137)
198 COG3283 TyrR Transcriptional r 77.3 5.8 0.00013 44.8 6.7 42 750-794 81-122 (511)
199 KOG3559 Transcriptional regula 76.9 5.3 0.00012 45.1 6.3 88 628-720 225-312 (598)
200 PF04340 DUF484: Protein of un 76.8 37 0.00079 36.7 12.9 136 218-397 82-221 (225)
201 KOG1977 DNA mismatch repair pr 76.3 3.7 8.1E-05 49.7 5.2 56 976-1045 20-75 (1142)
202 PRK10490 sensor protein KdpD; 76.0 1.1E+02 0.0024 40.4 19.3 48 347-398 596-644 (895)
203 PF08670 MEKHLA: MEKHLA domain 73.9 31 0.00067 34.7 10.3 88 749-840 32-144 (148)
204 PTZ00130 heat shock protein 90 73.6 2.6 5.7E-05 53.1 3.3 48 982-1038 93-153 (814)
205 PLN03128 DNA topoisomerase 2; 73.3 4.8 0.0001 53.2 5.7 49 977-1036 52-102 (1135)
206 PRK14538 putative bifunctional 72.9 21 0.00046 46.0 11.1 44 618-664 102-146 (838)
207 KOG1978 DNA mismatch repair pr 72.1 3.3 7.1E-05 50.4 3.5 55 978-1045 21-75 (672)
208 KOG1979 DNA mismatch repair pr 71.2 4.7 0.0001 48.1 4.4 77 980-1074 30-119 (694)
209 KOG3561 Aryl-hydrocarbon recep 70.4 3.1 6.6E-05 52.3 2.9 98 634-735 378-476 (803)
210 COG0187 GyrB Type IIA topoisom 66.1 2.2 4.8E-05 51.7 0.4 51 976-1038 35-86 (635)
211 PF08446 PAS_2: PAS fold; Int 61.5 7.4 0.00016 37.0 3.0 48 631-679 18-69 (110)
212 PRK10600 nitrate/nitrite senso 54.3 4.7E+02 0.01 32.4 18.2 121 219-398 225-346 (569)
213 COG3605 PtsP Signal transducti 51.0 1E+02 0.0022 37.6 10.3 145 217-397 6-155 (756)
214 PRK14538 putative bifunctional 50.5 5E+02 0.011 33.9 17.5 218 737-1003 83-329 (838)
215 PF08348 PAS_6: YheO-like PAS 49.8 52 0.0011 31.7 6.7 41 702-744 76-116 (118)
216 PRK13719 conjugal transfer tra 49.3 2.3E+02 0.0051 30.3 11.9 40 617-656 18-57 (217)
217 PF07536 HWE_HK: HWE histidine 48.9 91 0.002 28.0 7.7 70 869-949 2-71 (83)
218 PF14827 Cache_3: Sensory doma 46.1 42 0.00091 32.0 5.5 76 627-734 38-113 (116)
219 COG3284 AcoR Transcriptional a 45.9 1.1E+02 0.0025 37.6 10.1 100 739-838 64-179 (606)
220 COG2865 Predicted transcriptio 44.4 1.7E+02 0.0036 35.2 11.0 128 935-1087 237-382 (467)
221 KOG3753 Circadian clock protei 43.7 42 0.00092 42.1 6.1 81 635-720 338-421 (1114)
222 KOG0355 DNA topoisomerase type 43.4 24 0.00053 44.2 4.1 49 977-1036 53-102 (842)
223 COG3887 Predicted signaling pr 42.7 4.9E+02 0.011 32.1 14.3 39 746-787 72-110 (655)
224 PF08348 PAS_6: YheO-like PAS 39.0 67 0.0015 31.0 5.6 44 801-846 68-111 (118)
225 PF13192 Thioredoxin_3: Thiore 38.8 35 0.00076 29.8 3.4 25 447-471 52-76 (76)
226 PRK04158 transcriptional repre 36.3 6.2E+02 0.014 27.9 13.0 48 347-399 111-158 (256)
227 PF02743 Cache_1: Cache domain 34.2 23 0.00051 31.1 1.6 58 706-777 10-68 (81)
228 KOG0387 Transcription-coupled 27.5 33 0.00072 42.9 1.8 16 244-261 614-629 (923)
229 KOG0020 Endoplasmic reticulum 25.9 87 0.0019 36.9 4.6 18 1019-1036 141-158 (785)
230 COG0813 DeoD Purine-nucleoside 25.5 67 0.0015 34.2 3.3 53 969-1033 17-69 (236)
231 COG3275 LytS Putative regulato 24.1 2.2E+02 0.0047 34.1 7.3 119 233-397 225-348 (557)
232 KOG0019 Molecular chaperone (H 24.1 68 0.0015 39.0 3.4 74 980-1062 60-162 (656)
233 COG5388 Uncharacterized protei 23.2 2.1E+02 0.0046 29.8 6.2 104 622-733 52-158 (209)
234 PF05651 Diacid_rec: Putative 21.5 8E+02 0.017 24.2 13.6 87 232-369 3-89 (135)
235 PF12282 H_kinase_N: Signal tr 21.3 5.5E+02 0.012 25.6 8.9 111 611-739 18-132 (145)
No 1
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=100.00 E-value=8.4e-149 Score=1250.46 Aligned_cols=721 Identities=27% Similarity=0.456 Sum_probs=624.7
Q ss_pred hhhHHHH-HhhccCCCCCCccceEEEEeCCCceEEEEecChhhhhCCCCcccccccccccCCccccccCCchHHHHHHHH
Q 001353 77 EEQITAY-LSKIQRGGLIQPFGCMLAVEEPTFRIIGYSENCLEMLDLRSRSEDFELNGLIGIDARTLFTPPSGASLAKAA 155 (1093)
Q Consensus 77 ~~~~~~~-~~~i~~~g~iQp~G~Ll~~~~~~~~i~~~S~N~~~~lg~~~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~ 155 (1093)
...++.| .+|||+||+||||||||++|+.++.|+|+|+||..+||+.| +.++|+++.++|+.+....++.++
T Consensus 9 ~v~l~nce~ePIHipG~IQPHG~Llvl~~~~~~Vlq~S~N~~~~LG~~~-------e~l~~~tl~~vl~~~qv~~l~~~l 81 (750)
T COG4251 9 HVTLTNCEREPIHIPGAIQPHGALLVLDEADLMVLQASENCANILGREP-------EDLLGRTLGAVLTSEQVPPLQSAL 81 (750)
T ss_pred cCcccccccCCccCCCccCCceeEEEeecCCchhhhhhhhHHHHhCCCh-------hhhhcCCHHHhcchhhccHHHHhc
Confidence 4567889 99999999999999999999999999999999999999988 689999999999999999999999
Q ss_pred hcccccccCceeecccCCCCCccEEEEEeeeCCEEEEEeccCCCCCccchhhhhhHHHHHHHHHHHHhhcCCCCCHHHHH
Q 001353 156 ASREISLLNPILVHSNSRSIEKPFYAILHRIDVGIVIDLEPSKSGDPALSLAGAVQSQKLAVSAISRLQALPGGDIGLLC 235 (1093)
Q Consensus 156 ~~~~~~~~~~~~~~~~~~~~~~~f~~~~hr~~~~~~ie~Ep~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (1093)
........||..+-. + .+..|++++||+++.+|+||||....+. . ..+..|+++..++.+||+.+ |+.++|
T Consensus 82 ~~~~~~~~np~~~w~--~-~~~~fDv~~HR~~~llIlEfEp~~t~e~-~---~~l~f~h~~k~a~~~lq~a~--~l~~l~ 152 (750)
T COG4251 82 TVGGLTTLNPTKMWT--R-KGGSFDVSAHRSKELLILEFEPAGTGET-A---SFLGFYHLAKLAMNRLQSAA--NLRDLL 152 (750)
T ss_pred cccCcccCCchhhhh--h-cCCceeEEEEecCcEEEEEEecCccccc-c---cccchHHHHHHHHHHHhcCc--cHHHHH
Confidence 988888888854432 1 2338999999999999999999754432 2 23346788888999999954 999999
Q ss_pred HHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecCCCCCccccc-
Q 001353 236 DTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDCHAIPVMVIQ- 314 (1093)
Q Consensus 236 ~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~~~~~~~l~~- 314 (1093)
+.+++|||++|||||||+|||++||+|+||||+++++++||||+||||||||+|||+||.+|++|+|+|+.|+|||+.|
T Consensus 153 ~~~tqeVr~~tGfDRVMlYrF~~d~~G~VIAEak~e~LesyLGl~yPaSDIP~qAR~LY~~N~lRlIpD~~~~~vpv~Pa 232 (750)
T COG4251 153 SRTTQEVRRMTGFDRVMLYRFDEDGSGEVIAEAKREDLESYLGLRYPASDIPQQARALYIQNPLRLIPDVSYTPVPVLPA 232 (750)
T ss_pred HHHHHHHHHhcCCceEEEEeecCCCCccEEeccccccchhhhcccCCcccCCHHHHHHHhcCceeecccccCcccccccc
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -ccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHHHHHHHHHHH
Q 001353 315 -SKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYACEFLVQAFS 393 (1093)
Q Consensus 315 -~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~~~~l~~~~~ 393 (1093)
+|.+++|+|||+|+||||||||++||+||||.||||||||+|| +|||||+|||.+||.+||+.|.+||++||++|
T Consensus 233 vNp~t~~p~DLs~svLRSvSp~H~eYLrNMGV~ASmSISivv~g----~LWGLIACHH~sPk~ip~~vR~acef~gq~~s 308 (750)
T COG4251 233 VNPETNEPLDLSYSVLRSVSPIHLEYLRNMGVGASMSISIVVDG----KLWGLIACHHQSPKVIPYEVRKACEFFGQVLS 308 (750)
T ss_pred cCcccCCcccchHHHHhccChHHHHHHHhcCcceeeEEEEEECC----eeEEeeeeccCCCccCCHHHHHHHHHHHHHHH
Confidence 7999999999999999999999999999999999999999999 99999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH-HHHHHhhccCCC-cccccCCcchhhhccCCEEEEEECCeEEEecCCCCHHHHHHHHH
Q 001353 394 LQLYMELQVAMQLAEKNILRTQ-VLLCDMLLRDAP-FSIVTQSPSIMDLVKCDGAALYYGGRCWLVGVTPTESQLKDIAW 471 (1093)
Q Consensus 394 ~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~~~~~~l~~a~g~al~~~~~~~~~G~~p~~~~~~~l~~ 471 (1093)
.+++.+.+.+..-........+ .++..|...+++ .+++...++|++|+.|||++||.+|++.++|.||+..++..|++
T Consensus 309 ~~i~~~e~~~~~d~r~~l~~~~arl~~~ma~~~~~~d~L~~~~~dll~L~~adGaal~fg~~~~~vG~tP~~~~v~~Ll~ 388 (750)
T COG4251 309 MEISALEQSEDADYRVQLTEHHARLLRYMAHAADFVDGLIDHQDDLLDLMPADGAALCFGGRWHLVGETPPRPAVQRLLQ 388 (750)
T ss_pred HHHHHHhhhhhHHHHHHHHHHHHHHHHHHhhhcchhhhhcCCchhhHhhccCCceEEEECCEEEEecCCCChHHHHHHHH
Confidence 9997654333222222222333 334445445554 67888889999999999999999999999999999999999999
Q ss_pred HHHhccCCCceeeeccccccCCCCccccccccccEEEEeeCC--CcEEEEeecCcCcEEEecCCCCCCcc-CCCCCcccc
Q 001353 472 WLLNNHGDCTGLSTDSLAEAGYPGAALLGQAVCGMATARITS--KDFLFWFRSHTAKEVKWGGAKHHPEH-KDNGGKMHP 548 (1093)
Q Consensus 472 ~l~~~~~~~~~~~t~~l~~~~~p~~~~~~~~~~G~l~~~~~~--~~~l~wfR~e~~~~v~W~G~p~~~~~-~~~~~~l~P 548 (1093)
||.++... .+|+||+|++. ||+++.++..||||||++++. .+||+|||||.+++|+|||+|+|+++ .+++.|++|
T Consensus 389 wl~~~~~~-~vf~TdsL~q~-yPda~~~~~vAsGlLAI~is~~~s~~llWFRpEvv~tV~WGG~P~k~~e~~~~~~rL~P 466 (750)
T COG4251 389 WLAEREEG-DVFATDSLSQV-YPDAEDYASVASGLLAIPISRVKSNYLLWFRPEVVQTVNWGGDPEKPYEAGPMGIRLTP 466 (750)
T ss_pred HHhcCCcc-cEEeecccccc-CcchhhhccccceeEEEEeeccccceEEEEchHHheeeccCCCCCCccccCCCCcccCC
Confidence 99887554 79999999985 999999999999999999997 79999999999999999999999976 445789999
Q ss_pred CchhHHHHHHhhccccccchhhhhhhhHHHHHHHHHHHHhhhhccchhhhccccccchhhhHHHHHHHHHHHHHHHHhcC
Q 001353 549 RSSFKAFLEVVKNRSFPWEVSEINAIHSLQIVMRDSFQEMEEENDSKVQGNTQQNGSKMQGVDELSSVACEMVRLIETAT 628 (1093)
Q Consensus 549 r~SF~~w~e~v~g~s~pW~~~El~aa~sL~liL~~sl~~l~~~~~~~~~~~~~L~~~l~q~~~eL~~~~~~l~~lie~~~ 628 (1093)
|+||+.|+|+|+++|.||+..|++++..|+..|.+...+-. +|+...
T Consensus 467 RkSFe~WkE~vRl~s~PWs~~ei~~A~~LR~aiv~ivl~~a---------------------eela~l------------ 513 (750)
T COG4251 467 RKSFELWKETVRLQSQPWSEVEIEAALELRKAIVGIVLRHA---------------------EELAQL------------ 513 (750)
T ss_pred cccHHHHHHHHhccCCCCCHHHHHHHHHHHHHHHHHHHHHH---------------------HHHHHH------------
Confidence 99999999999999999999999999988544432221110 000000
Q ss_pred ccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcEE
Q 001353 629 APIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSVV 708 (1093)
Q Consensus 629 ~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~ 708 (1093)
T Consensus 514 -------------------------------------------------------------------------------- 513 (750)
T COG4251 514 -------------------------------------------------------------------------------- 513 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred EEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCC
Q 001353 709 YILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWM 788 (1093)
Q Consensus 709 ~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~ 788 (1093)
T Consensus 514 -------------------------------------------------------------------------------- 513 (750)
T COG4251 514 -------------------------------------------------------------------------------- 513 (750)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHH
Q 001353 789 RHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAY 868 (1093)
Q Consensus 789 ~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~ 868 (1093)
.+..++.+....+|...
T Consensus 514 ---------------------------------------------------------------~r~lersn~el~~f~yv 530 (750)
T COG4251 514 ---------------------------------------------------------------RRELERSNAELRAFAYV 530 (750)
T ss_pred ---------------------------------------------------------------HHHHhhhhHHHHHHHHH
Confidence 00111111123356677
Q ss_pred HHHhhhhHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHHH
Q 001353 869 IRQEVKNPLNGIRFVHKLLESS---SISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAVV 944 (1093)
Q Consensus 869 isHELrnPLt~I~g~~~LL~~~---~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v~ 944 (1093)
++|++++||..|.++.++|... .++++.++++..+......|..||++ +.++++.....+ ..+.|+..+++.++
T Consensus 531 ~sHdlqePl~~I~~~a~lL~~~~~~~~d~~~~~~i~~~~~~~~~~~~lidd~l~~s~l~~~~~~--l~~td~~~vv~~vl 608 (750)
T COG4251 531 ASHDLQEPLRQISNYAQLLSERYSDALDEEAKEFITFISRLTSLMQQLIDDLLTYSKLGLTEAP--LQPTDVQKVVDKVL 608 (750)
T ss_pred hhhhhhHHHHHHHHHHHhhhhccccccChHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccCC--CCCcchHHHHHHHH
Confidence 8999999999999999999864 67888999999999999999999999 699998655444 45889999999999
Q ss_pred HHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEE
Q 001353 945 SQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRL 1024 (1093)
Q Consensus 945 ~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V 1024 (1093)
..+.......++.+.+.. +| .+.+|+.++.||+.||+.||+||..+...+|+|+.....+ .++|.|
T Consensus 609 ~~l~~ri~dtgaei~i~~---lp--~v~~d~~~l~qv~~NLi~Naik~~~~e~~~i~I~~~r~ed---------~~t~sV 674 (750)
T COG4251 609 LELSQRIADTGAEIRIAP---LP--VVAADATQLGQVFQNLIANAIKFGGPENPDIEISAERQED---------EWTFSV 674 (750)
T ss_pred HhcccccccccceEEecc---cc--eeecCHHHHHHHHHHHHhhheecCCCCCCceEEeeeccCC---------ceEEEe
Confidence 999998888887777654 55 4899999999999999999999987745899999877777 899999
Q ss_pred ecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCCccC
Q 001353 1025 THPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTRGRQ 1091 (1093)
Q Consensus 1025 ~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~~~~ 1091 (1093)
.|||.||+++..++||..|.+ ...|+|+||+|||+|++.|+|+|+++|.+|. +||.+++|.-.+++.
T Consensus 675 ~dng~Gi~~a~~~riF~iFqRl~s~~~y~gtG~GL~I~kkI~e~H~G~i~vEs~~gEgsTF~f~lp~~~~e~~ 747 (750)
T COG4251 675 RDNGIGIDPAYFERIFVIFQRLHSRDEYLGTGLGLAICKKIAERHQGRIWVESTPGEGSTFYFTLPVGGEEPG 747 (750)
T ss_pred cCCCCCcCHHHHHHHHHHHHhcCchhhhcCCCccHHHHHHHHHHhCceEEEeecCCCceeEEEEeecCCcCcc
Confidence 999999999999999999977 6779999999999999999999999999885 999999998766544
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=2.4e-50 Score=486.26 Aligned_cols=446 Identities=12% Similarity=0.069 Sum_probs=349.1
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLR 697 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~ 697 (1093)
+.|+.++++++++++++|.+|+++++|+++++++|+++++++|++.. .+.++.........+...+..+.....++.
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 56899999999999999999999999999999999999999999866 555554444444444444444444333332
Q ss_pred EeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeec
Q 001353 698 KFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEW 777 (1093)
Q Consensus 698 ~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~ 777 (1093)
..+++|..+|+.....|+++.+|.+.+++++++|||++|++++++++++..++.++++.+. ++|++|.+|+++++
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 2467899999999999999999999999999999999999999999999999999999998 89999999999999
Q ss_pred hhhhHHHhCCCcchhccc-------------------cCCCccceeeEEEccCCc-EEEEEEEEeEeecCCCcE------
Q 001353 778 NAAMEKVTGWMRHEVIGI-------------------TGQGTENFPFGFFNRQGQ-FVEVALTASRRTDAEGKV------ 831 (1093)
Q Consensus 778 N~a~~~l~G~~~eEliG~-------------------~~~~~~~~e~~~~~kdG~-~~~v~~~~~~i~d~~G~v------ 831 (1093)
|+++++++|+...+..+. ........+..+...+|. .+|+.....++.+..|.+
T Consensus 156 N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (494)
T TIGR02938 156 NQEYKKLATDLRVKEPAHTVLDLLREAWREALAENWPQQLAFSNREARFDRGGGRPARWLSCTGSVIGMESDCADSFFCA 235 (494)
T ss_pred chhHHHhhchhhhhHHHHHHHHHhhHHhhhhhhhcchhhhccccceeeeccCCCceeeEEEecCceEEeecchhhheecc
Confidence 999999999887765540 001112223444455555 789998888887766654
Q ss_pred ---EEEEEEEeecccCcHHHHHHHhHHHH-------HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHH
Q 001353 832 ---IGCFCFMQILVPDLQPALEAQGLEDM-------DIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLE 901 (1093)
Q Consensus 832 ---~g~i~~~~DITe~k~~e~elq~~~e~-------~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~ 901 (1093)
.+++++++|||++++++++++..+.+ ......+++..++|++||||++|.++++++..............
T Consensus 236 ~~~~~~~~~~~DITe~k~~ee~l~~~al~~~~~~~~~~~~l~~~~~~~~h~lr~pL~~i~~~~~~l~~~~~~~~~~~~~~ 315 (494)
T TIGR02938 236 AEQPYLLLTIADISNLREEQERARLSALQALMAEEERLEAIRETLSAAIHRLQGPMNLISAAISVLQRRGDDAGNPASAA 315 (494)
T ss_pred CCCchheehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcHHHHHHHHHHHHHhccccccCHHHHH
Confidence 34566889999999888765543222 11223456788889999999999999999986433222223333
Q ss_pred HHHHHHHHHHHHHhcc-cccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHH
Q 001353 902 TSDACERQIMTIIDGM-DLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQL 980 (1093)
Q Consensus 902 ~i~~~~~rl~~lI~dL-dlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~q 980 (1093)
.+.....++..++..+ ++. .........++|+..++++++..+...+..+++.+.++.+..+| .+.+|+.+|+|
T Consensus 316 ~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~~~dl~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~--~v~~d~~~l~~ 390 (494)
T TIGR02938 316 MLQQALSAGREHMEALRQVI---PQSPQEIVVPVNLNQILRDVITLSTPRLLAAGIVVDWQPAATLP--AILGRELQLRS 390 (494)
T ss_pred HHHHHHHHHHHHHHHHHHhh---ccCcccccccccHHHHHHHHHHHhHHHHHhCCCEEEEecCCCCC--eeecCHHHHHH
Confidence 3333344444444442 222 11233446789999999999999998888899999999888776 48899999999
Q ss_pred HHHHHHHHHHHcCCCCC---CeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-C---CCCccch
Q 001353 981 VLSDFLHCVVRHAPSPD---GWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W---TTPEGLG 1053 (1093)
Q Consensus 981 Vl~nLl~NAik~t~~~~---g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~---~~GtGLG 1053 (1093)
||.||+.||+||++..+ +.|.|.+...++ .+.|+|.|||+|||++.+.+||+|||+ + .+|+|||
T Consensus 391 vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~---------~~~~~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~G~GlG 461 (494)
T TIGR02938 391 LFKALVDNAIEAMNIKGWKRRELSITTALNGD---------LIVVSILDSGPGIPQDLRYKVFEPFFTTKGGSRKHIGMG 461 (494)
T ss_pred HHHHHHHHHHHHhhccCCCcceEEEEEEecCC---------EEEEEEEeCCCCCCHHHHHHhcCCCcccCCCCCCCCccc
Confidence 99999999999987621 357777766666 899999999999999999999999998 2 3699999
Q ss_pred HHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEee
Q 001353 1054 LKLSRKLLIMMNGRVRYVRENSK-CYFVIDLEL 1085 (1093)
Q Consensus 1054 L~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPl 1085 (1093)
|+|||.+|+.|||+|+++|++|+ |+|+|+||+
T Consensus 462 L~i~~~iv~~~gG~i~~~s~~~~G~~f~i~lp~ 494 (494)
T TIGR02938 462 LSVAQEIVADHGGIIDLDDDYSEGCRIIVEFRV 494 (494)
T ss_pred HHHHHHHHHHcCCEEEEEECCCCCEEEEEEecC
Confidence 99999999999999999999985 999999996
No 3
>PRK13560 hypothetical protein; Provisional
Probab=100.00 E-value=1e-46 Score=483.27 Aligned_cols=442 Identities=15% Similarity=0.184 Sum_probs=354.2
Q ss_pred hhhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcC
Q 001353 607 MQGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLG 686 (1093)
Q Consensus 607 ~q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g 686 (1093)
++++++|++++++|+.+++++|++++++|.+|+|+++|+++++++||+.++++|+++. ++.++...+.+.......+..
T Consensus 193 k~ae~~l~~~~~~l~~l~e~~~~~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~-~~~~~~~~~~~~~~~~~~~~~ 271 (807)
T PRK13560 193 KRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIH-DFAPAQPADDYQEADAAKFDA 271 (807)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCeEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcch-hcCCcchhHHHHHHHHHHhcc
Confidence 4456778899999999999999999999999999999999999999999999999998 887776666555555555544
Q ss_pred CCCceEEEEEEEeeeccCCcEEEEE--EEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCc
Q 001353 687 EEDKNVELKLRKFELQKQHSVVYIL--VNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPP 764 (1093)
Q Consensus 687 ~~~~~~e~~l~~~~~~kdG~~~~v~--v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~ 764 (1093)
+....++..+ .+++|..+|+. ++..|..|.+|.+.|++++++|||++|++|++|++++++|+.++++++. +
T Consensus 272 ~~~~~~e~~~----~~~dG~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se~~l~~l~~~~~~---~ 344 (807)
T PRK13560 272 DGSQIIEAEF----QNKDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDMLRAIIEAAPI---A 344 (807)
T ss_pred CCceEEEEEE----EcCCCCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHHHHHHHHHHhCcc---c
Confidence 4443444433 57899999655 4556778999999999999999999999999999999999999999998 8
Q ss_pred eEEecCCCcEeec-hhhhHHHhCCCcchhcccc-----------------------------------------------
Q 001353 765 IFASDENACCSEW-NAAMEKVTGWMRHEVIGIT----------------------------------------------- 796 (1093)
Q Consensus 765 I~~~D~~g~i~~~-N~a~~~l~G~~~eEliG~~----------------------------------------------- 796 (1093)
||.+|.+|+++++ |+++++++||+.++++|..
T Consensus 345 i~~~d~~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 424 (807)
T PRK13560 345 AIGLDADGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACPMAKTIKGGKIFDGQ 424 (807)
T ss_pred EEEEcCCCCEEEecCHHHHHHhCCCHHHHcCCCccccChhhhhhhhhchhhhcCCcCCcchhhhhhHHHHHhcCCcccCc
Confidence 9999999999987 6778889999876654300
Q ss_pred --------------------------------------------------------------------------------
Q 001353 797 -------------------------------------------------------------------------------- 796 (1093)
Q Consensus 797 -------------------------------------------------------------------------------- 796 (1093)
T Consensus 425 e~~~~~~~g~~~~~~~~~~p~~d~~g~~~~~~~~~~DITerk~~E~~L~~~~~~~e~~~~~i~~~~~~~~~~~~~~~~~~ 504 (807)
T PRK13560 425 EVLIEREDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQLLLANLIVENSPLVLFRWKAEEGWPVELVSKNI 504 (807)
T ss_pred eEEEEcCCCCeEEEEEEEeeeECCCCCEEEEEEEeehhhhHHHHHHHHHHHHHHHhcCCceEEEEecCCCceEEEecchh
Confidence
Q ss_pred ---------------------------------------CCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEE
Q 001353 797 ---------------------------------------GQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCF 837 (1093)
Q Consensus 797 ---------------------------------------~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~ 837 (1093)
+......++++.+++|+.+|+.....+++|.+|.+.+++++
T Consensus 505 ~~~G~~~~e~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~g~~~~~~e~r~~~~dG~~~w~~~~~~~~~d~~G~~~~~~g~ 584 (807)
T PRK13560 505 TQFGYEPDEFISGKRMFAAIIHPADLEQVAAEVAEFAAQGVDRFEQEYRILGKGGAVCWIDDQSAAERDEEGQISHFEGI 584 (807)
T ss_pred hhcCCCHHHhhcccchHhhhcChhhHHHHHHHHHHHHhcCCccceeEEEEEcCCCCEEEEEecceeeeCCCCCEEEEEEE
Confidence 00011234566788999999999999999999999999999
Q ss_pred EeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcc
Q 001353 838 MQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGM 917 (1093)
Q Consensus 838 ~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dL 917 (1093)
++|||++|++|.++++. ...+.+|++.|+|||||||++|.++++++.....+++...++..+......+..+++.+
T Consensus 585 ~~DITerK~aE~~L~~a----~~~~~~~l~~isHelrnpL~~I~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 660 (807)
T PRK13560 585 VIDISERKHAEEKIKAA----LTEKEVLLKEIHHRVKNNLQIISSLLDLQAEKLHDEEAKCAFAESQDRICAMALAHEKL 660 (807)
T ss_pred EechHHHHHHHHHHHHH----HHHHHHHHHHhHHHHhChHHHHHHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999988765543 34577899999999999999999999999887777777777777766666666666554
Q ss_pred cccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCC-
Q 001353 918 DLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSP- 996 (1093)
Q Consensus 918 dlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~- 996 (1093)
.. ......+++.++++.++..+...+......+.+.++.+.+. ....+...+.|||.||++||+||+++.
T Consensus 661 ~~--------~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~il~NLl~NAik~~~~~~ 731 (807)
T PRK13560 661 YQ--------SEDLADIDFLDYIESLTAHLKNSFAIDFGRIDCKIDADDGC-LDIDKAIPCGLIISELLSNALKHAFPDG 731 (807)
T ss_pred hc--------cccchhccHHHHHHHHHHHHHHHhccccCceEEEEecCccc-cccccccchHHHHHHHHHHHHHhhccCC
Confidence 11 12346789999999999998887766655555555544222 233456778999999999999998542
Q ss_pred -CCeEEEEEEeC-CccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeC
Q 001353 997 -DGWVEIKVLPG-LKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVREN 1074 (1093)
Q Consensus 997 -~g~I~I~v~~~-~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~ 1074 (1093)
.|.|+|++... ++ .+.|+|+|||+|||++.. ...++||||+|||+||+.|||+|+|+|.
T Consensus 732 ~~~~i~i~~~~~~~~---------~v~i~V~D~G~GI~~~~~---------~~~~~gLGLai~~~iv~~~gG~I~v~S~- 792 (807)
T PRK13560 732 AAGNIKVEIREQGDG---------MVNLCVADDGIGLPAGFD---------FRAAETLGLQLVCALVKQLDGEIALDSR- 792 (807)
T ss_pred CCceEEEEEEEcCCC---------EEEEEEEeCCCcCCcccc---------ccccCCccHHHHHHHHHHcCCEEEEEcC-
Confidence 36888887766 44 899999999999999742 2356789999999999999999999996
Q ss_pred CeeEEEEEEeecCC
Q 001353 1075 SKCYFVIDLELKTR 1088 (1093)
Q Consensus 1075 ggt~F~v~LPlp~~ 1088 (1093)
+||+|+|+||+..+
T Consensus 793 ~Gt~F~i~lP~~~~ 806 (807)
T PRK13560 793 GGARFNIRFPMSPA 806 (807)
T ss_pred CceEEEEEecCCCC
Confidence 57999999998653
No 4
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=100.00 E-value=9.3e-45 Score=462.68 Aligned_cols=358 Identities=19% Similarity=0.271 Sum_probs=320.2
Q ss_pred chhhhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHH
Q 001353 605 SKMQGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRAL 684 (1093)
Q Consensus 605 ~l~q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l 684 (1093)
.+++..++|++.+++++.+++++|++|+++|.+|+|++||+++++++|++.++++|+++. ++++++....+.......+
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 344567888999999999999999999999999999999999999999999999999998 8888877777766677777
Q ss_pred cCCCCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCc
Q 001353 685 LGEEDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPP 764 (1093)
Q Consensus 685 ~g~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~ 764 (1093)
.++.....+..+ ..++|..+|+.++..|+++.+|.+.|++++++|||++|++++++++.+
T Consensus 221 ~~~~~~~~e~~~----~~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~l~~a~---------------- 280 (779)
T PRK11091 221 RHNVSLTYEQWL----DYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDALEKAS---------------- 280 (779)
T ss_pred hcCCCeEEEEEE----EcCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHHHHHHHHH----------------
Confidence 666654444443 467999999999999999999999999999999999999887754321
Q ss_pred eEEecCCCcEeechhhhHHHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccC
Q 001353 765 IFASDENACCSEWNAAMEKVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPD 844 (1093)
Q Consensus 765 I~~~D~~g~i~~~N~a~~~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~ 844 (1093)
T Consensus 281 -------------------------------------------------------------------------------- 280 (779)
T PRK11091 281 -------------------------------------------------------------------------------- 280 (779)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccc
Q 001353 845 LQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIE 923 (1093)
Q Consensus 845 k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie 923 (1093)
+.+.+|++.++|||||||++|.|+.+++.+...+++++++++.+..++.++..++++ +++++++
T Consensus 281 ---------------~~~~~~~a~isHelrtPL~~I~g~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~~ 345 (779)
T PRK11091 281 ---------------RDKTTFISTISHELRTPLNGIVGLSRILLDTELTAEQRKYLKTIHVSAITLGNIFNDIIDMDKME 345 (779)
T ss_pred ---------------HHHHHHHHHhhHhhcCcHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHh
Confidence 235689999999999999999999999998888899999999999999999999999 6999999
Q ss_pred cCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEE
Q 001353 924 EGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIK 1003 (1093)
Q Consensus 924 ~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~ 1003 (1093)
.+...+.+.++++.++++++...+......+++.+.++.++++|. .+.+|+.+|.|||.||+.||+||++. |.|.|+
T Consensus 346 ~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~v~~d~~~l~qvl~NLl~NAik~~~~--g~v~i~ 422 (779)
T PRK11091 346 RRKLQLDNQPIDFTDFLADLENLSGLQAEQKGLRFDLEPLLPLPH-KVITDGTRLRQILWNLISNAVKFTQQ--GGVTVR 422 (779)
T ss_pred CCCcEEEeeccCHHHHHHHHHHHHHHHHHhcCCEEEEEeCCCCCc-eEEeCHHHHHHHHHHHHHHHHHhCCC--CcEEEE
Confidence 999999999999999999999999999999999999999888764 68999999999999999999999975 788888
Q ss_pred EEeC-CccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-C-------CCCccchHHHHHHHHHHcCCEEEEEeeC
Q 001353 1004 VLPG-LKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W-------TTPEGLGLKLSRKLLIMMNGRVRYVREN 1074 (1093)
Q Consensus 1004 v~~~-~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~-------~~GtGLGL~ivr~ive~hgG~I~v~S~~ 1074 (1093)
+... ++ .+.|+|.|||+|||++.+++||+|||+ + .+|+||||+|||++++.|||+|+++|.+
T Consensus 423 ~~~~~~~---------~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL~i~~~iv~~~gG~i~v~s~~ 493 (779)
T PRK11091 423 VRYEEGD---------MLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLAVSKRLAQAMGGDITVTSEE 493 (779)
T ss_pred EEEccCC---------EEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHHHHHHHHHHHcCCEEEEEecC
Confidence 8776 44 799999999999999999999999998 3 5799999999999999999999999998
Q ss_pred Ce-eEEEEEEeecCCcc
Q 001353 1075 SK-CYFVIDLELKTRGR 1090 (1093)
Q Consensus 1075 gg-t~F~v~LPlp~~~~ 1090 (1093)
|+ |+|+|+||+|..+.
T Consensus 494 g~Gt~f~i~lP~~~~~~ 510 (779)
T PRK11091 494 GKGSCFTLTIHAPAVAE 510 (779)
T ss_pred CCeEEEEEEEecccccc
Confidence 84 99999999987643
No 5
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=2.9e-45 Score=387.60 Aligned_cols=341 Identities=17% Similarity=0.333 Sum_probs=286.3
Q ss_pred hhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCC
Q 001353 608 QGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGE 687 (1093)
Q Consensus 608 q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~ 687 (1093)
.+++.++...+++.+++..+.|||+..|..|+|+.+|..+.+++|.+.++++|+++. +++.-++.-.+...+.. .
T Consensus 101 ~aq~n~e~Er~kL~SvlayMtDGViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~-elL~i~d~y~~~dL~e~----~ 175 (459)
T COG5002 101 EAQANTEQERRKLDSVLAYMTDGVIATDRRGKIILINKPALKMLGVSKEDALGRSIL-ELLKIEDTYTFEDLVEK----N 175 (459)
T ss_pred HHHHhHHHHHHHHHHHHHHHcCceEeecCCCcEEEeccHHHHHhCcCHHHHhcccHH-HHhCCccceeHHHHHhc----C
Confidence 344667777889999999999999999999999999999999999999999999998 67665554444433322 1
Q ss_pred CCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEE
Q 001353 688 EDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFA 767 (1093)
Q Consensus 688 ~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~ 767 (1093)
. ++.+.. +..++...+.++...++-+.|-+.|++++..|+||+.+.|++
T Consensus 176 ~----s~lld~---~~~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEqek~e~E------------------------ 224 (459)
T COG5002 176 D----SLLLDS---SDEEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQEKVERE------------------------ 224 (459)
T ss_pred C----cEEEee---cCCCccEEEEEEEEEEeecccccceeEEEEecccHHHHHHHH------------------------
Confidence 1 333322 124666666777777766667776666666666666554433
Q ss_pred ecCCCcEeechhhhHHHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHH
Q 001353 768 SDENACCSEWNAAMEKVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQP 847 (1093)
Q Consensus 768 ~D~~g~i~~~N~a~~~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~ 847 (1093)
T Consensus 225 -------------------------------------------------------------------------------- 224 (459)
T COG5002 225 -------------------------------------------------------------------------------- 224 (459)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHH--HHHHHHHHHHHHHHHHHHHhc-cccccccc
Q 001353 848 ALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISEN--QRQYLETSDACERQIMTIIDG-MDLRCIEE 924 (1093)
Q Consensus 848 e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~--~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~ 924 (1093)
+.+|++++|||+||||+++.++++.|+.....+. ..+++.......+||.++++| |.++|+..
T Consensus 225 --------------rRefvanvSHElRTPltsmksyLEALe~ga~~d~eiAp~Fl~vt~~ETeRMiRlV~DLl~lsr~d~ 290 (459)
T COG5002 225 --------------RREFVANVSHELRTPLTSMKSYLEALEEGAWEDKEIAPRFLRVTLNETERMIRLVNDLLQLSRMDN 290 (459)
T ss_pred --------------HHHHHHhcchhhcCchHHHHHHHHHHhcCCccChhhhhHHHHHhHHHHHHHHHHHHHHHHHccCcc
Confidence 5689999999999999999999999998765554 678999999999999999999 69999999
Q ss_pred CccccceeeeeHHHHHHHHHHHHHHHhccCCeE-EEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEE
Q 001353 925 GNMELKSEEFLLGNILDAVVSQVMVLLRDKNLH-LLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIK 1003 (1093)
Q Consensus 925 g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~-l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~ 1003 (1093)
....++.+.+++...+..++..+...+....+. +..+++.. +.++..|+..+.||+.|+++||+||+|. ||.|++.
T Consensus 291 ~~~qln~e~inft~fl~~ii~R~e~~~~~e~~~~~vR~~p~~--~~~veiD~DK~tQVldNii~NA~KYsP~-Gg~Itv~ 367 (459)
T COG5002 291 ARYQLNKEWINFTAFLNEIINRFEMILKKETIARFVRDIPKQ--DIWVEIDPDKMTQVLDNIISNALKYSPD-GGRITVS 367 (459)
T ss_pred hhhhhhHHHHHhHHHHHHHHHHHHHHHhhHHHHHHHhcCCCC--ceEEEeChhHHHHHHHHHHHHHhhcCCC-CCeEEEE
Confidence 999999999999999999999988875555443 66667765 4799999999999999999999999999 9999999
Q ss_pred EEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCCe
Q 001353 1004 VLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK 1076 (1093)
Q Consensus 1004 v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg 1076 (1093)
+....+ ++.++|+|.|.|||.+.+++||++||+ +.+||||||+|+|.||+.|||+||.+|+.|+
T Consensus 368 ~~~~~~---------~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkARsR~~gGTGLGLaIakeiV~~hgG~iWA~s~~gk 438 (459)
T COG5002 368 VKQRET---------WVEISISDQGLGIPKEDLEKIFDRFYRVDKARSRKMGGTGLGLAIAKEIVQAHGGRIWAESEEGK 438 (459)
T ss_pred EeeeCc---------EEEEEEccCCCCCCchhHHHHHHHHhhhhhhhhhcCCCCchhHHHHHHHHHHhCCeEEEecccCC
Confidence 999888 999999999999999999999999998 6789999999999999999999999999885
Q ss_pred -eEEEEEEeecCCcc
Q 001353 1077 -CYFVIDLELKTRGR 1090 (1093)
Q Consensus 1077 -t~F~v~LPlp~~~~ 1090 (1093)
|+|+|+||......
T Consensus 439 gtt~~ftLPy~~~~~ 453 (459)
T COG5002 439 GTTFSFTLPYSGEAG 453 (459)
T ss_pred ceEEEEEecccCccc
Confidence 99999999876543
No 6
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=100.00 E-value=2e-37 Score=368.49 Aligned_cols=325 Identities=15% Similarity=0.167 Sum_probs=267.2
Q ss_pred EEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcccc------C-----
Q 001353 729 FVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIGIT------G----- 797 (1093)
Q Consensus 729 ~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG~~------~----- 797 (1093)
.+.+++++.++.++++++.+++|+.+++++++ +|+++|.+|+|+++|+++++++||+.+++.|.. .
T Consensus 78 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~---~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~~~~ 154 (430)
T PRK11006 78 GLYQMQLRNRKRRRELGNLIKRFRSGAESLPD---AVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPEFTQ 154 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC---eEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHHHHH
Confidence 34478889999999999999999999999998 899999999999999999999999999988811 0
Q ss_pred ---CCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhh
Q 001353 798 ---QGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVK 874 (1093)
Q Consensus 798 ---~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELr 874 (1093)
.........+...+|+.+ .++..+..+ + +++.+++|+|++++.+. .+.+|++.++||||
T Consensus 155 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~--~---~~~~~~~dit~~~~~e~-----------~~~~~~~~isHelr 216 (430)
T PRK11006 155 YLKTRDFSRPLTLVLNNGRHL--EIRVMPYTE--G---QLLMVARDVTQMHQLEG-----------ARRNFFANVSHELR 216 (430)
T ss_pred HHHhcccCCCeEEEcCCCCEE--EEEEEEcCC--C---cEEEEEehhhHHHHHHH-----------HHHHHHHHhHHHhc
Confidence 011122333445566544 444445432 2 25678899998654432 35579999999999
Q ss_pred hHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHHHHHHHHHhc
Q 001353 875 NPLNGIRFVHKLLESSSI-SENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLR 952 (1093)
Q Consensus 875 nPLt~I~g~~~LL~~~~l-~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~ 952 (1093)
|||++|.++++++..... .+...++++.+.+.+++|..++++ +++++++.+........+++..+++.+........
T Consensus 217 tPL~~i~~~~~~l~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~r~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~- 295 (430)
T PRK11006 217 TPLTVLQGYLEMMQDQPLEGALREKALHTMREQTQRMEGLVKQLLTLSKIEAAPTIDLNEKVDVPMMLRVLEREAQTLS- 295 (430)
T ss_pred chHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccCCccCHHHHHHHHHHHHHHHh-
Confidence 999999999999986543 455677899999999999999999 69999988776666788999999988877766554
Q ss_pred cCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCC
Q 001353 953 DKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIP 1032 (1093)
Q Consensus 953 ~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp 1032 (1093)
.+++.+.++++++ ..+.+|+.+|.|++.||+.||+||+++ ++.|.|++...++ .+.|+|.|||+|||
T Consensus 296 ~~~~~i~~~~~~~---~~i~~d~~~l~~vl~NLl~NAik~~~~-~~~I~i~~~~~~~---------~~~i~V~D~G~Gi~ 362 (430)
T PRK11006 296 QGKHTITFEVDNS---LKVFGNEDQLRSAISNLVYNAVNHTPE-GTHITVRWQRVPQ---------GAEFSVEDNGPGIA 362 (430)
T ss_pred cCCcEEEEecCCC---ceEEECHHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEEcCC---------EEEEEEEEcCCCCC
Confidence 5667888888776 358899999999999999999999987 7889999887777 89999999999999
Q ss_pred hhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCC
Q 001353 1033 SHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTR 1088 (1093)
Q Consensus 1033 ~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~ 1088 (1093)
++.+++||+|||+ +.+|+||||+|||++++.|||+|+++|.+| ||+|+|+||....
T Consensus 363 ~~~~~~if~~f~~~~~~~~~~~~G~GLGL~ivk~iv~~~gG~i~i~s~~~~Gt~f~i~lP~~~~ 426 (430)
T PRK11006 363 PEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALSHHDSRLEIESEVGKGTRFSFVLPERLI 426 (430)
T ss_pred HHHHHHhccCcccccCCCCCCCCCCchHHHHHHHHHHHCCCEEEEEecCCCceEEEEEechHhh
Confidence 9999999999986 235999999999999999999999999987 5999999997654
No 7
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=100.00 E-value=2.3e-37 Score=324.36 Aligned_cols=320 Identities=18% Similarity=0.255 Sum_probs=258.2
Q ss_pred HHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc---------------------ccCCCccceeeEEEccC
Q 001353 753 AIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG---------------------ITGQGTENFPFGFFNRQ 811 (1093)
Q Consensus 753 ~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG---------------------~~~~~~~~~e~~~~~kd 811 (1093)
.+++++.. ++.+.|.+|.|.|+|++++.+||.+...+.+ ..+.....++..+. .+
T Consensus 11 ~~Ln~~~~---pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~gs~ll~ll~q~~~~~~~~~~~~v~l~-~~ 86 (363)
T COG3852 11 AILNNLIN---PVLLVDDELAIHYANPAAEQLLAVSARRLAGTRLSELLPFGSLLLSLLDQVLERGQPVTEYEVTLV-IL 86 (363)
T ss_pred hHHhccCC---ceEEEcCCCcEEecCHHHHHHHHHHHHHHhcCChHHHcCCCcHHHHHHHHHHHhcCCcccceeeee-ec
Confidence 45666665 8999999999999999999999888776666 34455555666666 89
Q ss_pred CcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Q 001353 812 GQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSS 891 (1093)
Q Consensus 812 G~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~ 891 (1093)
|....+.+++.|+....|.+. ..++-+....+-..++ ......++-..+.++++|||||||++|.|.++||+...
T Consensus 87 g~~~~v~~~v~~v~~~~G~vl---le~~~~~~~~ridre~--~q~a~~~a~~~L~r~LAHEIKNPL~GiRGAAQLLe~~l 161 (363)
T COG3852 87 GRSHIVDLTVAPVPEEPGSVL---LEFHPRDMQRRLDREQ--TQHAQQRAVKGLVRGLAHEIKNPLGGIRGAAQLLERAL 161 (363)
T ss_pred CccceEEEEEeeccCCCCeEE---EEechhHHHhHhhHHH--HHHHHHHHHHHHHHHHHHHhcCcccchhhHHHHHHhhC
Confidence 999999999999988777664 3333333322222111 11122224456788999999999999999999999977
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEE
Q 001353 892 ISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSL 971 (1093)
Q Consensus 892 l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v 971 (1093)
.++..++|.+.|.+.++|+..+++.|.+.. ........++++..+++.+...+...+ .+++.+..++++.+|+ +
T Consensus 162 pd~~~~~lt~lIieE~DRl~~LVDRme~~~---~~rp~~r~~~NIH~VLerV~~lv~~e~-~~~i~l~rdYDPSLP~--v 235 (363)
T COG3852 162 PDEALRELTQLIIEEADRLRNLVDRLEVLG---PQRPGDRVPVNIHEVLERVRALVEAEF-ADNVRLIRDYDPSLPE--V 235 (363)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHHHHHhcC---CCCCcccccchHHHHHHHHHHHHhccc-CCceEEeecCCCCCcc--c
Confidence 777788999999999999999999964433 244556779999999999999998877 4569999999999997 9
Q ss_pred EecHHHHHHHHHHHHHHHHHcCC---CCCCeEEEEEEeCCc-cccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-C
Q 001353 972 NGDRIRLQLVLSDFLHCVVRHAP---SPDGWVEIKVLPGLK-LIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W 1046 (1093)
Q Consensus 972 ~~D~~~L~qVl~nLl~NAik~t~---~~~g~I~I~v~~~~~-~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~ 1046 (1093)
++|+.+|.|+|.||+.||+++.. ..+|.|.++.+..-. .+.+......+-+.|.|||+|||++.++++|.||.+ +
T Consensus 236 ~~d~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r~rl~l~leViDNGPGVP~~L~~~lF~P~Vs~r 315 (363)
T COG3852 236 LGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTRYRLALPLEVIDNGPGVPPDLQDHLFYPMVSGR 315 (363)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCceeEeeeeeEEecCCCCCChHHhhhccccccccC
Confidence 99999999999999999999853 335899998754433 233444555678889999999999999999999987 8
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEeecC
Q 001353 1047 TTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLELKT 1087 (1093)
Q Consensus 1047 ~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPlp~ 1087 (1093)
.+|+||||++++++|..|||.|+++|.||.|+|+|.+|+-.
T Consensus 316 ~~GsGLGLala~~li~qH~G~Ie~~S~Pg~T~FrvllP~~~ 356 (363)
T COG3852 316 EGGTGLGLALAQNLIDQHGGKIEFDSWPGRTVFRVLLPIRK 356 (363)
T ss_pred CCCccccHHHHHHHHHhcCCEEEEeccCCceEEEEEeeccc
Confidence 89999999999999999999999999999999999999866
No 8
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=100.00 E-value=3.9e-35 Score=338.77 Aligned_cols=337 Identities=16% Similarity=0.236 Sum_probs=262.4
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCC-ceEEEEE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEED-KNVELKL 696 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~-~~~e~~l 696 (1093)
..+..+++++++|++++|.+|+|+++|++++++||++.++++|+++. ++++..... ...+...+..+.. ...++.+
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 776543221 1223333333322 1122222
Q ss_pred EEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEee
Q 001353 697 RKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSE 776 (1093)
Q Consensus 697 ~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~ 776 (1093)
.++|+.+|+.++..|+.+ .+++..++|||++++.++++.+..
T Consensus 84 -----~~~g~~~~~~~~~~~~~~-----~~~~~~~~dit~~~~~~~~~~~~~---------------------------- 125 (348)
T PRK11073 84 -----VIDGRSHILSLTAQRLPE-----GMILLEMAPMDNQRRLSQEQLQHA---------------------------- 125 (348)
T ss_pred -----EECCceEEEEEEEEEccC-----ceeEEEEechhHHHHHHHHHHHHH----------------------------
Confidence 358999999999999872 345667889998887766543211
Q ss_pred chhhhHHHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHH
Q 001353 777 WNAAMEKVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLED 856 (1093)
Q Consensus 777 ~N~a~~~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e 856 (1093)
T Consensus 126 -------------------------------------------------------------------------------- 125 (348)
T PRK11073 126 -------------------------------------------------------------------------------- 125 (348)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeee
Q 001353 857 MDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFL 935 (1093)
Q Consensus 857 ~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~ 935 (1093)
......+|++.++||+||||++|.++++++.+...++..++++..+...++++.+++++ +.+.+.. ....++
T Consensus 126 -~~~~~~~~~~~iaHelr~pL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~lv~~l~~~~~~~------~~~~~~ 198 (348)
T PRK11073 126 -QQVAARDLVRGLAHEIKNPLGGLRGAAQLLSKALPDPALTEYTKVIIEQADRLRNLVDRLLGPQRPG------THVTES 198 (348)
T ss_pred -HHHHHHHHHHhhhHhhcChHHHHHHHHHHhhhcCCChHHHHHHHHHHHHHHHHHHHHHHHhcccCCC------CCcccc
Confidence 01124578899999999999999999999987666677888999999999999999999 4554422 245679
Q ss_pred HHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCcc-ccCC
Q 001353 936 LGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKL-IKDA 1014 (1093)
Q Consensus 936 L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~-~~~~ 1014 (1093)
+..+++.+...+.... .+++.+.++.+++.| .+.+|+..|.||+.||+.||++|+..+++.|.|++...... ....
T Consensus 199 l~~~~~~~~~~~~~~~-~~~i~i~~~~~~~~~--~i~~d~~~l~~vl~nLl~NA~~~~~~~~~~i~i~~~~~~~~~~~~~ 275 (348)
T PRK11073 199 IHKVAERVVQLVSLEL-PDNVRLIRDYDPSLP--ELAHDPDQIEQVLLNIVRNALQALGPEGGTITLRTRTAFQLTLHGE 275 (348)
T ss_pred HHHHHHHHHHHHhhhc-cCCcEEEEecCCCCC--ceeeCHHHHHHHHHHHHHHHHHHhccCCCeEEEEEccccccccCCc
Confidence 9999999888777655 456888888877765 48899999999999999999999843378888876543210 0111
Q ss_pred CceeEEEEEEecCCCCCChhhHhhhccCCCC-CCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEee
Q 001353 1015 DQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLEL 1085 (1093)
Q Consensus 1015 ~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPl 1085 (1093)
.....+.++|.|||+|||++..+++|+|||+ +..|+||||++||++++.|||+|+++|.+|+|+|+|.||+
T Consensus 276 ~~~~~~~i~v~D~G~Gi~~~~~~~iF~~~~~~~~~g~GlGL~i~~~iv~~~gG~i~~~s~~~~~~f~i~lP~ 347 (348)
T PRK11073 276 RYRLAARIDIEDNGPGIPPHLQDTLFYPMVSGREGGTGLGLSIARNLIDQHSGKIEFTSWPGHTEFSVYLPI 347 (348)
T ss_pred cCCceEEEEEEeCCCCCCHHHHhhccCCcccCCCCCccCCHHHHHHHHHHcCCeEEEEecCCceEEEEEEec
Confidence 1122578999999999999999999999987 7789999999999999999999999999989999999996
No 9
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=100.00 E-value=1.4e-35 Score=373.85 Aligned_cols=328 Identities=16% Similarity=0.184 Sum_probs=264.6
Q ss_pred HHHHHHHHHHHHHHHHhcCCCCCceEEec-CCCcEeechhhhHHHhCCCc-chhccccCCCccceeeEEEccCCcEEEEE
Q 001353 741 MDKFIRLQGDYEAIIQSVNPLIPPIFASD-ENACCSEWNAAMEKVTGWMR-HEVIGITGQGTENFPFGFFNRQGQFVEVA 818 (1093)
Q Consensus 741 Ee~L~~se~~lr~i~~~~~~li~~I~~~D-~~g~i~~~N~a~~~l~G~~~-eEliG~~~~~~~~~e~~~~~kdG~~~~v~ 818 (1093)
..++++.+..++.++++++. |+++.| .+|+++.+|+++++++|... ..+..+........ ....+++..++.
T Consensus 335 ~~~L~~~~~l~~~Ii~~lp~---Gilv~D~~~~~Ii~~N~aA~~ll~~~~l~~i~~~~~~~~~~i---~~~i~~~~~eir 408 (894)
T PRK10618 335 SHELRILRALNEEIVSNLPL---GLLVYDFESNRTVISNKIADHLLPHLNLQKITTMAEQHQGVI---QATINNELYEIR 408 (894)
T ss_pred HHHHHHHHHHHHHHHHhCCc---eEEEEECCCCeEEEEhHHHHHHhCccchhhHHHHHHhcchhh---hhhccCceeEEE
Confidence 34678888899999999998 899999 78899999999999998642 22222111000000 011233333332
Q ss_pred EEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHh---HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHH
Q 001353 819 LTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQG---LEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISEN 895 (1093)
Q Consensus 819 ~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~---~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~ 895 (1093)
.... .....+.+.+++|++++...+.++++ ..++...+|.+|++.++|||||||++|.++++++.....+++
T Consensus 409 ~~~~-----~~~~~~~l~~l~d~~~~~~~~~~L~~a~~~le~~~~~k~~fla~iSHELRtPL~aI~g~~elL~~~~~~~~ 483 (894)
T PRK10618 409 MFRS-----QLAPRTQLFLLRDQDREVLVNKKLQQAQREYEKNQQARKAFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQ 483 (894)
T ss_pred Eeec-----cccCceEEEEEeehHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCCCCCHH
Confidence 2221 22234567889999987665555443 345556788899999999999999999999999988777888
Q ss_pred HHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEec
Q 001353 896 QRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGD 974 (1093)
Q Consensus 896 ~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D 974 (1093)
++++++.+..+++++.+++++ +++++++.+...++.+++++.+++++++..+...+..+++.+.++++...+ ..+.+|
T Consensus 484 ~~~~l~~I~~~~~~L~~lI~dILdlsrle~~~~~l~~~~~~L~~ll~~vl~~~~~~a~~k~i~l~~~~~~~~~-~~v~~D 562 (894)
T PRK10618 484 QQPELDQLAEQSDVLVRLVDNIQLLNMLETQDWKPEQELFSLQDLIDEVLPEVLPAIKRKGLQLLIHNHLKAE-QLRIGD 562 (894)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccceeECHHHHHHHHHHHHHHHHHHCCCEEEEEeCCCCC-cEEEec
Confidence 899999999999999999999 699999999999999999999999999999999999999999888765544 478999
Q ss_pred HHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCC------CC
Q 001353 975 RIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQW------TT 1048 (1093)
Q Consensus 975 ~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~------~~ 1048 (1093)
+.+|+||+.||+.||+||++. |.|+|++....+ . ...+.|+|.|+|+|||++.+++||+|||+. .+
T Consensus 563 ~~~L~QVL~NLL~NAik~t~~--G~I~I~v~~~~~--~----~~~l~I~V~DtG~GI~~e~l~~IFePF~t~~~~~~~~~ 634 (894)
T PRK10618 563 RDALRKILLLLLNYAITTTAY--GKITLEVDQDES--S----PDRLTIRILDTGAGVSIKELDNLHFPFLNQTQGDRYGK 634 (894)
T ss_pred HHHHHHHHHHHHHHHHHhCCC--CeEEEEEEEccC--C----CcEEEEEEEECCCCCCHHHHHHhcCccccCCCCCCCCC
Confidence 999999999999999999985 888888876533 0 127999999999999999999999999872 35
Q ss_pred CccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCC
Q 001353 1049 PEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTR 1088 (1093)
Q Consensus 1049 GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~ 1088 (1093)
|+||||+|||++++.|||+|+++|.+|+ |+|+|+||++..
T Consensus 635 GtGLGLaI~k~Lve~~GG~I~v~S~~g~GT~F~I~LPl~~~ 675 (894)
T PRK10618 635 ASGLTFFLCNQLCRKLGGHLTIKSREGLGTRYSIHLKMLAA 675 (894)
T ss_pred CcChhHHHHHHHHHHcCCEEEEEECCCCcEEEEEEEEccCC
Confidence 9999999999999999999999999985 999999998543
No 10
>PRK13557 histidine kinase; Provisional
Probab=100.00 E-value=1.4e-34 Score=353.77 Aligned_cols=353 Identities=15% Similarity=0.128 Sum_probs=279.8
Q ss_pred HHHHHHHHHHHHHhcCccEEEECC---CCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCC
Q 001353 613 LSSVACEMVRLIETATAPIFGVDS---SGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEED 689 (1093)
Q Consensus 613 L~~~~~~l~~lie~~~~~I~~~D~---dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~ 689 (1093)
....+..|+.++++++++|+++|. +|+|+|+|+++++++||+.++++|+++. .+++++........+...+..+..
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 344567899999999999999995 7999999999999999999999999988 777776555555555555544443
Q ss_pred ceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEec
Q 001353 690 KNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASD 769 (1093)
Q Consensus 690 ~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D 769 (1093)
...++. ..+++|+.+|+.+...|+++.+|.+.+++.+.+|||+++++++++...++
T Consensus 104 ~~~~~~----~~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e~~l~~~~~-------------------- 159 (540)
T PRK13557 104 IATEIL----NYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQK-------------------- 159 (540)
T ss_pred ceEEEE----EEeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHHHHHHHHHH--------------------
Confidence 333332 24689999999999999999999999999999999999988877543221
Q ss_pred CCCcEeechhhhHHHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHH
Q 001353 770 ENACCSEWNAAMEKVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPAL 849 (1093)
Q Consensus 770 ~~g~i~~~N~a~~~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~ 849 (1093)
T Consensus 160 -------------------------------------------------------------------------------- 159 (540)
T PRK13557 160 -------------------------------------------------------------------------------- 159 (540)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccc
Q 001353 850 EAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESS-----SISENQRQYLETSDACERQIMTIIDG-MDLRCIE 923 (1093)
Q Consensus 850 elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~-----~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie 923 (1093)
......++..++|++||||+.|.++++++... ...+...+.++.+....+++..++++ +++++.
T Consensus 160 ---------~~~l~~~~~~i~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~li~~l~~~~~~- 229 (540)
T PRK13557 160 ---------MEALGQLTGGIAHDFNNLLQVMSGYLDVIQAALSHPDADRGRMARSVENIRAAAERAATLTQQLLAFARK- 229 (540)
T ss_pred ---------HHHhhhhhhhhhHHhhhHHHHHHhHHHHHHHhhccCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCc-
Confidence 01123567789999999999999999987542 23355667889999999999999999 477663
Q ss_pred cCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEE
Q 001353 924 EGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIK 1003 (1093)
Q Consensus 924 ~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~ 1003 (1093)
..+....+++.+++..+...+.... .+++.+.+..+++++ .+.+|+..|.|+|.||+.||++|++. ++.|.|.
T Consensus 230 ---~~~~~~~~~l~~~i~~~~~~~~~~~-~~~~~i~~~~~~~~~--~~~~d~~~l~~vl~nll~NA~~~~~~-~~~i~i~ 302 (540)
T PRK13557 230 ---QRLEGRVLNLNGLVSGMGELAERTL-GDAVTIETDLAPDLW--NCRIDPTQAEVALLNVLINARDAMPE-GGRVTIR 302 (540)
T ss_pred ---CCCCCcccCHHHHHHHHHHHHHHhc-CCCeEEEEecCCCCC--ceeeCHHHHHHHHHHHHHHHHHhccc-CCeEEEE
Confidence 2345678999999998877765443 466888888777655 48889999999999999999999987 7888887
Q ss_pred EEeCCccccC------CCceeEEEEEEecCCCCCChhhHhhhccCCCC---CCCCccchHHHHHHHHHHcCCEEEEEeeC
Q 001353 1004 VLPGLKLIKD------ADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ---WTTPEGLGLKLSRKLLIMMNGRVRYVREN 1074 (1093)
Q Consensus 1004 v~~~~~~~~~------~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~---~~~GtGLGL~ivr~ive~hgG~I~v~S~~ 1074 (1093)
.........+ ......+.|+|.|||+|||++.++++|+|||+ ...|+||||+|||++++.|||+|+++|.+
T Consensus 303 ~~~~~~~~~~~~~~~~~~~~~~~~i~v~D~G~Gi~~~~~~~if~~~~~~~~~~~g~GlGL~i~~~~v~~~gG~i~~~s~~ 382 (540)
T PRK13557 303 TRNVEIEDEDLAMYHGLPPGRYVSIAVTDTGSGMPPEILARVMDPFFTTKEEGKGTGLGLSMVYGFAKQSGGAVRIYSEV 382 (540)
T ss_pred EeeeccCccccccccCCCCCCEEEEEEEcCCCCCCHHHHHhccCCCcccCCCCCCCCccHHHHHHHHHHCCCEEEEEecC
Confidence 6532210000 01123788999999999999999999999988 34699999999999999999999999998
Q ss_pred Ce-eEEEEEEeecC
Q 001353 1075 SK-CYFVIDLELKT 1087 (1093)
Q Consensus 1075 gg-t~F~v~LPlp~ 1087 (1093)
|+ |+|+|+||...
T Consensus 383 ~~G~~f~i~lP~~~ 396 (540)
T PRK13557 383 GEGTTVRLYFPASD 396 (540)
T ss_pred CCceEEEEEeeCCC
Confidence 74 99999999744
No 11
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=100.00 E-value=7.8e-35 Score=372.50 Aligned_cols=327 Identities=20% Similarity=0.282 Sum_probs=272.4
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCceEEec-CCCcEeechhhhHHHhCCCcchhcc----ccCCCccceeeEEEccCCcEEE
Q 001353 742 DKFIRLQGDYEAIIQSVNPLIPPIFASD-ENACCSEWNAAMEKVTGWMRHEVIG----ITGQGTENFPFGFFNRQGQFVE 816 (1093)
Q Consensus 742 e~L~~se~~lr~i~~~~~~li~~I~~~D-~~g~i~~~N~a~~~l~G~~~eEliG----~~~~~~~~~e~~~~~kdG~~~~ 816 (1093)
.++.++++.++.++++.+. +|++.+ .+|.++..|+.+..++|+...+... ...... .........++....
T Consensus 327 ~~L~e~e~~~r~iv~~~p~---gi~i~~~~~g~~~~~N~~a~~~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 402 (924)
T PRK10841 327 LRLEEHEQFNRKIVASAPV---GICILRTSDGTNILSNELAHNYLNMLTHEDRQRLTQIICGQQ-VNFVDVLTSNNTNLQ 402 (924)
T ss_pred HHHHHHHHHHHHHHHhCCc---cEEEEEcCCCcEEEehHHHHHHhccCChhHHHHHHHHHhccc-cceeeEEcCCCcEEE
Confidence 4678888899999999998 788886 7999999999999999875443322 000000 111223344555554
Q ss_pred EEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHH---HHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCC
Q 001353 817 VALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLE---DMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSIS 893 (1093)
Q Consensus 817 v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~---e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~ 893 (1093)
+.+...... +.. ..++++.|+|++++.+.++++.. ++.++.|.+|++.++|||||||++|.+++++|.....+
T Consensus 403 i~~~~~~~~---~~~-~~i~~~~Dit~r~~~e~~L~~~~~~~e~a~~~k~~fla~iSHELRTPL~~I~g~lelL~~~~~~ 478 (924)
T PRK10841 403 ISFVHSRYR---NEN-VAICVLVDVSARVKMEESLQEMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTKELP 478 (924)
T ss_pred EEEEeeeec---Cce-EEEEEEEEhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhCCCCC
Confidence 444433332 222 36789999999998887766543 44556777899999999999999999999999988888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEE
Q 001353 894 ENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLN 972 (1093)
Q Consensus 894 ~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~ 972 (1093)
++++++++.+..+.++|.++|++ +++++++.+...++..++++.+++++++..+......+++.+.+.+++++| ..+.
T Consensus 479 ~~~~~~l~~i~~~~~~L~~lI~dlLd~srie~~~~~l~~~~~~l~~li~~v~~~~~~~~~~k~i~l~~~i~~~~~-~~v~ 557 (924)
T PRK10841 479 KGVDRLVTAMNNSSSLLLKIISDILDFSKIESEQLKIEPREFSPREVINHITANYLPLVVKKRLGLYCFIEPDVP-VALN 557 (924)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCceeeeEEecHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCC-cEEE
Confidence 99999999999999999999999 699999999999999999999999999999999999999999999888776 3799
Q ss_pred ecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-------
Q 001353 973 GDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ------- 1045 (1093)
Q Consensus 973 ~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~------- 1045 (1093)
+|+.+|.|||.||+.||+||++. |.|.|.+...++ .+.|+|.|+|+|||++.++++|+|||+
T Consensus 558 ~D~~~L~qvl~NLl~NAik~t~~--G~I~I~v~~~~~---------~l~i~V~DtG~GI~~e~~~~lFepF~~~~~~~~~ 626 (924)
T PRK10841 558 GDPMRLQQVISNLLSNAIKFTDT--GCIVLHVRVDGD---------YLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGVQR 626 (924)
T ss_pred ECHHHHHHHHHHHHHHHHhhCCC--CcEEEEEEEeCC---------EEEEEEEEcCcCCCHHHHHHHhcccccCCCCCCC
Confidence 99999999999999999999986 789988887766 899999999999999999999999986
Q ss_pred CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCC
Q 001353 1046 WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTR 1088 (1093)
Q Consensus 1046 ~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~ 1088 (1093)
..+|+||||+||+++++.|||+|+++|++|+ |+|+|.||++.+
T Consensus 627 ~~~GtGLGL~I~k~lv~~~gG~I~v~S~~g~Gt~F~i~LP~~~~ 670 (924)
T PRK10841 627 NFQGTGLGLAICEKLINMMDGDISVDSEPGMGSQFTIRIPLYGA 670 (924)
T ss_pred CCCCeehhHHHHHHHHHHCCCEEEEEEcCCCcEEEEEEEECCcc
Confidence 2359999999999999999999999999984 999999998643
No 12
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=100.00 E-value=5.5e-34 Score=352.54 Aligned_cols=328 Identities=20% Similarity=0.288 Sum_probs=284.2
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc---------------------ccCC
Q 001353 740 LMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG---------------------ITGQ 798 (1093)
Q Consensus 740 aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG---------------------~~~~ 798 (1093)
+.+.+++.+..++.++++.++ +++++|.+|+++++|+++.+++|+++++++| ..+.
T Consensus 253 ~~~~l~~~~~~~~~i~~~~~~---~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 329 (607)
T PRK11360 253 LAQALRETRSLNELILESIAD---GVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELFPPNTPFASPLLDTLEHGT 329 (607)
T ss_pred HHHHHHHHHHHHHHHHHhccC---eEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHHHHcCCchhHHHHHHHHHhcCC
Confidence 446677788888999999988 8999999999999999999999999988887 1122
Q ss_pred CccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHH
Q 001353 799 GTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLN 878 (1093)
Q Consensus 799 ~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt 878 (1093)
.....++.+..++|... +.++..|+.+.+|++.|++++++|+|++++.+.++++..+.. +..++++.++||++|||+
T Consensus 330 ~~~~~~~~~~~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~~~~--~l~~~~~~~~hel~~~l~ 406 (607)
T PRK11360 330 EHVDLEISFPGRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQERLA--ALGELVAGVAHEIRNPLT 406 (607)
T ss_pred CccceEEEEEcCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhhHHH
Confidence 33445677888888877 899999999999999999999999999999887766654433 355789999999999999
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeE
Q 001353 879 GIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLH 957 (1093)
Q Consensus 879 ~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~ 957 (1093)
.|.++++++.....+++..++++.+.+..+++..++++ +++++... ....++++..+++.+...+......+++.
T Consensus 407 ~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 482 (607)
T PRK11360 407 AIRGYVQIWRQQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFSRPRE----SQWQPVSLNALVEEVLQLFQTAGVQARVD 482 (607)
T ss_pred HHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHhhCCCc----CccceecHHHHHHHHHHHHHHhhhccCcE
Confidence 99999999887766777888999999999999999999 57777543 23578999999999999998876778888
Q ss_pred EEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeE-EEEEEecCCCCCChhhH
Q 001353 958 LLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVH-VQFRLTHPGEGIPSHLI 1036 (1093)
Q Consensus 958 l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~-v~l~V~DnG~GIp~e~~ 1036 (1093)
+.++++++++ .+.+|+..|.+++.|++.||++|++. +|.|.|++....+ . +.|+|.|||+|||++.+
T Consensus 483 ~~~~~~~~~~--~~~~~~~~l~~~~~nli~na~~~~~~-~~~i~v~~~~~~~---------~~~~i~v~D~G~G~~~~~~ 550 (607)
T PRK11360 483 FETELDNELP--PIWADPELLKQVLLNILINAVQAISA-RGKIRIRTWQYSD---------GQVAVSIEDNGCGIDPELL 550 (607)
T ss_pred EEEEcCCCCC--eEEECHHHHHHHHHHHHHHHHHHhcC-CCeEEEEEEEcCC---------CEEEEEEEeCCCCCCHHHH
Confidence 9988887765 47889999999999999999999887 7899999877665 4 99999999999999999
Q ss_pred hhhccCCCC-CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1037 EDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1037 ~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
+++|+||++ +..|+||||++||++++.|||+|+++|.+| ||+|+|+||+....
T Consensus 551 ~~~f~~~~~~~~~g~glGL~~~~~~~~~~~G~i~~~s~~~~Gt~~~i~lp~~~~~ 605 (607)
T PRK11360 551 KKIFDPFFTTKAKGTGLGLALSQRIINAHGGDIEVESEPGVGTTFTLYLPINPQG 605 (607)
T ss_pred hhhcCCceeCCCCCCchhHHHHHHHHHHcCCEEEEEEcCCCceEEEEEecCCCCC
Confidence 999999987 778999999999999999999999999998 69999999985443
No 13
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=100.00 E-value=2.1e-34 Score=328.89 Aligned_cols=306 Identities=16% Similarity=0.209 Sum_probs=263.8
Q ss_pred HHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc---------------ccCCCccceeeEEEc
Q 001353 745 IRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG---------------ITGQGTENFPFGFFN 809 (1093)
Q Consensus 745 ~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG---------------~~~~~~~~~e~~~~~ 809 (1093)
.+..++|+.+++++++ +|+++|.+|++++||+++++++||++++.+| ..... ...+..+..
T Consensus 2 ~~~~~~l~~~~~~~~~---~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~l~~~~-~~~~~~~~~ 77 (333)
T TIGR02966 2 SALLSRFRAAAQALPD---AVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHPEFVEYLAAGR-FSEPLELPS 77 (333)
T ss_pred hhHHHHHHHHHHhCcC---cEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCHHHHHHHHhcc-cCCCeEeec
Confidence 4567789999999998 8999999999999999999999999999888 11111 133466677
Q ss_pred cCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc
Q 001353 810 RQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLES 889 (1093)
Q Consensus 810 kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~ 889 (1093)
++|..+|+.++..|+.+.+ ++++++|||+.++.+. .+.++++.++|+++|||++|.++++++..
T Consensus 78 ~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~-----------~~~~~~~~l~h~l~~pL~~i~~~~~~l~~ 141 (333)
T TIGR02966 78 PINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQ-----------MRRDFVANVSHELRTPLTVLRGYLETLAD 141 (333)
T ss_pred CCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHH-----------HHHHHHHhhhhhhcccHHHHHHHHHHHHh
Confidence 8999999999999987653 6788899997654432 24468999999999999999999998865
Q ss_pred C--CCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCc
Q 001353 890 S--SISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEI 966 (1093)
Q Consensus 890 ~--~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~l 966 (1093)
. ...+...++++.+....+++..++++ +++++++.+.......++++.+++..++..+......+++.+.+..++.
T Consensus 142 ~~~~~~~~~~~~~~~i~~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~i~i~~~~~~~- 220 (333)
T TIGR02966 142 GPDEDPEEWNRALEIMLEQSQRMQSLVEDLLTLSRLESAASPLEDEPVDMPALLDHLRDEAEALSQGKNHQITFEIDGG- 220 (333)
T ss_pred cccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccCHHHHHHHHHHHHHHHHHHcCcEEEEcCCCC-
Confidence 4 44556678899999999999999999 5899988877788889999999999999999999999989999888443
Q ss_pred cceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-
Q 001353 967 KALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ- 1045 (1093)
Q Consensus 967 p~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~- 1045 (1093)
..+.+|+..|.+||.||+.||++|++. ++.|.|++...++ .+.|.|.|||+|||++.++++|+|||+
T Consensus 221 --~~~~~d~~~l~~vl~nll~Nai~~~~~-~~~i~i~~~~~~~---------~~~i~i~d~G~gi~~~~~~~if~~~~~~ 288 (333)
T TIGR02966 221 --VDVLGDEDELRSAFSNLVSNAIKYTPE-GGTITVRWRRDGG---------GAEFSVTDTGIGIAPEHLPRLTERFYRV 288 (333)
T ss_pred --ceEEECHHHHHHHHHHHHHHhheeCCC-CCeEEEEEEEcCC---------EEEEEEEecCCCCCHHHHhhhccCceec
Confidence 468999999999999999999999987 7899999888877 799999999999999999999999984
Q ss_pred ------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEE
Q 001353 1046 ------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDL 1083 (1093)
Q Consensus 1046 ------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~L 1083 (1093)
...|+||||++|+.+++.|||++++.|.++ ||+|+|+|
T Consensus 289 ~~~~~~~~~g~glGL~~~~~~~~~~gG~i~~~s~~~~Gt~~~i~l 333 (333)
T TIGR02966 289 DKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESELGKGSTFSFIF 333 (333)
T ss_pred CcccccCCCCCcccHHHHHHHHHHCCCEEEEEecCCCCeEEEEEC
Confidence 346899999999999999999999999987 59999875
No 14
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=100.00 E-value=4.8e-33 Score=371.15 Aligned_cols=348 Identities=16% Similarity=0.169 Sum_probs=271.3
Q ss_pred EEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc----c-----------
Q 001353 731 GQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----I----------- 795 (1093)
Q Consensus 731 ~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----~----------- 795 (1093)
.++++.++.++.++++.+..++.++++++. +|++.|.+|+|+++|+++++++|.+...... .
T Consensus 558 ~~~i~~r~~~~~~l~~~~~~~~~i~~~~~~---~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 634 (1197)
T PRK09959 558 LRSVRRRKVIQGDLENQISFRKALSDSLPN---PTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLENSDSPFKDVFSN 634 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhCCC---cEEEEcCCCcEEEehHHHHHHhCcccccccccccccccCchhhhHhH
Confidence 478899999999999999999999999998 8999999999999999999999976432211 0
Q ss_pred -------cCCCccceeeEEEccCCcEEEEEE-EEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHH---HHHHHHHHH
Q 001353 796 -------TGQGTENFPFGFFNRQGQFVEVAL-TASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLE---DMDIYAKIK 864 (1093)
Q Consensus 796 -------~~~~~~~~e~~~~~kdG~~~~v~~-~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~---e~~~~~k~~ 864 (1093)
...........+...+|....+.. ...+.....+...++++.++|||+.++.+.+++... .+...++.+
T Consensus 635 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~~~~~~~~~~~~~~ 714 (1197)
T PRK09959 635 AHEVTAETKENRTIYTQVFEIDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNKAINATVAKSQ 714 (1197)
T ss_pred HHHHHHHHhhccccceeeEeeecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 000001111222233443322222 222222344555678889999999887665554433 334456788
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHH
Q 001353 865 ELAYIRQEVKNPLNGIRFVHKLLESSSISEN-QRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDA 942 (1093)
Q Consensus 865 ~la~isHELrnPLt~I~g~~~LL~~~~l~~~-~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~ 942 (1093)
|++.++|||||||++|.++++++.....+++ ..+++..+..+.+++..++++ +++++++.+...+..+++++.+++++
T Consensus 715 ~~~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~~l~~~~~~~~~l~~li~~ll~~~~~~~~~~~~~~~~~~l~~~i~~ 794 (1197)
T PRK09959 715 FLATMSHEIRTPISSIMGFLELLSGSGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIESGNYQLQPQWVDIPTLVQN 794 (1197)
T ss_pred HHHhcChhhCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCceeeeeeeCHHHHHHH
Confidence 9999999999999999999999986555444 456888888999999999999 69999999998999999999999999
Q ss_pred HHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEE
Q 001353 943 VVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQF 1022 (1093)
Q Consensus 943 v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l 1022 (1093)
++..+......+++.+.+..+... ...+.+|+.+|.|||.||+.||+||++. |.+.|.+..... ......+.|
T Consensus 795 ~~~~~~~~~~~~~i~~~~~~~~~~-~~~v~~d~~~l~qvl~NLl~NAik~~~~--g~i~i~~~~~~~----~~~~~~~~i 867 (1197)
T PRK09959 795 TCHSFGAIAASKSIALSCSSTFPD-HYLVKIDPQAFKQVLSNLLSNALKFTTE--GAVKITTSLGHI----DDNHAVIKM 867 (1197)
T ss_pred HHHHHHHHHHhcCcEEEEecCCCC-ceEEEECHHHHHHHHHHHHHHHHHhCCC--CCEEEEEEEeee----cCCceEEEE
Confidence 999999988888888887654221 1368999999999999999999999986 666665543211 011226889
Q ss_pred EEecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCC
Q 001353 1023 RLTHPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTR 1088 (1093)
Q Consensus 1023 ~V~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~ 1088 (1093)
+|.|+|+|||++.+++||+|||+ ..+|+||||+|||++++.|||+|+++|.+| ||+|+|+||++..
T Consensus 868 ~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt~f~i~lP~~~~ 939 (1197)
T PRK09959 868 TIMDSGSGLSQEEQQQLFKRYSQTSAGRQQTGSGLGLMICKELIKNMQGDLSLESHPGIGTTFTITIPVEIS 939 (1197)
T ss_pred EEEEcCCCCCHHHHHHhhccccccccCCCCCCcCchHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEEEcccc
Confidence 99999999999999999999987 235999999999999999999999999998 5999999998654
No 15
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=3.2e-33 Score=327.11 Aligned_cols=219 Identities=18% Similarity=0.307 Sum_probs=197.6
Q ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCCCHH-HHHHHHHHHHHHHHHHHHHhc-ccccccccCcccccee
Q 001353 857 MDIYAKIKELAYIRQEVKNPLNGIRFVHKLLES--SSISEN-QRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSE 932 (1093)
Q Consensus 857 ~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~--~~l~~~-~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~ 932 (1093)
+..+.+..+++.|||+|||||++|+|.++.|.. ..++++ ..+.+..|.+.++++.++|++ ||++|+++|...++..
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 334566789999999999999999999999876 345555 678999999999999999999 7999999999999999
Q ss_pred eeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCcccc
Q 001353 933 EFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIK 1012 (1093)
Q Consensus 933 ~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~ 1012 (1093)
+..+.+++.+++..+......+ .+.++++.++| .+.+|...|.|||.||+.||+||+|+ +..|.|.+....+
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 9999999999999888776655 47778888876 69999999999999999999999998 8889999999988
Q ss_pred CCCceeEEEEEEecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeec
Q 001353 1013 DADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELK 1086 (1093)
Q Consensus 1013 ~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp 1086 (1093)
.+.|.|.|+|+|||++.+++||++||+ ...|+||||+||+.||+.|||+|++++.++ |++|.|.||.+
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 999999999999999999999999999 456999999999999999999999998765 49999999998
Q ss_pred CCc
Q 001353 1087 TRG 1089 (1093)
Q Consensus 1087 ~~~ 1089 (1093)
..+
T Consensus 881 ~~~ 883 (890)
T COG2205 881 EDP 883 (890)
T ss_pred CCC
Confidence 654
No 16
>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=7e-34 Score=293.63 Aligned_cols=157 Identities=34% Similarity=0.695 Sum_probs=135.3
Q ss_pred CcccccCCcchhhhccCCEEEEEECCeEEEecCCCCHHHHHHHHHHHHhccCCCceeeeccccccCCCCccccccccccE
Q 001353 427 PFSIVTQSPSIMDLVKCDGAALYYGGRCWLVGVTPTESQLKDIAWWLLNNHGDCTGLSTDSLAEAGYPGAALLGQAVCGM 506 (1093)
Q Consensus 427 ~~~~~~~~~~~~~l~~a~g~al~~~~~~~~~G~~p~~~~~~~l~~~l~~~~~~~~~~~t~~l~~~~~p~~~~~~~~~~G~ 506 (1093)
..++..+.++||+|++|||+||+++|+++++|.||+..+|.+|++||..... ..+|+|++|... ||++..+.+.+|||
T Consensus 19 ~~~l~~~~~~ll~l~~AdG~al~~~g~~~~~G~~P~~~~i~~L~~wl~~~~~-~~v~~T~~L~~~-~p~~~~~~~~aaGv 96 (182)
T PF00360_consen 19 LEALISQAPDLLDLVDADGVALVIDGEVYTFGETPPEEQIRALAEWLREQAD-GEVFATDSLSED-YPDAAALAERAAGV 96 (182)
T ss_dssp HHHHCTTCCCHHHCTT-SEEEEEETTEEEEEESS--HHHHHHHHHHCCCTTT--SEEEESBGGGT-SGGGGGGCCCHSEE
T ss_pred hHhhHhccHHHHhhccCCEEEEEECCEEEEecCCcCHHHHHHHHHHHHhhCC-CccchhhhHhHh-ChhhhhhcccCCCc
Confidence 4678889999999999999999999999999999999999999999997754 479999999985 99999999999999
Q ss_pred EEEeeCC--CcEEEEeecCcCcEEEecCCCCCCccCC-CCCccccCchhHHHHHHhhccccccchhhhhhhhHHHHHHHH
Q 001353 507 ATARITS--KDFLFWFRSHTAKEVKWGGAKHHPEHKD-NGGKMHPRSSFKAFLEVVKNRSFPWEVSEINAIHSLQIVMRD 583 (1093)
Q Consensus 507 l~~~~~~--~~~l~wfR~e~~~~v~W~G~p~~~~~~~-~~~~l~Pr~SF~~w~e~v~g~s~pW~~~El~aa~sL~liL~~ 583 (1093)
|+++|++ ++||+|||+|+.++|+|||+|+|++..+ ++.+++||+||++|+|+|+|+|.||+..|++++.+|+..|.+
T Consensus 97 Lai~l~~~~~~~l~wFR~E~~~~v~WaG~P~k~~~~~~~~~~l~PR~SF~~W~E~v~g~S~pW~~~d~~~A~~lr~~l~~ 176 (182)
T PF00360_consen 97 LAIPLSSEPRDYLLWFRPEQVQTVNWAGNPEKPVEVDPGGVRLSPRKSFEAWRETVRGRSLPWSDADLEAAERLRRALLE 176 (182)
T ss_dssp EEEEECTTCCEEEEEEE-S--ECEEECSSCGGSCEEECTCCCCCCHCHHHCCCCCCTTBBS---HHHHHHHHHHHHHHHH
T ss_pred EEEECCCCCCceEEEEecCcceEEEeCCCCCccccCCCCCCCCCChHHHHHHHhHhcCcCCCCCHHHHHHHHHHHHHHHH
Confidence 9999986 6899999999999999999999997654 478999999999999999999999999999999999776655
Q ss_pred HH
Q 001353 584 SF 585 (1093)
Q Consensus 584 sl 585 (1093)
.+
T Consensus 177 ~~ 178 (182)
T PF00360_consen 177 VI 178 (182)
T ss_dssp HH
T ss_pred HH
Confidence 44
No 17
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=100.00 E-value=1.9e-31 Score=301.95 Aligned_cols=337 Identities=20% Similarity=0.223 Sum_probs=262.7
Q ss_pred cchhhhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHH
Q 001353 604 GSKMQGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRA 683 (1093)
Q Consensus 604 ~~l~q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~ 683 (1093)
+.+++..+++++.++.++.+++..+.|++.+|.+|+|.-+|++++++||.+.++++|+++. .+- |+- .+.+..+
T Consensus 356 ~~l~~ak~~~e~rr~f~E~VLsgvtaGVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~ls-a~a-p~~----~~vf~~~ 429 (712)
T COG5000 356 EALERAKDALEQRRRFLEAVLSGLTAGVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLS-AIA-PEL----EEVFAEA 429 (712)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcCceeEEEEcCCCeeEeecchHHHHhcCChhHhhcchhh-hhh-hHH----HHHHHHh
Confidence 3445666788888888999999999999999999999999999999999999999999976 433 222 2222222
Q ss_pred Hc-CCCCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCC
Q 001353 684 LL-GEEDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLI 762 (1093)
Q Consensus 684 l~-g~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li 762 (1093)
-. +...+..+..+. ..|+.+.+.+....-..+ +--|++.++.|||+...++..-
T Consensus 430 ~a~~~~~~~~ev~~~-----r~g~~rtl~Vq~t~~~~d--~~~gyVvt~DDITdLV~AQRs~------------------ 484 (712)
T COG5000 430 GAAARTDKRVEVKLA-----REGEERTLNVQATREPED--NGNGYVVTFDDITDLVIAQRSA------------------ 484 (712)
T ss_pred hhhcCCCccceeecc-----cCCCceeeeeeeeecccc--cCCceEEEecchHHHHHHHHHH------------------
Confidence 21 233445555553 347777777666543222 2336777778888776665441
Q ss_pred CceEEecCCCcEeechhhhHHHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecc
Q 001353 763 PPIFASDENACCSEWNAAMEKVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILV 842 (1093)
Q Consensus 763 ~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DIT 842 (1093)
T Consensus 485 -------------------------------------------------------------------------------- 484 (712)
T COG5000 485 -------------------------------------------------------------------------------- 484 (712)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred cCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCCCH---HHHHHHHHHHHHHHHHHHHHhc
Q 001353 843 PDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLES---SSISE---NQRQYLETSDACERQIMTIIDG 916 (1093)
Q Consensus 843 e~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~---~~l~~---~~~~~l~~i~~~~~rl~~lI~d 916 (1093)
+-.+....|+||||||||.|.-.++.|.+ ...++ ...++.++|.++...|.+|+++
T Consensus 485 ------------------AW~dVArRIAHEIKNPLTPIQLSAERl~rk~gk~i~eDrevfd~~tdTIirQV~dI~rMVde 546 (712)
T COG5000 485 ------------------AWGDVARRIAHEIKNPLTPIQLSAERLLRKLGKEIDEDREVFDRCTDTIIRQVEDIKRMVDE 546 (712)
T ss_pred ------------------HHHHHHHHHHHHhcCCCchhhhhHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 22345568999999999999988888875 22333 3467899999999999999999
Q ss_pred c-cccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCC
Q 001353 917 M-DLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPS 995 (1093)
Q Consensus 917 L-dlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~ 995 (1093)
+ .|+|+ ..++++..||.+++.++....+. ....+.+..+++.+ | +...+|+..|.|+|.||+.||.++...
T Consensus 547 F~afARm----P~p~~e~~dL~~ll~e~~~L~e~--~~~~i~f~~e~g~e-p-l~~~~D~~~l~Qvf~NliKNA~EAi~~ 618 (712)
T COG5000 547 FRAFARM----PAPKLEKSDLRALLKEVSFLYEI--GNDHIVFAAEFGGE-P-LIGMADATLLGQVFGNLLKNAAEAIEA 618 (712)
T ss_pred HHHHhcC----CCCCCCcchHHHHHHHHHHHHhc--cCCCeEEEeecCCC-c-eeeecCHHHHHHHHHHHHHhHHHHhhh
Confidence 5 88885 45678899999999999988764 33568899999987 4 788889999999999999999987321
Q ss_pred ------CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-CCCCccchHHHHHHHHHHcCCEE
Q 001353 996 ------PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRV 1068 (1093)
Q Consensus 996 ------~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I 1068 (1093)
+.+.|+++....++ .+.+.|.|||.|+|.|.+.++||||.| +.+||||||+|||+|+|.|||.|
T Consensus 619 ~~~~e~~~~~i~~~~~~~~g---------~i~v~V~DNGkG~p~e~r~r~~EPYvTtr~KGTGLGLAiVKkIvEeHGG~l 689 (712)
T COG5000 619 VEAEERRTALIRVSLDDADG---------RIVVDVIDNGKGFPRENRHRALEPYVTTREKGTGLGLAIVKKIVEEHGGRL 689 (712)
T ss_pred cccccCCcceEEEEEecCCC---------eEEEEEecCCCCCChHHhhhhccCceecccccccccHHHHHHHHHhcCCeE
Confidence 13457777666666 899999999999999999999999987 88999999999999999999999
Q ss_pred EEEeeC--CeeEEEEEEeec
Q 001353 1069 RYVREN--SKCYFVIDLELK 1086 (1093)
Q Consensus 1069 ~v~S~~--ggt~F~v~LPlp 1086 (1093)
.....| +|+...+.||.+
T Consensus 690 eL~da~d~~GA~i~i~fp~~ 709 (712)
T COG5000 690 ELHNAPDFDGAMIRIKFPLK 709 (712)
T ss_pred EecCCCCCCCcEEEEEcccc
Confidence 999875 468888888873
No 18
>PRK13559 hypothetical protein; Provisional
Probab=100.00 E-value=1.2e-30 Score=303.17 Aligned_cols=310 Identities=15% Similarity=0.148 Sum_probs=243.3
Q ss_pred HHHHHHHHHHHhcCccEEEECC---CCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCce
Q 001353 615 SVACEMVRLIETATAPIFGVDS---SGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKN 691 (1093)
Q Consensus 615 ~~~~~l~~lie~~~~~I~~~D~---dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~ 691 (1093)
.+.+.|+.++++++++++++|. +|+|++||+++++++||+.++++|+++. .+.++.........+...+.++....
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 3457788999999999999997 5789999999999999999999999987 66665555555556666666655443
Q ss_pred EEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCC
Q 001353 692 VELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDEN 771 (1093)
Q Consensus 692 ~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~ 771 (1093)
.++. ..+++|..+|+.++..|+++.+|.+.+++++++|||++|++++..+
T Consensus 119 ~e~~----~~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~e~~~~-------------------------- 168 (361)
T PRK13559 119 VELL----NYRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAVRALEA-------------------------- 168 (361)
T ss_pred EEEE----EEcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhhHHHHH--------------------------
Confidence 3333 3468999999999999999999999999999999998887643211
Q ss_pred CcEeechhhhHHHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHH
Q 001353 772 ACCSEWNAAMEKVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEA 851 (1093)
Q Consensus 772 g~i~~~N~a~~~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~el 851 (1093)
T Consensus 169 -------------------------------------------------------------------------------- 168 (361)
T PRK13559 169 -------------------------------------------------------------------------------- 168 (361)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccc
Q 001353 852 QGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELK 930 (1093)
Q Consensus 852 q~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~ 930 (1093)
.+.++++.++|++||||++|.++.+++.. ..+..++++.+.....+|.+++++ ++..+
T Consensus 169 ---------~~~~l~~~l~H~~~n~L~~i~~~~~l~~~---~~~~~~~~~~i~~~~~~l~~~~~~ll~~~~--------- 227 (361)
T PRK13559 169 ---------HERRLAREVDHRSKNVFAVVDSIVRLTGR---ADDPSLYAAAIQERVQALARAHETLLDERG--------- 227 (361)
T ss_pred ---------HHHHHHHHHHHhhhhHHHHHHHHHHhhcc---CCCHHHHHHHHHHHHHHHHHHHHHHhccCC---------
Confidence 12356778999999999999999998873 233456778888888899999887 45433
Q ss_pred eeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEec-HHHHHHHHHHHHHHHHHc---CCCCCCeEEEEE--
Q 001353 931 SEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGD-RIRLQLVLSDFLHCVVRH---APSPDGWVEIKV-- 1004 (1093)
Q Consensus 931 ~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D-~~~L~qVl~nLl~NAik~---t~~~~g~I~I~v-- 1004 (1093)
..++++.++++.++..+... +.++.++.++ +.+..+ ...|.|||.||+.||+|| ++. +|.|.|++
T Consensus 228 ~~~v~l~~~~~~~~~~~~~~----~~~i~~~~~~----~~~~~~~~~~l~~vl~nLi~NA~k~~~~~~~-~g~i~v~~~~ 298 (361)
T PRK13559 228 WETVEVEELIRAQVAPYAPR----ATRVAFEGPG----IRLGAASVQPLGLVLHELAVNAIKHGALSAD-QGRISISWKP 298 (361)
T ss_pred cCcccHHHHHHHHHHhhcCC----CceEEEECCC----eeeCHHHHHHHHHHHHHHHHhHHHhccccCC-CcEEEEEEEe
Confidence 46799999999998876532 3455555432 234433 357999999999999999 444 78999988
Q ss_pred EeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHH-cCCEEEEEeeCCeeEEEEEE
Q 001353 1005 LPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIM-MNGRVRYVRENSKCYFVIDL 1083 (1093)
Q Consensus 1005 ~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~-hgG~I~v~S~~ggt~F~v~L 1083 (1093)
...++ .+.+.|.|+|+|++++ ..|+|+||.||+++++. |||++++++.++|++|+|+|
T Consensus 299 ~~~~~---------~~~i~v~d~G~~~~~~------------~~~~g~Gl~i~~~~v~~~~gG~i~~~~~~~G~~~~l~~ 357 (361)
T PRK13559 299 SPEGA---------GFRIDWQEQGGPTPPK------------LAKRGFGTVIIGAMVESQLNGQLEKTWSDDGLLARIEI 357 (361)
T ss_pred cCCCC---------eEEEEEECCCCCCCCC------------CCCCCcHHHHHHHHHHHHcCCeEEEEEcCCeEEEEEEE
Confidence 33344 7899999999998765 35789999999999997 99999999998899999999
Q ss_pred eec
Q 001353 1084 ELK 1086 (1093)
Q Consensus 1084 Plp 1086 (1093)
|+.
T Consensus 358 P~~ 360 (361)
T PRK13559 358 PSR 360 (361)
T ss_pred eCC
Confidence 963
No 19
>PRK09303 adaptive-response sensory kinase; Validated
Probab=99.98 E-value=3.5e-31 Score=309.12 Aligned_cols=217 Identities=21% Similarity=0.355 Sum_probs=194.0
Q ss_pred HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCC-------HHHHHHHHHHHHHHHHHHHHHhc-ccccccccCcccc
Q 001353 858 DIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSIS-------ENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMEL 929 (1093)
Q Consensus 858 ~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~-------~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l 929 (1093)
....+.+|++.++|||||||++|.++++++.....+ +..+++++.+....++|.+++++ +++++.+.+...+
T Consensus 147 ~~~~~~~l~~~iaHeLrtPLt~i~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~li~~ll~~~~~~~~~~~~ 226 (380)
T PRK09303 147 QLKFKDRVLAMLAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQDQARRQLEEIERLITDLLEVGRTRWEALRF 226 (380)
T ss_pred HHHHHHHHHHHHhHhhcchHHHHHHHHHHHhccCccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcee
Confidence 344577899999999999999999999999854322 33677889999999999999999 6999999888888
Q ss_pred ceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEe-CC
Q 001353 930 KSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLP-GL 1008 (1093)
Q Consensus 930 ~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~-~~ 1008 (1093)
...++++.+++.+++..+...+..+++.+.++++.++| .+++|+..|.|||.||+.||++|++. +|.|.|.+.. .+
T Consensus 227 ~~~~~~l~~ll~~~~~~~~~~~~~~~i~l~~~~~~~~~--~v~~d~~~l~qvl~NLl~NAik~~~~-~~~I~i~~~~~~~ 303 (380)
T PRK09303 227 NPQKLDLGSLCQEVILELEKRWLAKSLEIQTDIPSDLP--SVYADQERIRQVLLNLLDNAIKYTPE-GGTITLSMLHRTT 303 (380)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHcCCEEEEEcCCCCC--eEEeCHHHHHHHHHHHHHHHHhcCCC-CceEEEEEEecCC
Confidence 89999999999999999999999999999999988876 48999999999999999999999997 7899988755 33
Q ss_pred ccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEE
Q 001353 1009 KLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVID 1082 (1093)
Q Consensus 1009 ~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~ 1082 (1093)
+ .+.|+|.|||+|||++.+++||+|||+ ..+|+||||+|||++++.|||+|+++|.+| ||+|+|+
T Consensus 304 ~---------~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~~~Gt~f~i~ 374 (380)
T PRK09303 304 Q---------KVQVSICDTGPGIPEEEQERIFEDRVRLPRDEGTEGYGIGLSVCRRIVRVHYGQIWVDSEPGQGSCFHFT 374 (380)
T ss_pred C---------EEEEEEEEcCCCCCHHHHHHHccCceeCCCCCCCCcccccHHHHHHHHHHcCCEEEEEecCCCccEEEEE
Confidence 3 799999999999999999999999997 356999999999999999999999999887 4999999
Q ss_pred Eeec
Q 001353 1083 LELK 1086 (1093)
Q Consensus 1083 LPlp 1086 (1093)
||+.
T Consensus 375 lP~~ 378 (380)
T PRK09303 375 LPVY 378 (380)
T ss_pred EecC
Confidence 9974
No 20
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=99.98 E-value=1.1e-29 Score=311.20 Aligned_cols=334 Identities=13% Similarity=0.192 Sum_probs=239.5
Q ss_pred EEEEEeecCCCCEEEEEEEEEecchhHHHH--------------------------------------HHHHHHHHHHHH
Q 001353 712 VNACTSRDYKNNVKGVCFVGQDITHEKVLM--------------------------------------DKFIRLQGDYEA 753 (1093)
Q Consensus 712 v~~~pi~d~~g~v~gv~~v~~DITerK~aE--------------------------------------e~L~~se~~lr~ 753 (1093)
....|+++..|+++|++.++.++.+-...- .++.+..+.++.
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 355788999999999988877765543222 122344566788
Q ss_pred HHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCc---chhcc---------------ccCCCccceeeEEEccCCcEE
Q 001353 754 IIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMR---HEVIG---------------ITGQGTENFPFGFFNRQGQFV 815 (1093)
Q Consensus 754 i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~---eEliG---------------~~~~~~~~~e~~~~~kdG~~~ 815 (1093)
+++++++ ||+++|.+|+|++||+++++++|++. ++.+| ...+.... . .....+|.
T Consensus 226 il~~~~~---gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~g~-- 298 (542)
T PRK11086 226 MLQSIKE---GVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPVSRLKEVLRTGTPRR-D-EEININGR-- 298 (542)
T ss_pred HHHHhcC---cEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCchhHHHHHhcCCCcc-c-eEEEECCE--
Confidence 9999998 89999999999999999999998763 34444 00111000 0 11122443
Q ss_pred EEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHH
Q 001353 816 EVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISEN 895 (1093)
Q Consensus 816 ~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~ 895 (1093)
++.....|+.+ +|.+.|++++++|+|+.++.+.++.... ...++++.++||+||||++|.+++++... ++
T Consensus 299 ~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~~~-----~~~~~l~~~sHel~npL~~I~g~~~~~~~----~~ 368 (542)
T PRK11086 299 LLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDGMV-----NYADALRAQSHEFMNKLHVILGLLHLKSY----DQ 368 (542)
T ss_pred EEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHHHH-----HHHHHHHhhchhhcCHHHHHHHHHHhCch----HH
Confidence 45566778888 8999999999999999766654433222 23356778999999999999999887543 23
Q ss_pred HHHHHHHH-HHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEec
Q 001353 896 QRQYLETS-DACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGD 974 (1093)
Q Consensus 896 ~~~~l~~i-~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D 974 (1093)
..+++..+ .....++..+++++. . .++...+......+..+++.+.++.++.+|......+
T Consensus 369 ~~~~~~~~~~~~~~~~~~~~~~~~-------------~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 430 (542)
T PRK11086 369 LEDYILKTANNYQEEIGSLLGKIK-------------S-----PVIAGFLLGKISRARELGITLIISEDSQLPDSGDEDQ 430 (542)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcc-------------C-----HHHHHHHHHHHHHHHHcCCEEEEeCCCCCCccccccc
Confidence 33443332 333444555554431 0 1122222222334556778888887776654333344
Q ss_pred HHHHHHHHHHHHHHHHHcCCC-CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-CCCCccc
Q 001353 975 RIRLQLVLSDFLHCVVRHAPS-PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WTTPEGL 1052 (1093)
Q Consensus 975 ~~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~~GtGL 1052 (1093)
...|.||+.||+.||++|++. +++.|.|++...++ .+.|+|.|||+|||++.++++|+|||+ +.+|+||
T Consensus 431 ~~~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~---------~~~i~V~D~G~gi~~~~~~~iF~~~~~~~~~g~Gl 501 (542)
T PRK11086 431 VHELITILGNLIENALEAVGGEEGGEISVSLHYRNG---------WLHCEVSDDGPGIAPDEIDAIFDKGYSTKGSNRGV 501 (542)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCC---------EEEEEEEECCCCCCHHHHHHHHhCCCccCCCCCcC
Confidence 568999999999999999642 25789999888777 899999999999999999999999987 7789999
Q ss_pred hHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1053 GLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1053 GL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
||++||++++.|||+|+++|.+| ||+|+|+||+...+
T Consensus 502 GL~iv~~iv~~~~G~i~v~s~~~~G~~f~i~lP~~~~~ 539 (542)
T PRK11086 502 GLYLVKQSVENLGGSIAVESEPGVGTQFFVQIPWDGER 539 (542)
T ss_pred cHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEEeCCCCc
Confidence 99999999999999999999977 49999999987654
No 21
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=99.97 E-value=4.7e-29 Score=284.75 Aligned_cols=208 Identities=21% Similarity=0.276 Sum_probs=182.7
Q ss_pred HHHHHHHHHhhhhHHHHHHHHHH---HHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcc-cccccccCccccceeeeeHHH
Q 001353 863 IKELAYIRQEVKNPLNGIRFVHK---LLESSSISENQRQYLETSDACERQIMTIIDGM-DLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 863 ~~~la~isHELrnPLt~I~g~~~---LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dL-dlsrie~g~~~l~~~~v~L~~ 938 (1093)
.++.+.|+||||+||++|..+.+ +|.+....++...-+..|..-++||.+|...| .|++-.. ...+++.+.+
T Consensus 385 GQmSA~iaHElNQPLaaiRt~adna~~lLergr~e~a~~Nl~~I~~LteRma~It~~Lk~FArk~~----~a~~~v~l~~ 460 (603)
T COG4191 385 GQMSAGIAHELNQPLAAIRTYADNARLLLERGRTEEARENLERISALTERMAAITAHLKSFARKSR----DAAGPVSLRE 460 (603)
T ss_pred HHHHHHHHHHhcCcHHHHHhHHHHHHHHHHcCChHHHHhHHHHHHHHHHHHHHHHHHHHHHhccCc----cccCCccHHH
Confidence 35788899999999999997654 34455667888888999999999999999997 7777432 2368999999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCC-CCCCeEEEEEEeCCccccCCCce
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAP-SPDGWVEIKVLPGLKLIKDADQF 1017 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~-~~~g~I~I~v~~~~~~~~~~~~~ 1017 (1093)
+|+.++..+...++..++.+..++++. +++|.+++.+|+|||.|||.||++++. .+.++|.|.+...++
T Consensus 461 ai~~Al~ll~~R~~~~~~~l~~~~~~~--~~~V~~~~iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~-------- 530 (603)
T COG4191 461 AIEGALELLRGRLRAAGVELELDLPDA--PLWVMANEIRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGG-------- 530 (603)
T ss_pred HHHHHHHHHHHhhhccCceeeccCCCC--CceeecchhhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCC--------
Confidence 999999999999999999999998874 368999999999999999999999853 225899999999888
Q ss_pred eEEEEEEecCCCCCChhhHhhhccCCCC-C--CCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEee
Q 001353 1018 VHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W--TTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLEL 1085 (1093)
Q Consensus 1018 ~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~--~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPl 1085 (1093)
.+.++|.|||+||+||.+.++|||||| | .+|.||||+||+.|++.+||+|.+.+.++ |+.|+|+||.
T Consensus 531 -~v~l~VrDnGpGi~~e~~~~lFePF~TtK~~~~GLGLGLaIS~~i~~d~GGsL~v~n~~~~Ga~F~i~L~~ 601 (603)
T COG4191 531 -QVVLTVRDNGPGIAPEALPHLFEPFFTTKPVGKGLGLGLAISQNIARDLGGSLEVANHPEGGASFTIELRR 601 (603)
T ss_pred -eEEEEEccCCCCCCHHHHHhhcCCccccCcccCCcchhHHHHHHHHHHhCCeEEeecCCCCceEEEEEeec
Confidence 899999999999999999999999998 6 78999999999999999999999998754 5999999984
No 22
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=99.97 E-value=2.9e-28 Score=298.84 Aligned_cols=336 Identities=15% Similarity=0.159 Sum_probs=237.0
Q ss_pred EEEEEeecCCCCEEEEEEEEEecchhHHHH--------------------------------------HHHHHHHHHHHH
Q 001353 712 VNACTSRDYKNNVKGVCFVGQDITHEKVLM--------------------------------------DKFIRLQGDYEA 753 (1093)
Q Consensus 712 v~~~pi~d~~g~v~gv~~v~~DITerK~aE--------------------------------------e~L~~se~~lr~ 753 (1093)
..+.|++|.+|+++|++.+...+.+..... .++......++.
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 388999999999999987777554432211 112233345677
Q ss_pred HHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCc--chhccc------cCCCc------cceeeEEEccCCcEEEEEE
Q 001353 754 IIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMR--HEVIGI------TGQGT------ENFPFGFFNRQGQFVEVAL 819 (1093)
Q Consensus 754 i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~--eEliG~------~~~~~------~~~e~~~~~kdG~~~~v~~ 819 (1093)
+++++++ ||+++|.+|+|+.+|+++++++|++. ++++|. ..... ..........+| ..+..
T Consensus 227 il~~~~e---gii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~ 301 (545)
T PRK15053 227 LFSSVYE---GLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADFFTEQIDEKRQDVVANFNG--LSVIA 301 (545)
T ss_pred HHHHhCc---eEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchhhhhhcCCcccceEEEECC--EEEEE
Confidence 8888887 89999999999999999999999975 457771 10000 000011112234 33445
Q ss_pred EEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHH
Q 001353 820 TASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQY 899 (1093)
Q Consensus 820 ~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~ 899 (1093)
...|+.+ +|.+.|++..++|+|+..+.+.++....+ ..+.+..++||++|||++|.+++++-+ ..+.
T Consensus 302 ~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~~~-----~~e~l~~~~he~~n~L~~i~g~l~~~~-------~~~~ 368 (545)
T PRK15053 302 NREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQIKQ-----YVESLRTLRHEHLNWMSTLNGLLQMKE-------YDRV 368 (545)
T ss_pred EeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHHHH-----HHHHHHHHHHHHhhhHHHHHHHHhhch-------hhHH
Confidence 6667664 56778999999999987665444333222 224567789999999999999877532 2345
Q ss_pred HHHHHHHHHHHHHHHhcc-cccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHH
Q 001353 900 LETSDACERQIMTIIDGM-DLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRL 978 (1093)
Q Consensus 900 l~~i~~~~~rl~~lI~dL-dlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L 978 (1093)
++.+.....++.++++++ .... ...+.. .+......+.+.++.+.+.....+..+....|+..|
T Consensus 369 ~~~i~~~s~~~~~l~~~l~~~~~--------------~~~~~~-~l~~~~~~~~~~~i~~~~~~~~~~~~l~~~~~~~~l 433 (545)
T PRK15053 369 LEMVQGESQAQQQLIDSLREAFA--------------DRQVAG-LLFGKVQRARELGLKMVIVPGSQLSQLPPGLDSTEF 433 (545)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc--------------cHHHHH-HHHHHHHHHHHhCCceEEcCCCccccccccCCHHHH
Confidence 666666677777777764 2111 111111 111112334456777777655544334457799999
Q ss_pred HHHHHHHHHHHHHcC---CCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-C---CCCcc
Q 001353 979 QLVLSDFLHCVVRHA---PSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W---TTPEG 1051 (1093)
Q Consensus 979 ~qVl~nLl~NAik~t---~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~---~~GtG 1051 (1093)
.|+|.||+.||++|+ +.+++.|.|.+...++ .+.+.|.|||+|||++..++||++||+ + .+|+|
T Consensus 434 ~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~---------~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~~~~~g~G 504 (545)
T PRK15053 434 AAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGD---------DVVIEVADQGCGVPESLRDKIFEQGVSTRADEPGEHG 504 (545)
T ss_pred HHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCC---------EEEEEEEeCCCCcCHHHHHHHhCCCCCCCCCCCCCce
Confidence 999999999999994 4434688888887777 899999999999999999999999998 2 23799
Q ss_pred chHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1052 LGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1052 LGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
|||+|||++++.|||+|+++|.+| ||+|+|.||....+
T Consensus 505 lGL~ivk~iv~~~~G~i~v~s~~~~Gt~f~i~lP~~~~~ 543 (545)
T PRK15053 505 IGLYLIASYVTRCGGVITLEDNDPCGTLFSIFIPKVKPN 543 (545)
T ss_pred eCHHHHHHHHHHcCCEEEEEECCCCeEEEEEEECCCCCC
Confidence 999999999999999999999988 49999999986543
No 23
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=99.97 E-value=2.2e-29 Score=329.64 Aligned_cols=227 Identities=25% Similarity=0.386 Sum_probs=208.9
Q ss_pred HHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCcccc
Q 001353 851 AQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMEL 929 (1093)
Q Consensus 851 lq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l 929 (1093)
.+..+++.+.++.+|++.++|||||||++|.++++++.+..++++++++++.+..+.+++..++++ +++++++.+...+
T Consensus 453 ~~~~~~~~~~~~~~~~~~~sHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~~i~~ll~~~~~e~~~~~~ 532 (968)
T TIGR02956 453 ARAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGLTSQQQQYLQVINRSGESLLDILNDILDYSKIEAGHLSI 532 (968)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHhhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCee
Confidence 344566777788999999999999999999999999999888999999999999999999999999 6999999999999
Q ss_pred ceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCc
Q 001353 930 KSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLK 1009 (1093)
Q Consensus 930 ~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~ 1009 (1093)
+..++++.+++++++..+...+..+++.+.++++++.| ..+.+|+.+|.|||.|||.||+||++. |.|.|.+....+
T Consensus 533 ~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~~~~d~~~l~~il~nLi~NAik~~~~--g~i~i~~~~~~~ 609 (968)
T TIGR02956 533 SPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIPEQLP-NWWQGDGPRIRQVLINLVGNAIKFTDR--GSVVLRVSLNDD 609 (968)
T ss_pred eecccCHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCC-ceEeeCHHHHHHHHHHHHHHHHhhCCC--CeEEEEEEEcCC
Confidence 99999999999999999999999999999999987766 478999999999999999999999985 889999887766
Q ss_pred cccCCCceeE-EEEEEecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEE
Q 001353 1010 LIKDADQFVH-VQFRLTHPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVID 1082 (1093)
Q Consensus 1010 ~~~~~~~~~~-v~l~V~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~ 1082 (1093)
. +.|+|.|+|+|||++.+++||+||++ ..+|+||||+|||++++.|||+|+++|.+| ||+|+|.
T Consensus 610 ---------~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~g~GLGL~i~~~l~~~~gG~i~~~s~~~~Gt~f~~~ 680 (968)
T TIGR02956 610 ---------SSLLFEVEDTGCGIAEEEQATLFDAFTQADGRRRSGGTGLGLAISQRLVEAMDGELGVESELGVGSCFWFT 680 (968)
T ss_pred ---------CeEEEEEEeCCCCCCHHHHHHHHhhhhccCCCCCCCCccHHHHHHHHHHHHcCCEEEEEecCCCcEEEEEE
Confidence 5 99999999999999999999999998 337999999999999999999999999998 4999999
Q ss_pred EeecCCc
Q 001353 1083 LELKTRG 1089 (1093)
Q Consensus 1083 LPlp~~~ 1089 (1093)
||++..+
T Consensus 681 lp~~~~~ 687 (968)
T TIGR02956 681 LPLTRGK 687 (968)
T ss_pred EEcCCCC
Confidence 9987643
No 24
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=99.97 E-value=6e-29 Score=323.83 Aligned_cols=222 Identities=25% Similarity=0.387 Sum_probs=205.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCcccccee
Q 001353 854 LEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSE 932 (1093)
Q Consensus 854 ~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~ 932 (1093)
.+++.+..+.++++.++|||||||++|.++++++.....+++++++++.+..+..++..++++ +++++++.+...+..+
T Consensus 390 ~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~~ 469 (921)
T PRK15347 390 RAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNTPLTAEQMDLADTARQCTLSLLAIINNLLDFSRIESGQMTLSLE 469 (921)
T ss_pred HHHHHHHHHHHHHHHhHHHhchhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccceec
Confidence 444555667789999999999999999999999999888999999999999999999999999 6999999999999999
Q ss_pred eeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCcccc
Q 001353 933 EFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIK 1012 (1093)
Q Consensus 933 ~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~ 1012 (1093)
++++.+++++++..+......+++.+.+.+++++| ..+.+|+.+|+||+.||+.||+||++. |.|.|++...++
T Consensus 470 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~d~~~l~~il~NLl~NAik~~~~--g~I~i~~~~~~~--- 543 (921)
T PRK15347 470 ETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAHVP-LYLHLDSLRLRQILVNLLGNAVKFTET--GGIRLRVKRHEQ--- 543 (921)
T ss_pred ccCHHHHHHHHHHHHHHHHHHCCcEEEEEECCCCC-ceEEECHHHHHHHHHHHHHHHhhcCCC--CCEEEEEEEcCC---
Confidence 99999999999999999999999999998888776 478999999999999999999999986 789999888777
Q ss_pred CCCceeEEEEEEecCCCCCChhhHhhhccCCCC---CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecC
Q 001353 1013 DADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ---WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKT 1087 (1093)
Q Consensus 1013 ~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~---~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~ 1087 (1093)
.+.|+|.|||+|||++.+++||+||++ ..+|+||||+||+++++.|||+|+++|.+|+ |+|+|.||+..
T Consensus 544 ------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GLGL~i~~~~~~~~gG~i~i~s~~~~Gt~f~i~lp~~~ 616 (921)
T PRK15347 544 ------QLCFTVEDTGCGIDIQQQQQIFTPFYQADTHSQGTGLGLTIASSLAKMMGGELTLFSTPGVGSCFSLVLPLNE 616 (921)
T ss_pred ------EEEEEEEEcCCCCCHHHHHHHhcCcccCCCCCCCCchHHHHHHHHHHHcCCEEEEEecCCCceEEEEEEECCC
Confidence 899999999999999999999999998 4469999999999999999999999999985 99999999854
No 25
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=99.96 E-value=2.8e-28 Score=317.11 Aligned_cols=223 Identities=22% Similarity=0.353 Sum_probs=203.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCc--cccc
Q 001353 854 LEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGN--MELK 930 (1093)
Q Consensus 854 ~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~--~~l~ 930 (1093)
..++...++..|++.++|||||||++|.++++++.....+++++++++.+..+.+++..++++ +++++++.+. ..++
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 445556678899999999999999999999999998888889999999999999999999999 6999998773 5567
Q ss_pred eeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCcc
Q 001353 931 SEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKL 1010 (1093)
Q Consensus 931 ~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~ 1010 (1093)
.+++++.+++++++..+...+..+++.+.+++++++| ..+.+|+.+|.||+.||+.||+||++. |.|.|.+...++
T Consensus 516 ~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~v~~d~~~l~qil~NLl~NAik~~~~--g~I~i~~~~~~~- 591 (914)
T PRK11466 516 DEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDLP-TALMGDPRRIRQVITNLLSNALRFTDE--GSIVLRSRTDGE- 591 (914)
T ss_pred ccccCHHHHHHHHHHHHHHHHHhCCcEEEEEeCCCCC-ceEEECHHHHHHHHHHHHHHHHHhCCC--CeEEEEEEEcCC-
Confidence 7899999999999999999999999999999988776 479999999999999999999999985 899999887777
Q ss_pred ccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC---CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeec
Q 001353 1011 IKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ---WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELK 1086 (1093)
Q Consensus 1011 ~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~---~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp 1086 (1093)
.+.|.|.|+|+|||++.++++|+||++ +.+|+||||+||+++++.|||+|++.|.+| ||+|+|.||++
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 899999999999999999999999986 567999999999999999999999999987 49999999986
Q ss_pred CC
Q 001353 1087 TR 1088 (1093)
Q Consensus 1087 ~~ 1088 (1093)
..
T Consensus 664 ~~ 665 (914)
T PRK11466 664 VA 665 (914)
T ss_pred cc
Confidence 43
No 26
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=99.96 E-value=3e-28 Score=317.20 Aligned_cols=229 Identities=24% Similarity=0.394 Sum_probs=203.1
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCcccccee
Q 001353 854 LEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSE 932 (1093)
Q Consensus 854 ~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~ 932 (1093)
.+++....+.+|++.++|||||||++|.++.+++.....+++++++++.+..+.+++..++++ +++++++.+...+...
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 445556677899999999999999999999999988888899999999999999999999999 6999999999999999
Q ss_pred eeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCcccc
Q 001353 933 EFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIK 1012 (1093)
Q Consensus 933 ~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~ 1012 (1093)
++++.+++++++..+...+..+++.+.+++++++|. .+.+|+.+|.||+.||+.||+||++. |.|.|++.....
T Consensus 365 ~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~-~~~~d~~~l~~vl~NLl~NAik~~~~--g~v~i~v~~~~~--- 438 (919)
T PRK11107 365 PFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPD-NVIGDPLRLQQIITNLVGNAIKFTES--GNIDILVELRAL--- 438 (919)
T ss_pred ecCHHHHHHHHHHHHHHHHHHcCCEEEEEeCCCCCc-eEEeCHHHHHHHHHHHHHHHhhcCCC--CcEEEEEEEEec---
Confidence 999999999999999999999999999999888764 68999999999999999999999986 667666654322
Q ss_pred CCCceeEEEEEEecCCCCCChhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEe
Q 001353 1013 DADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLE 1084 (1093)
Q Consensus 1013 ~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LP 1084 (1093)
......+.|+|.|+|+|||++.++++|+|||+ +.+|+||||+|||++++.|||+|+++|.+| ||+|+|+||
T Consensus 439 -~~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~g~GLGL~i~~~i~~~~gG~i~v~s~~~~Gt~f~i~lp 517 (919)
T PRK11107 439 -SNTKVQLEVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLGLVITQKLVNEMGGDISFHSQPNRGSTFWFHLP 517 (919)
T ss_pred -CCCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCCCCCCCCCcchhHHHHHHHHHHhCCEEEEEecCCCCEEEEEEEE
Confidence 11123689999999999999999999999985 346999999999999999999999999988 599999999
Q ss_pred ecCCc
Q 001353 1085 LKTRG 1089 (1093)
Q Consensus 1085 lp~~~ 1089 (1093)
++..+
T Consensus 518 ~~~~~ 522 (919)
T PRK11107 518 LDLNP 522 (919)
T ss_pred eccCC
Confidence 86543
No 27
>PRK10490 sensor protein KdpD; Provisional
Probab=99.96 E-value=2.2e-27 Score=302.74 Aligned_cols=216 Identities=17% Similarity=0.244 Sum_probs=187.6
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC--CCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeH
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLESSS--ISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLL 936 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~~~--l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L 936 (1093)
+.+..|++.++|||||||++|.++.+++.... ......+.++.+.+...++.+++++ +++++++.+...+...++++
T Consensus 662 ~lr~~lla~isHELrtPLt~I~g~~~lL~~~l~~~~~~~~~~~~~i~~~~~~l~~li~~LL~~srl~~~~~~l~~~~~~L 741 (895)
T PRK10490 662 QLRNALLAALSHDLRTPLTVLFGQAEILTLDLASEGSPHARQASEIRQQVLNTTRLVNNLLDMARIQSGGFNLRKEWLTL 741 (895)
T ss_pred HHHHHHHHHhHHHHhHHHHHHHHHHHHHhhcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccccCH
Confidence 44667999999999999999999999886432 2233446678888889999999999 69999999999999999999
Q ss_pred HHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCc
Q 001353 937 GNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQ 1016 (1093)
Q Consensus 937 ~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~ 1016 (1093)
.+++++++..+......+++.+ ++++++| .+.+|+..|.|||.||+.||+||++. ++.|.|++...++
T Consensus 742 ~eli~~~l~~l~~~~~~~~i~l--~~~~~~~--~v~~D~~~L~qVL~NLL~NAik~s~~-g~~I~I~~~~~~~------- 809 (895)
T PRK10490 742 EEVVGSALQMLEPGLSGHPINL--SLPEPLT--LIHVDGPLFERVLINLLENAVKYAGA-QAEIGIDAHVEGE------- 809 (895)
T ss_pred HHHHHHHHHHHHHHhcCCCEEE--EcCCCCe--EEEECHHHHHHHHHHHHHHHHHhCCC-CCeEEEEEEEeCC-------
Confidence 9999999999988777665554 5566654 58999999999999999999999987 7899999888777
Q ss_pred eeEEEEEEecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1017 FVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1017 ~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
.+.|+|.|||+|||++.+++||+|||+ ...|+||||+|||++++.|||+|+++|.++ ||+|+|.||+..++
T Consensus 810 --~v~I~V~D~G~GI~~e~~~~IFepF~~~~~~~~~~G~GLGL~Ivk~ive~hGG~I~v~s~~~~Gt~f~i~LPl~~~~ 886 (895)
T PRK10490 810 --RLQLDVWDNGPGIPPGQEQLIFDKFARGNKESAIPGVGLGLAICRAIVEVHGGTIWAENRPEGGACFRVTLPLETPP 886 (895)
T ss_pred --EEEEEEEECCCCCCHHHHHHhcCCCccCCCCCCCCCccHHHHHHHHHHHHcCCEEEEEECCCCeEEEEEEeECCCCC
Confidence 899999999999999999999999997 225899999999999999999999999887 49999999986543
No 28
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.96 E-value=3.5e-26 Score=292.55 Aligned_cols=219 Identities=17% Similarity=0.177 Sum_probs=183.4
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESS-SISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~-~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ 938 (1093)
...+|++.++|||||||++|.++.+++.+. ...++..++++.+....+++..++++ +++++... ...+++++.+
T Consensus 449 ~l~~~~~~iaHeLrtPL~~I~~~~~~l~~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~----~~~~~~~l~~ 524 (828)
T PRK13837 449 AVGTLASGIAHNFNNILGAILGYAEMALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGE----RNTKPFDLSE 524 (828)
T ss_pred HHHHHHHHhhHHhhhHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC----CCCcEEcHHH
Confidence 456899999999999999999999987653 34556778999999999999999999 68888543 3467899999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCC----
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDA---- 1014 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~---- 1014 (1093)
++++++..+.... .+++.+.++.+++. ..+.+|+..|.|||.||+.||+||++. +|.|.|++..........
T Consensus 525 ll~~~~~~~~~~~-~~~i~l~~~~~~~~--~~v~~d~~~L~qvl~NLl~NAik~~~~-~g~I~I~~~~~~~~~~~~~~~~ 600 (828)
T PRK13837 525 LVTEIAPLLRVSL-PPGVELDFDQDQEP--AVVEGNPAELQQVLMNLCSNAAQAMDG-AGRVDISLSRAKLRAPKVLSHG 600 (828)
T ss_pred HHHHHHHHHHHHc-cCCcEEEEEeCCCC--ceEEECHHHHHHHHHHHHHHHHHHccc-CCeEEEEEEEeecccccccccc
Confidence 9999999887654 45678888877653 368999999999999999999999987 789999887651100000
Q ss_pred --CceeEEEEEEecCCCCCChhhHhhhccCCCC-CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecC
Q 001353 1015 --DQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKT 1087 (1093)
Q Consensus 1015 --~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~ 1087 (1093)
.....+.|+|.|||+|||++.+++||+|||+ +.+|+||||+|||++++.|||+|+++|.+| ||+|+|+||+..
T Consensus 601 ~~~~~~~v~i~V~D~G~GI~~e~~~~iFe~F~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~LP~~~ 677 (828)
T PRK13837 601 VLPPGRYVLLRVSDTGAGIDEAVLPHIFEPFFTTRAGGTGLGLATVHGIVSAHAGYIDVQSTVGRGTRFDVYLPPSS 677 (828)
T ss_pred cCCCCCEEEEEEEECCCCCCHHHHHHhhCCcccCCCCCCcchHHHHHHHHHHCCCEEEEEecCCCeEEEEEEEeCCC
Confidence 1123799999999999999999999999998 558999999999999999999999999987 599999999754
No 29
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=99.95 E-value=2.2e-25 Score=253.91 Aligned_cols=344 Identities=16% Similarity=0.201 Sum_probs=252.4
Q ss_pred CcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHH--------------------------------------HHHHH
Q 001353 705 HSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLM--------------------------------------DKFIR 746 (1093)
Q Consensus 705 G~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aE--------------------------------------e~L~~ 746 (1093)
|+--+-.--..|++|++|+++|++.++--+++-...- .++..
T Consensus 133 Gslg~s~R~~~PI~d~~g~~IGvVsVG~~l~~i~~~i~~~~~~l~~~~vl~lligl~ga~~la~~ikr~~~glEP~EIa~ 212 (537)
T COG3290 133 GSLGKSLRAKVPIFDEDGKQIGVVSVGYLLSEIDDVILEFLRPLALIVVLGLLIGLLGAWILARHIKRQMLGLEPEEIAT 212 (537)
T ss_pred ccchhhheeecceECCCCCEEEEEEEeeEhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence 5555555667899999999999999987776532211 23344
Q ss_pred HHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcc--hhccccCCCccc--eee------------EEEcc
Q 001353 747 LQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRH--EVIGITGQGTEN--FPF------------GFFNR 810 (1093)
Q Consensus 747 se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~e--EliG~~~~~~~~--~e~------------~~~~k 810 (1093)
.-+...++++++.. |++.+|..|.+..+|.++++++|+... +.+|..-.+... +.+ ....-
T Consensus 213 l~~er~A~l~si~E---GviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~l~~vl~~~~~~~~~e~~~ 289 (537)
T COG3290 213 LLEERQAMLQSIKE---GVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSDLPEVLETGKPQHDEEIRI 289 (537)
T ss_pred HHHHHHHHHHHhhc---eEEEECCCCeEeehhHHHHHHhcccCcCcccccccceEeeccccCcHHHHhcCCcccchhhhc
Confidence 44556688888888 999999999999999999999998755 466611111111 000 11111
Q ss_pred CCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcC
Q 001353 811 QGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESS 890 (1093)
Q Consensus 811 dG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~ 890 (1093)
+| +++.....|+. .+|+++|++.++||-||-++...++.....-+ +-++..+||..|-|++|.|++++-+-
T Consensus 290 ng--~~~i~nr~pI~-~~~~~~GaI~tFRdktei~~L~eqLt~vr~ya-----~aLRaq~HEfmNkLhtI~GLlql~~y- 360 (537)
T COG3290 290 NG--RLLVANRVPIR-SGGQIVGAIITFRDKTEIKKLTEQLTGVRQYA-----EALRAQSHEFMNKLHTILGLLQLGEY- 360 (537)
T ss_pred CC--eEEEEEeccEE-ECCEEeEEEEEEecHHHHHHHHHHHHHHHHHH-----HHHHHhhHHHHHHHHHHHHHHhhccH-
Confidence 22 35555666665 67899999999999998766655443322222 44667899999999999999998432
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceE
Q 001353 891 SISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALS 970 (1093)
Q Consensus 891 ~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~ 970 (1093)
++..+|+....+ .-...++.+ +.++. +.++..++-.-...+++.++.+.++....+|...
T Consensus 361 ---d~a~~~I~~~~~---~qq~~~~~l-~~~i~-------------~~~lAg~LlgK~~rArElgv~l~Id~~S~l~~~p 420 (537)
T COG3290 361 ---DDALDYIQQESE---EQQELIDSL-SEKIK-------------DPVLAGFLLGKISRARELGVSLIIDPNSQLPQLP 420 (537)
T ss_pred ---HHHHHHHHHHHh---hhhhhHHHH-HHhcc-------------cHHHHHHHHhHHHHHHHcCceEEEcCCCcCCCCC
Confidence 344555555433 333333332 11110 2344455555556678899999999999988866
Q ss_pred EEecHHHHHHHHHHHHHHHHHcCC--CCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-CC
Q 001353 971 LNGDRIRLQLVLSDFLHCVVRHAP--SPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WT 1047 (1093)
Q Consensus 971 v~~D~~~L~qVl~nLl~NAik~t~--~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~ 1047 (1093)
-..++..+--++-||+.||+.+.- .++.+|.+.+...++ ++.++|.|+|+||||+..++||+..|+ +.
T Consensus 421 ~~~~~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~---------~lvieV~D~G~GI~~~~~~~iFe~G~Stk~ 491 (537)
T COG3290 421 SELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGD---------ELVIEVADTGPGIPPEVRDKIFEKGVSTKN 491 (537)
T ss_pred CccChHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCC---------EEEEEEeCCCCCCChHHHHHHHhcCccccC
Confidence 777899999999999999999853 446799999999988 999999999999999999999999555 55
Q ss_pred -CCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1048 -TPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1048 -~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
.+.|.||++||+.|+.+||.|+++|+.+ ||+|.+.+|....+
T Consensus 492 ~~~rGiGL~Lvkq~V~~~~G~I~~~s~~~~Gt~F~i~iP~~~~~ 535 (537)
T COG3290 492 TGGRGIGLYLVKQLVERLGGSIEVESEKGQGTRFSIYIPKVKER 535 (537)
T ss_pred CCCCchhHHHHHHHHHHcCceEEEeeCCCCceEEEEECCCCccc
Confidence 8999999999999999999999999754 69999999987654
No 30
>PRK10364 sensor protein ZraS; Provisional
Probab=99.95 E-value=1.5e-26 Score=277.47 Aligned_cols=213 Identities=16% Similarity=0.248 Sum_probs=187.8
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESS-SISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~-~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ 938 (1093)
...++.+.++||+||||++|.++++++.+. ...++.+++++.+.+..+++..++++ +++++. ......++++.+
T Consensus 236 ~~~~~~~~laHelrtpL~~i~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~ll~~~~~----~~~~~~~~~l~~ 311 (457)
T PRK10364 236 ALGHLAAGVAHEIRNPLSSIKGLAKYFAERAPAGGEAHQLAQVMAKEADRLNRVVSELLELVKP----THLALQAVDLND 311 (457)
T ss_pred HHHHHHHHhhHHhccHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHHHHHHHHHHHHhCc----CCCcceEecHHH
Confidence 344688899999999999999999998763 33455677888899999999999999 577763 234567899999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCcee
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFV 1018 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1018 (1093)
+++.++..+...+..+++.+.++.+++.+ .+.+|+..|.|++.||+.||+||++. +++|.|++...++
T Consensus 312 ~l~~~~~~~~~~~~~~~i~l~~~~~~~~~--~~~~d~~~l~~il~NLl~NA~k~~~~-~~~I~i~~~~~~~--------- 379 (457)
T PRK10364 312 LINHSLQLVSQDANSREIQLRFTANDTLP--EIQADPDRLTQVLLNLYLNAIQAIGQ-HGVISVTASESGA--------- 379 (457)
T ss_pred HHHHHHHHHHHHHHhcCeEEEEEcCCCCc--eEEECHHHHHHHHHHHHHHHHHhcCC-CCeEEEEEEEeCC---------
Confidence 99999999999999999999999888655 47899999999999999999999876 7899999988877
Q ss_pred EEEEEEecCCCCCChhhHhhhccCCCC-CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCCc
Q 001353 1019 HVQFRLTHPGEGIPSHLIEDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTRG 1089 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~~ 1089 (1093)
.+.|+|.|||+|||++.++++|++||+ +.+|+||||++||++++.|||+|+++|.+|+ |+|+|.||+...+
T Consensus 380 ~~~i~V~D~G~Gi~~~~~~~if~~~~~~k~~g~GlGL~iv~~~v~~~gG~i~i~s~~~~Gt~f~i~lP~~~~~ 452 (457)
T PRK10364 380 GVKISVTDSGKGIAADQLEAIFTPYFTTKAEGTGLGLAVVHNIVEQHGGTIQVASQEGKGATFTLWLPVNITR 452 (457)
T ss_pred eEEEEEEECCCCCCHHHHHHHhCccccCCCCCCcccHHHHHHHHHHCCCEEEEEeCCCCcEEEEEEecCCCcc
Confidence 899999999999999999999999987 7789999999999999999999999999875 9999999986544
No 31
>PRK10815 sensor protein PhoQ; Provisional
Probab=99.95 E-value=4.6e-26 Score=273.76 Aligned_cols=213 Identities=17% Similarity=0.229 Sum_probs=182.1
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESSS-ISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~~-l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ 938 (1093)
...++++.++|||||||++|.++++.+.... ... .+....+.+...++.+++++ ++.++...+...+..+.+++..
T Consensus 265 ~~~~~l~~isHELRTPLt~I~~~l~~L~~~~~~~~--~~~~~~~~~~i~ri~~~i~~ll~~~~~~~~~~~~~~~~~~l~~ 342 (485)
T PRK10815 265 KYRTTLTDLTHSLKTPLAVLQSTLRSLRSGKQMSV--EQAEPIMLEQISRISQQIGYYLHRASMRSEHNLLSRELHSVAP 342 (485)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCH--HHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCcccccceecHHH
Confidence 3457899999999999999999999887643 222 23334566677888888888 6888888877778889999999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCcee
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFV 1018 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1018 (1093)
++++++..+......+++.+.++++++ ..+.+|+..|.+|+.||+.||++|++. .|.|++...++
T Consensus 343 ll~~~~~~l~~~~~~~~i~i~~~~~~~---~~v~~d~~~l~~vl~NLi~NAik~~~~---~i~I~~~~~~~--------- 407 (485)
T PRK10815 343 LLDNLTSALNKVYQRKGVNITLDISPE---ITFVGEKNDFMEVMGNVLDNACKYCLE---FVEISARQTDE--------- 407 (485)
T ss_pred HHHHHHHHHHHHHHHCCcEEEEecCCC---cEEEeCHHHHHHHHHHHHHHHHHhcCC---cEEEEEEEeCC---------
Confidence 999999999998889999999988765 457899999999999999999999974 57777767666
Q ss_pred EEEEEEecCCCCCChhhHhhhccCCCC---CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCcc
Q 001353 1019 HVQFRLTHPGEGIPSHLIEDMYNGRNQ---WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRGR 1090 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~~~IFe~F~~---~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~~ 1090 (1093)
.+.|+|+|+|+|||++.++++|+||++ ..+|+||||+||+++++.|||+|.++|.++ ||+|+|.||.+....
T Consensus 408 ~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~~~~G~GLGL~Ivk~iv~~~gG~i~v~s~~~~Gt~f~i~lp~~~~~~ 483 (485)
T PRK10815 408 HLHIVVEDDGPGIPESKRELIFDRGQRADTLRPGQGLGLSVAREITEQYEGKISAGDSPLGGARMEVIFGRQHSTP 483 (485)
T ss_pred EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCcchhHHHHHHHHHHcCCEEEEEECCCCEEEEEEEEcCCCCCC
Confidence 899999999999999999999999987 346999999999999999999999999985 599999999875543
No 32
>PRK10604 sensor protein RstB; Provisional
Probab=99.95 E-value=4.6e-26 Score=271.03 Aligned_cols=209 Identities=19% Similarity=0.206 Sum_probs=179.3
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHH
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ 938 (1093)
..+.++++.++|||||||+.|.+.++++.... ++..+ .+.+..++|.+++++ +.+++++.+..++..+++++.+
T Consensus 210 ~~~~~l~~~vsHeLrtPL~~i~~~l~~l~~~~--~~~~~---~i~~~~~~l~~li~~ll~~~rl~~~~~~~~~~~~~l~~ 284 (433)
T PRK10604 210 ASKKQLIDGIAHELRTPLVRLRYRLEMSDNLS--AAESQ---ALNRDIGQLEALIEELLTYARLDRPQNELHLSEPDLPA 284 (433)
T ss_pred HHHHHHHHHhhHhhcChHHHHHHHHHHhcCCC--cHHHH---HHHHHHHHHHHHHHHHHHHHhccCCCcccCCCCCCHHH
Confidence 35668999999999999999999999987432 22222 366778899999999 6999999888888899999999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCcee
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFV 1018 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1018 (1093)
++++++..+......+++.+.++.++ ..+.+|+..+.+++.||+.||++|+. +.|.|++...++
T Consensus 285 ~l~~~i~~~~~~~~~~~i~~~~~~~~----~~~~~d~~~l~~vl~NLl~NAik~~~---~~I~I~~~~~~~--------- 348 (433)
T PRK10604 285 WLSTHLADIQAVTPEKTVRLDTPHQG----DYGALDMRLMERVLDNLLNNALRYAH---SRVRVSLLLDGN--------- 348 (433)
T ss_pred HHHHHHHHHHHHhhcCcEEEEecCCC----ceEecCHHHHHHHHHHHHHHHHHhCC---CeEEEEEEEECC---------
Confidence 99999999988777777777665433 35778999999999999999999984 688898888777
Q ss_pred EEEEEEecCCCCCChhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1019 HVQFRLTHPGEGIPSHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
.+.++|.|||+|||++.+++||+|||+ +.+|+||||+|||++++.|||+|+++|.++ |++|++.||.+.+.
T Consensus 349 ~~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~~~~~~~g~GLGL~ivk~i~~~~gG~i~v~s~~~~G~~f~i~lP~~~~~ 427 (433)
T PRK10604 349 QACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRATGGCGLGLAIVHSIALAMGGSVNCDESELGGARFSFSWPVWHNL 427 (433)
T ss_pred EEEEEEEEcCCCCCHHHHhhcCCCCccCCCCCCCCCCCccchHHHHHHHHHHCCCEEEEEecCCCeeEEEEEEeCCCCC
Confidence 899999999999999999999999997 345899999999999999999999999987 59999999987643
No 33
>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=99.94 E-value=1.5e-24 Score=270.68 Aligned_cols=210 Identities=17% Similarity=0.303 Sum_probs=186.8
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNI 939 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~l 939 (1093)
...++.+.++||+||||+.|.+.++.+.....+++..++++.+....+++..++++ +.+++++.+......+++++.++
T Consensus 484 ~l~~~s~~lSHELrtPL~~I~~~le~L~~~~~~~~~~~~le~i~~~i~~L~~li~~l~~~arle~~~~~~~~~~~dl~~l 563 (703)
T TIGR03785 484 YLENMSSRLSHELRTPVAVVRSSLENLELQALEQEKQKYLERAREGTERLSMILNNMSEATRLEQAIQSAEVEDFDLSEV 563 (703)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccceeecHHHH
Confidence 44568899999999999999999999988777788888999999999999999999 58888887777778899999999
Q ss_pred HHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeE
Q 001353 940 LDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVH 1019 (1093)
Q Consensus 940 l~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1019 (1093)
+++++..+......+++.+.++.++ ..+.+|+..|.+++.||+.||+||+++ ++.|.|++...++ .
T Consensus 564 l~~~i~~~~~~~~~~~i~l~i~~~~----~~i~~d~~~L~~il~NLI~NAik~s~~-~~~I~I~~~~~~~---------~ 629 (703)
T TIGR03785 564 LSGCMQGYQMTYPPQRFELNIPETP----LVMRGSPELIAQMLDKLVDNAREFSPE-DGLIEVGLSQNKS---------H 629 (703)
T ss_pred HHHHHHHHHHHhhcCCEEEEecCCC----eEEEECHHHHHHHHHHHHHHHHHHCCC-CCeEEEEEEEcCC---------E
Confidence 9999999998888777776665432 468999999999999999999999987 7889999888877 8
Q ss_pred EEEEEecCCCCCChhhHhhhccCCCC-C------CCCccchHHHHHHHHHHcCCEEEEEeeCC--eeEEEEEEe
Q 001353 1020 VQFRLTHPGEGIPSHLIEDMYNGRNQ-W------TTPEGLGLKLSRKLLIMMNGRVRYVRENS--KCYFVIDLE 1084 (1093)
Q Consensus 1020 v~l~V~DnG~GIp~e~~~~IFe~F~~-~------~~GtGLGL~ivr~ive~hgG~I~v~S~~g--gt~F~v~LP 1084 (1093)
+.|+|.|+|+|||++.+++||+|||+ + ..|+||||+|||.+++.|||+|++++.++ |++|+|+||
T Consensus 630 v~I~V~D~G~GI~~e~~~~IFe~F~t~~~~~~~~~~g~GLGL~Ivr~Iv~~~gG~I~v~s~~~g~Gt~f~I~LP 703 (703)
T TIGR03785 630 ALLTVSNEGPPLPEDMGEQLFDSMVSVRDQGAQDQPHLGLGLYIVRLIADFHQGRIQAENRQQNDGVVFRISLP 703 (703)
T ss_pred EEEEEEEcCCCCCHHHHHHHhCCCeecCCCCCCCCCCccHHHHHHHHHHHHcCCEEEEEECCCCCeEEEEEEeC
Confidence 99999999999999999999999986 1 23789999999999999999999999875 699999987
No 34
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=99.93 E-value=6.5e-25 Score=263.85 Aligned_cols=218 Identities=17% Similarity=0.248 Sum_probs=190.2
Q ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHH
Q 001353 859 IYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLG 937 (1093)
Q Consensus 859 ~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~ 937 (1093)
...+.++++.++||++|||+.+.+.++.+.+... +...+.+..+.....++.+++++ +++++.+.+...+...++++.
T Consensus 237 ~~~~~~~~~~~shel~~pL~~i~~~~~~l~~~~~-~~~~~~l~~~~~~~~~l~~li~~l~~l~~~~~~~~~~~~~~~~~~ 315 (466)
T PRK10549 237 EQMRRDFMADISHELRTPLAVLRGELEAIQDGVR-KFTPESVASLQAEVGTLTKLVDDLHQLSLSDEGALAYRKTPVDLV 315 (466)
T ss_pred HHHHHHHHHHHhHHhCChHHHHHHHHHHHHhccc-cCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCCHH
Confidence 3445678999999999999999999998876422 22345567777888999999999 488888888888889999999
Q ss_pred HHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCce
Q 001353 938 NILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQF 1017 (1093)
Q Consensus 938 ~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1017 (1093)
++++.++..+......+++.+.+++++. ..+.+|+..+.|++.||+.||++|+++ +|.|.|.+...++
T Consensus 316 ~~l~~~~~~~~~~~~~~~i~i~~~~~~~---~~~~~d~~~l~qvl~nll~NAi~~~~~-~~~I~i~~~~~~~-------- 383 (466)
T PRK10549 316 PLLEVAGGAFRERFASRGLTLQLSLPDS---ATVFGDPDRLMQLFNNLLENSLRYTDS-GGSLHISAEQRDK-------- 383 (466)
T ss_pred HHHHHHHHHHHHHHHHCCcEEEEecCCC---cEEEeCHHHHHHHHHHHHHHHHHhCCC-CCEEEEEEEEcCC--------
Confidence 9999999999998888889999988765 457899999999999999999999987 7899999988887
Q ss_pred eEEEEEEecCCCCCChhhHhhhccCCCCC-------CCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCCc
Q 001353 1018 VHVQFRLTHPGEGIPSHLIEDMYNGRNQW-------TTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTRG 1089 (1093)
Q Consensus 1018 ~~v~l~V~DnG~GIp~e~~~~IFe~F~~~-------~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~~ 1089 (1093)
.+.|.|.|||+|||++.+++||+|||+. .+|+||||++|+++++.|||++.++|.+++ |+|+|.||+..+.
T Consensus 384 -~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~~~~~~~g~GlGL~iv~~i~~~~~G~l~~~s~~~~G~~~~i~lP~~~~~ 462 (466)
T PRK10549 384 -TLRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAICLNIVEAHNGRIIAAHSPFGGVSITVELPLERDL 462 (466)
T ss_pred -EEEEEEEecCCCcCHHHHHHhccCcccCCCCcCCCCCCCcHHHHHHHHHHHHcCCEEEEEECCCCeEEEEEEccCCCCC
Confidence 8999999999999999999999999872 358999999999999999999999998864 9999999987654
Q ss_pred c
Q 001353 1090 R 1090 (1093)
Q Consensus 1090 ~ 1090 (1093)
.
T Consensus 463 ~ 463 (466)
T PRK10549 463 Q 463 (466)
T ss_pred C
Confidence 3
No 35
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=99.93 E-value=6.9e-25 Score=254.28 Aligned_cols=210 Identities=17% Similarity=0.210 Sum_probs=174.6
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeH-HHH
Q 001353 862 KIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLL-GNI 939 (1093)
Q Consensus 862 k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L-~~l 939 (1093)
+.++++.++|||||||++|.++++++..... +. ...+.+..+++...+++ +++++............+++ .++
T Consensus 137 ~~~~~~~~sHelrtPL~~i~~~~e~l~~~~~-~~----~~~~~~~~~~l~~~i~~ll~~~r~~~~~~~~~~~~~~l~~~~ 211 (356)
T PRK10755 137 ERLFTADVAHELRTPLAGIRLHLELLEKQHH-ID----VAPLIARLDQMMHTVEQLLQLARAGQSFSSGHYQTVKLLEDV 211 (356)
T ss_pred HHHHHHHhhHhhcChHHHHHHHHHHHHhccc-hh----HHHHHHHHHHHHHHHHHHHHHHHcccccccccchhhhHHHHH
Confidence 4468999999999999999999998875422 22 23334456778888888 58888766555556677888 999
Q ss_pred HHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeE
Q 001353 940 LDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVH 1019 (1093)
Q Consensus 940 l~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1019 (1093)
+..++..+......+++.+.++.++. ...+.+|+..+.+|+.||+.||+||++. ++.|.|++...++ .
T Consensus 212 i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~v~~d~~~l~~il~nLi~NA~k~~~~-~~~I~I~~~~~~~---------~ 279 (356)
T PRK10755 212 ILPSQDELSEMLEQRQQTLLLPESAA--DITVQGDATLLRLLLRNLVENAHRYSPE-GSTITIKLSQEDG---------G 279 (356)
T ss_pred HHHHHHHHHHHHHHhCCeEEeccCCC--ceEEEECHHHHHHHHHHHHHHHHhhCCC-CCcEEEEEEEcCC---------E
Confidence 99988888888888888888753332 2578999999999999999999999986 7889999887777 8
Q ss_pred EEEEEecCCCCCChhhHhhhccCCCC---CCCCccchHHHHHHHHHHcCCEEEEEeeCC--eeEEEEEEeecCC
Q 001353 1020 VQFRLTHPGEGIPSHLIEDMYNGRNQ---WTTPEGLGLKLSRKLLIMMNGRVRYVRENS--KCYFVIDLELKTR 1088 (1093)
Q Consensus 1020 v~l~V~DnG~GIp~e~~~~IFe~F~~---~~~GtGLGL~ivr~ive~hgG~I~v~S~~g--gt~F~v~LPlp~~ 1088 (1093)
+.|+|.|||+|||++.++++|++|++ ..+|+||||++|+++++.|||+|+++|.++ ||+|++.||....
T Consensus 280 ~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~g~GlGL~i~~~i~~~~gg~i~i~s~~~~~Gt~~~i~~p~~~~ 353 (356)
T PRK10755 280 AVLAVEDEGPGIDESKCGELSKAFVRMDSRYGGIGLGLSIVSRITQLHHGQFFLQNRQERSGTRAWVWLPKAQN 353 (356)
T ss_pred EEEEEEECCCCCCHHHHHHhCCCeEeCCCCCCCcCHHHHHHHHHHHHCCCEEEEEECCCCCeEEEEEEecCCCc
Confidence 99999999999999999999999987 567999999999999999999999999876 5999999987544
No 36
>PRK09835 sensor kinase CusS; Provisional
Probab=99.93 E-value=4e-24 Score=258.05 Aligned_cols=212 Identities=15% Similarity=0.225 Sum_probs=183.8
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHH
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLESSS-ISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLG 937 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~~~-l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~ 937 (1093)
..+.++++.++|||+||++.+.+..+.+.... ...+..+.+..+.....++..++++ +++++.+.+.......++++.
T Consensus 260 ~~~~~~~~~laheL~tpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~ll~~~~~~~~~~~~~~~~~~l~ 339 (482)
T PRK09835 260 TRQSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEELTRMAKMVSDMLFLAQADNNQLIPEKKMLDLA 339 (482)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCceeecHH
Confidence 34567899999999999999998888765433 3344556777777888999999999 689998888777788899999
Q ss_pred HHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCce
Q 001353 938 NILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQF 1017 (1093)
Q Consensus 938 ~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1017 (1093)
++++.++..+......+++.+.++.++ ..+.+|+..|.+|+.||+.||++|+++ ++.|.|++....+
T Consensus 340 ~~i~~~~~~~~~~~~~~~~~~~~~~~~----~~v~~d~~~l~~vl~nll~Na~~~~~~-~~~I~i~~~~~~~-------- 406 (482)
T PRK09835 340 DEVGKVFDFFEAWAEERGVELRFVGDP----CQVAGDPLMLRRAISNLLSNALRYTPA-GEAITVRCQEVDH-------- 406 (482)
T ss_pred HHHHHHHHHHHHHHhhCCEEEEEeCCC----cEEEECHHHHHHHHHHHHHHHHhcCCC-CCeEEEEEEEeCC--------
Confidence 999999999998888888888776432 368999999999999999999999987 6789999888777
Q ss_pred eEEEEEEecCCCCCChhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEee
Q 001353 1018 VHVQFRLTHPGEGIPSHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLEL 1085 (1093)
Q Consensus 1018 ~~v~l~V~DnG~GIp~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPl 1085 (1093)
.+.++|.|+|+|||++.++++|+|||+ +..|+||||+||+++++.|||+|+++|.++|++|+|.||.
T Consensus 407 -~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~~~~~~~g~GlGL~i~~~i~~~~~g~i~~~s~~~g~~~~i~lP~ 480 (482)
T PRK09835 407 -QVQLVVENPGTPIAPEHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVKSIVVAHKGTVAVTSDARGTRFVISLPR 480 (482)
T ss_pred -EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCCCCCcchHHHHHHHHHHHCCCEEEEEECCCcEEEEEEeeC
Confidence 799999999999999999999999986 2358999999999999999999999998888999999985
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=99.92 E-value=9.7e-24 Score=252.67 Aligned_cols=209 Identities=19% Similarity=0.310 Sum_probs=181.9
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESSS-ISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~~-l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ 938 (1093)
...++.+.++||+||||+.+.+..+.+.... ..++..++++.+.....++.+++++ +.+++++.........++++.+
T Consensus 240 ~~~~~~~~~~h~l~tpl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~ll~~~~~~~~~~~~~~~~~~~~~ 319 (457)
T TIGR01386 240 RLSQFSADLAHELRTPLTNLLGQTQVALSQPRTGEEYREVLESNLEELERLSRMVSDMLFLARADNGQLALERVRLDLAA 319 (457)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccCHHH
Confidence 3446788999999999999999888865433 3445567888888889999999999 6999998888888889999999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCcee
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFV 1018 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1018 (1093)
+++.++..+......+++.+.++.+ ..+.+|+..|.+++.|++.||+||++. ++.|.|++...++
T Consensus 320 ~~~~~~~~~~~~~~~~~i~~~~~~~-----~~~~~~~~~l~~~~~nll~Nai~~~~~-~~~I~i~~~~~~~--------- 384 (457)
T TIGR01386 320 ELAKVAEYFEPLAEERGVRIRVEGE-----GLVRGDPQMFRRAISNLLSNALRHTPD-GGTITVRIERRSD--------- 384 (457)
T ss_pred HHHHHHHHHHHHHHhCCeEEEecCC-----ceEEECHHHHHHHHHHHHHHHHHcCCC-CceEEEEEEecCC---------
Confidence 9999999998888888877766543 368999999999999999999999987 7899999988877
Q ss_pred EEEEEEecCCCCCChhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEe
Q 001353 1019 HVQFRLTHPGEGIPSHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLE 1084 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LP 1084 (1093)
.+.|+|.|||+|||++.+.++|++||+ +.+|+||||+||+++++.|||++.+++.++||+|++.||
T Consensus 385 ~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~~~~~g~GlGL~i~~~~~~~~~G~~~~~~~~~G~~~~~~~P 457 (457)
T TIGR01386 385 EVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLAIVRSIMEAHGGRASAESPDGKTRFILRFP 457 (457)
T ss_pred EEEEEEEeCCCCCCHHHHHHhccccccCCcccCCCCCCccccHHHHHHHHHHCCCEEEEEeCCCceEEEEecC
Confidence 899999999999999999999999996 346899999999999999999999999334699999987
No 38
>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=99.92 E-value=2.3e-23 Score=261.22 Aligned_cols=200 Identities=18% Similarity=0.258 Sum_probs=166.8
Q ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHH
Q 001353 863 IKELAYIRQEVKNPLNGIRFVHKLLESSSISE-NQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILD 941 (1093)
Q Consensus 863 ~~~la~isHELrnPLt~I~g~~~LL~~~~l~~-~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~ 941 (1093)
.++.+.++||||||++.+....+..++...++ ..+++++.+.+..++|.++++++.- .....+..++++.++++
T Consensus 476 ~~~~a~i~HdLrn~l~~l~~~l~~~~~~~~~~~~~~~~l~~i~~~~~rl~~ll~~l~~-----~~~~~~~~~~~l~~ll~ 550 (679)
T TIGR02916 476 NRMSAFVVHDLKNLVAQLSLLLRNAERHKDNPEFQDDMLETVENAVNRMKKLLAQLRS-----KGLEEEKLCVDLVDLLR 550 (679)
T ss_pred HHHHHHHHHHhccHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHHHHHHHHHHHh-----cccccCCccccHHHHHH
Confidence 46778899999999999998887776544443 4567888899999999999987521 11245667899999999
Q ss_pred HHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEE
Q 001353 942 AVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQ 1021 (1093)
Q Consensus 942 ~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~ 1021 (1093)
+++....... .. +.++++++ ..+.+|+..+.+|+.||+.||+||+++ +|.|+|++...++ .+.
T Consensus 551 ~~~~~~~~~~--~~--~~l~~~~~---~~v~~d~~~l~~vl~nLl~NAik~~~~-~~~I~I~~~~~~~---------~~~ 613 (679)
T TIGR02916 551 RAIASKRAQG--PR--PEVSIDTD---LSVRADRERLERVLGHLVQNALEATPG-EGRVAIRVERECG---------AAR 613 (679)
T ss_pred HHHHHhhhhc--CC--ceEEeCCC---ceEEECHHHHHHHHHHHHHHHHHhCCC-CCcEEEEEEEcCC---------EEE
Confidence 9988765432 23 33444444 468999999999999999999999987 7899999988777 899
Q ss_pred EEEecCCCCCChhh-HhhhccCCCC-CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEe
Q 001353 1022 FRLTHPGEGIPSHL-IEDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLE 1084 (1093)
Q Consensus 1022 l~V~DnG~GIp~e~-~~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LP 1084 (1093)
++|+|||+|||++. .+++|+||++ +.+|+|+||++||++++.|||+|+++|.+|+ |+|+++||
T Consensus 614 i~V~D~G~Gi~~~~i~~~lF~pf~~~~~~G~GLGL~i~~~iv~~~gG~i~v~s~~g~Gt~f~i~LP 679 (679)
T TIGR02916 614 IEIEDSGCGMSPAFIRERLFKPFDTTKGAGMGIGVYECRQYVEEIGGRIEVESTPGQGTIFTLVLP 679 (679)
T ss_pred EEEEEcCCCcChHHHHHhcCCCCCCCCCCCcchhHHHHHHHHHHcCCEEEEEecCCCceEEEEEeC
Confidence 99999999999999 9999999988 6789999999999999999999999999874 99999987
No 39
>PRK10337 sensor protein QseC; Provisional
Probab=99.91 E-value=3.1e-23 Score=248.19 Aligned_cols=206 Identities=14% Similarity=0.229 Sum_probs=176.3
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHH
Q 001353 862 KIKELAYIRQEVKNPLNGIRFVHKLLESSSISE-NQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNI 939 (1093)
Q Consensus 862 k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~-~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~l 939 (1093)
..+|++.++||||||++.+.+..+.+......+ ....++..+....+++..+++. +.+++++.+......+++++.++
T Consensus 237 ~~~~~~~~ahelrtpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~ll~~~r~~~~~~~~~~~~~~l~~~ 316 (449)
T PRK10337 237 ERRFTSDAAHELRSPLAALKVQTEVAQLSDDDPQARKKALLQLHAGIDRATRLVDQLLTLSRLDSLDNLQDVAEIPLEDL 316 (449)
T ss_pred HHHHHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCcccCHHHH
Confidence 446899999999999999998888776544333 3456888899999999999999 69999887666667789999999
Q ss_pred HHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeE
Q 001353 940 LDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVH 1019 (1093)
Q Consensus 940 l~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1019 (1093)
+++++..+...+..+++.+.++.++.. ..+.+|+..+.+++.||+.||+||++. ++.|.|++..
T Consensus 317 ~~~~~~~~~~~~~~~~i~~~~~~~~~~--~~~~~~~~~l~~vl~Nli~NA~k~~~~-~~~i~i~~~~------------- 380 (449)
T PRK10337 317 LQSAVMDIYHTAQQAGIDVRLTLNAHP--VIRTGQPLLLSLLVRNLLDNAIRYSPQ-GSVVDVTLNA------------- 380 (449)
T ss_pred HHHHHHHHHHHHHHcCCEEEEecCCCC--ceeecCHHHHHHHHHHHHHHHHhhCCC-CCeEEEEEEe-------------
Confidence 999999999888889999999887642 357899999999999999999999987 7788877532
Q ss_pred EEEEEecCCCCCChhhHhhhccCCCC----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEE
Q 001353 1020 VQFRLTHPGEGIPSHLIEDMYNGRNQ----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDL 1083 (1093)
Q Consensus 1020 v~l~V~DnG~GIp~e~~~~IFe~F~~----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~L 1083 (1093)
..++|.|||+|||++.++++|+|||+ ..+|+||||+||+++++.|||+|+++|.++ |++|+|.|
T Consensus 381 ~~i~i~D~G~Gi~~~~~~~if~~f~~~~~~~~~g~GlGL~iv~~i~~~~gg~l~~~s~~~~G~~~~i~~ 449 (449)
T PRK10337 381 RNFTVRDNGPGVTPEALARIGERFYRPPGQEATGSGLGLSIVRRIAKLHGMNVSFGNAPEGGFEAKVSW 449 (449)
T ss_pred eEEEEEECCCCCCHHHHHHhcccccCCCCCCCCccchHHHHHHHHHHHcCCEEEEEecCCCeEEEEEeC
Confidence 25889999999999999999999987 345899999999999999999999999887 48888764
No 40
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=99.91 E-value=7e-23 Score=246.38 Aligned_cols=211 Identities=18% Similarity=0.276 Sum_probs=188.9
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHH
Q 001353 862 KIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNIL 940 (1093)
Q Consensus 862 k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll 940 (1093)
..++++.++||++||++.+.+..+++......+...++++.+....+++..++++ +.+++++..........+++.+++
T Consensus 256 ~~~~~~~~~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~~ 335 (475)
T PRK11100 256 VEQYVQTLTHELKSPLAAIRGAAELLQEDPPPEDRARFTGNILTQSARLQQLIDRLLELARLEQRQELEVLEPVALAALL 335 (475)
T ss_pred HHHHHHHhhhhhcCcHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCccceeccHHHHH
Confidence 4467899999999999999999999887655667788999999999999999999 588888877777778999999999
Q ss_pred HHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEE
Q 001353 941 DAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHV 1020 (1093)
Q Consensus 941 ~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v 1020 (1093)
+.++..+......+++++.++.+ + ..+.+|...|.+++.||+.||++|++. ++.|.|++...++ .+
T Consensus 336 ~~~~~~~~~~~~~~~i~~~~~~~-~---~~~~~~~~~l~~vl~nli~Na~~~~~~-~~~i~i~~~~~~~---------~~ 401 (475)
T PRK11100 336 EELVEAREAQAAAKGITLRLRPD-D---ARVLGDPFLLRQALGNLLDNAIDFSPE-GGTITLSAEVDGE---------QV 401 (475)
T ss_pred HHHHHHHHHHHHhCCceEEEeCC-C---ceEEECHHHHHHHHHHHHHHHHHhCCC-CCEEEEEEEEcCC---------EE
Confidence 99999999988889999988876 2 468899999999999999999999976 7899999988877 89
Q ss_pred EEEEecCCCCCChhhHhhhccCCCC------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeec
Q 001353 1021 QFRLTHPGEGIPSHLIEDMYNGRNQ------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELK 1086 (1093)
Q Consensus 1021 ~l~V~DnG~GIp~e~~~~IFe~F~~------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp 1086 (1093)
.++|+|||.|||++.++++|++|++ ...|+||||++|+.+++.|||++.++|.++ ||+|.|.||..
T Consensus 402 ~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~~~~~~~~GlGL~i~~~~~~~~~G~i~i~s~~~~Gt~v~i~lp~~ 474 (475)
T PRK11100 402 ALSVEDQGPGIPDYALPRIFERFYSLPRPANGRKSTGLGLAFVREVARLHGGEVTLRNRPEGGVLATLTLPRH 474 (475)
T ss_pred EEEEEECCCCCCHHHHHHHHHHHccCCCCCCCCCCcchhHHHHHHHHHHCCCEEEEEEcCCCeEEEEEEeeCC
Confidence 9999999999999999999999986 236899999999999999999999999985 59999999864
No 41
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=99.91 E-value=9e-23 Score=243.10 Aligned_cols=205 Identities=17% Similarity=0.256 Sum_probs=167.5
Q ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeee
Q 001353 857 MDIYAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFL 935 (1093)
Q Consensus 857 ~~~~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~ 935 (1093)
+....+..|++.++|||||||+.|..+.+++... .....+.+....++|..++++ +++.+.... ....+++
T Consensus 224 ~~~~~~~~~~~~lsHeLrtPL~~i~~~~e~~~~~-----~~~~~~~i~~~~~~~~~~i~~~l~~~r~~~~---~~~~~~~ 295 (435)
T PRK09467 224 QLEDDRTLLMAGVSHDLRTPLTRIRLATEMMSEE-----DGYLAESINKDIEECNAIIEQFIDYLRTGQE---MPMEMAD 295 (435)
T ss_pred HHHHHHHHHHHHhhhhccchHHHHHHHHHhcccc-----hHHHHHHHHHHHHHHHHHHHHHHHHhcccCC---CCccccC
Confidence 3344566789999999999999999888876432 223445677778899999999 577775432 3467899
Q ss_pred HHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCC
Q 001353 936 LGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDAD 1015 (1093)
Q Consensus 936 L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~ 1015 (1093)
+.+++.+++.... ..+..+.++++... ..+.+|+..|.+++.||+.||+||+. +.|.|++...++
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 9999999987654 34455666665542 36899999999999999999999973 789998888777
Q ss_pred ceeEEEEEEecCCCCCChhhHhhhccCCCC-----CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecC
Q 001353 1016 QFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-----WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKT 1087 (1093)
Q Consensus 1016 ~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-----~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~ 1087 (1093)
.+.|+|.|+|+|||++.++++|+||++ ..+|+||||+||+++++.|||++.+.+.++ |++|++.||++.
T Consensus 361 ---~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~~~~~~g~GlGL~iv~~i~~~~~g~l~i~~~~~~G~~~~i~lp~~~ 435 (435)
T PRK09467 361 ---RAWFQVEDDGPGIPPEQLKHLFQPFTRGDSARGSSGTGLGLAIVKRIVDQHNGKVELGNSEEGGLSARAWLPLTT 435 (435)
T ss_pred ---EEEEEEEecCCCcCHHHHHHhcCCcccCCCCCCCCCeehhHHHHHHHHHHCCCEEEEEECCCCcEEEEEEEeCCC
Confidence 899999999999999999999999986 256899999999999999999999998876 599999999863
No 42
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=99.91 E-value=1.2e-22 Score=243.81 Aligned_cols=210 Identities=17% Similarity=0.240 Sum_probs=176.5
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHH
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGN 938 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ 938 (1093)
..+.++++.++||++|||+.|.+..+++....... ..+..+....+++.+++++ +.+++.+.. ..+..+.+++..
T Consensus 241 ~~~~~~~~~~shel~tpl~~i~~~~~~~~~~~~~~---~~~~~i~~~~~~l~~~i~~l~~~~~~~~~-~~~~~~~~~l~~ 316 (461)
T PRK09470 241 TSQQRLLSDISHELRTPLTRLQLATALLRRRQGES---KELERIETEAQRLDSMINDLLVLSRNQQK-NHLERETFKANS 316 (461)
T ss_pred HHHHHHHHhhhHhhCCHHHHHHHHHHHHhhccCCh---HHHHHHHHHHHHHHHHHHHHHHHHHhhcc-cccccceecHHH
Confidence 34457899999999999999999988887643222 2356677788999999999 588887553 356778999999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCcee
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFV 1018 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1018 (1093)
++++++..+.......++.+.++..++ ...+.+|+..|.+++.||+.||++|++ +.|.|++...++
T Consensus 317 ~~~~~~~~~~~~~~~~~~~~~i~~~~~--~~~~~~~~~~l~~~l~nli~NA~~~~~---~~i~i~~~~~~~--------- 382 (461)
T PRK09470 317 LWSEVLEDAKFEAEQMGKSLTVSAPPG--PWPINGNPNALASALENIVRNALRYSH---TKIEVAFSVDKD--------- 382 (461)
T ss_pred HHHHHHHHHHHHHHHCCCeEEEecCCc--ceEEEECHHHHHHHHHHHHHHHHHhCC---CcEEEEEEEECC---------
Confidence 999999988877777888888875443 257899999999999999999999986 468888777777
Q ss_pred EEEEEEecCCCCCChhhHhhhccCCCC-------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecC
Q 001353 1019 HVQFRLTHPGEGIPSHLIEDMYNGRNQ-------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKT 1087 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~~~IFe~F~~-------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~ 1087 (1093)
.+.|+|.|||+||+++.++++|+|||+ ..+|+||||+||+++++.|||++.+.|.++ ||+|++.||+..
T Consensus 383 ~~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~~~~~g~GlGL~iv~~~v~~~~G~l~~~s~~~~Gt~~~i~lp~~~ 459 (461)
T PRK09470 383 GLTITVDDDGPGVPEEEREQIFRPFYRVDEARDRESGGTGLGLAIVENAIQQHRGWVKAEDSPLGGLRLTIWLPLYK 459 (461)
T ss_pred EEEEEEEECCCCCCHHHHHHhcCCCccCCcccCCCCCCcchhHHHHHHHHHHCCCEEEEEECCCCeEEEEEEeeCCC
Confidence 899999999999999999999999987 235899999999999999999999999886 599999999853
No 43
>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=9.7e-25 Score=206.94 Aligned_cols=105 Identities=35% Similarity=0.508 Sum_probs=92.9
Q ss_pred HhhccCCCCCCccceEEEEeCCCceEEEEecChhhhhCCC---CcccccccccccCCccccccCCchHHHHHHHHhcccc
Q 001353 84 LSKIQRGGLIQPFGCMLAVEEPTFRIIGYSENCLEMLDLR---SRSEDFELNGLIGIDARTLFTPPSGASLAKAAASREI 160 (1093)
Q Consensus 84 ~~~i~~~g~iQp~G~Ll~~~~~~~~i~~~S~N~~~~lg~~---~~~~~~~~~~~lg~~~~~~~~~~~~~~~~~~~~~~~~ 160 (1093)
.||||+||+|||||+|||+|+++++|+|+|+|+.++||.+ + ..++|+++.++|++...+++++++.....
T Consensus 3 ~EPIH~pG~IQphG~LLa~d~~~~~I~~~S~N~~~~lg~~~~~~-------~~llG~~l~~ll~~~~~~~l~~~~~~~~~ 75 (110)
T PF08446_consen 3 REPIHIPGSIQPHGALLALDPDDLRIVQASENIAELLGIPPELP-------EELLGRPLSELLGAESAERLREALQSESL 75 (110)
T ss_dssp GS-TTC-SEE-TTSEEEEEETTTTBEEEEETTHHHHHSS----H-------HHHTTCBHHHHSCCCCHHHHHHHCTCCCC
T ss_pred cccccCCCccCCCEEEEEEECCCCEEEEEcCCHHHHhCCccccc-------hhhcccCHHHHhCHHHHHHHHHhhhccCc
Confidence 7999999999999999999999999999999999999998 5 57999999999999999999999888777
Q ss_pred cccCceeecccCCCCCccEEEEEeeeCCEEEEEeccC
Q 001353 161 SLLNPILVHSNSRSIEKPFYAILHRIDVGIVIDLEPS 197 (1093)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~f~~~~hr~~~~~~ie~Ep~ 197 (1093)
...+|+.+++ ..+++.|++++||+++.+||||||+
T Consensus 76 ~~~~~~~~~~--~~~~~~f~~~~H~~~~~lilElEp~ 110 (110)
T PF08446_consen 76 SLSNPIALRL--RIGGRPFDAIAHRSGGLLILELEPA 110 (110)
T ss_dssp CCCCCEEEEE--EEEEEEEEEEEEEETTEEEEEEEE-
T ss_pred cccCCeEEEe--ccCCeeEEEEEEEECCEEEEEEeeC
Confidence 7788998875 4478999999999999999999995
No 44
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.90 E-value=3.2e-22 Score=226.64 Aligned_cols=215 Identities=27% Similarity=0.427 Sum_probs=183.0
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCc-cccceeeeeHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGN-MELKSEEFLLGN 938 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~-~~l~~~~v~L~~ 938 (1093)
.+..+++.++||++||++++.++.+++.... .+...+++..+....+++..++++ +++++++... .......+++..
T Consensus 114 ~~~~~~~~~~hel~~pl~~i~~~~~~~~~~~-~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 192 (336)
T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEGL-LDPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELVDLAE 192 (336)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHhccCC-chhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCCCcCHHH
Confidence 3678899999999999999999888665542 222677888888889999999999 6888887652 344467888999
Q ss_pred HHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCcee
Q 001353 939 ILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFV 1018 (1093)
Q Consensus 939 ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~ 1018 (1093)
++..++..+........+.+....++ ...+.+|+..+.++|.||+.||++|++ ++.|.|.+...++
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 99999999998887777888866652 246899999999999999999999998 6899999988877
Q ss_pred EEEEEEecCCCCCChhhHhhhccCCCCCCC---CccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCcc
Q 001353 1019 HVQFRLTHPGEGIPSHLIEDMYNGRNQWTT---PEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRGR 1090 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~---GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~~ 1090 (1093)
++.++|.|+|+|||++.++++|+||++... |+||||++||++++.|||++.++|.++ ||+|+|++|......
T Consensus 259 ~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~g~GlGL~i~~~~~~~~~g~i~~~~~~~~Gt~~~i~lP~~~~~~ 334 (336)
T COG0642 259 QVTISVEDTGPGIPEEELERIFEPFFRTDKSRSGTGLGLAIVKRIVELHGGTISVESEPGKGTTFTIRLPLAPAAA 334 (336)
T ss_pred eEEEEEEcCCCCCCHHHHHHhccCeeccCCCCCCCCccHHHHHHHHHHcCCEEEEEecCCCceEEEEEEecccccc
Confidence 899999999999999999999999998332 899999999999999999999999984 599999999877543
No 45
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.87 E-value=1.9e-19 Score=238.97 Aligned_cols=239 Identities=18% Similarity=0.210 Sum_probs=209.5
Q ss_pred hhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCC
Q 001353 608 QGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGE 687 (1093)
Q Consensus 608 q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~ 687 (1093)
+.++++++.+++++.+++.++++++.+|.++++++||+++.+++|++.++..+...+...++|++.+.+...+.....++
T Consensus 400 ~~e~~l~~~~~~~~~~~~~~~~~i~~~d~~~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~ 479 (1092)
T PRK09776 400 RTEQVNERLMERITLANEAGGIGIWEWDLKPNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQGR 479 (1092)
T ss_pred HHHHHHHHHHHHHHHHHHhcCceEEEEecCCCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHhcC
Confidence 44577888889999999999999999999999999999999999999998655444436788999888888888888887
Q ss_pred CCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEE
Q 001353 688 EDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFA 767 (1093)
Q Consensus 688 ~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~ 767 (1093)
.....++++ .+++| .+|+.....+++|.+|++.+++++.+|||++|++++++++.+++++.+++++++ +|+.
T Consensus 480 ~~~~~e~r~----~~~dG-~~w~~~~~~~~~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~l~~~l~~~~~---~i~~ 551 (1092)
T PRK09776 480 SPFKLEFRI----VVKDG-VRHIRALANRVLNKDGEVERLLGINMDMTEVRQLNEALFQEKERLHITLDSIGE---AVVC 551 (1092)
T ss_pred CCeeEEEEE----EcCCc-eEEEEEeeEEEECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHHHHHHHhcccc---EEEE
Confidence 776666555 46799 999999999999999999999999999999999999999999999999999998 8999
Q ss_pred ecCCCcEeechhhhHHHhCCCcchhcccc------------------------CC--CccceeeEEEccCCcEEEEEEEE
Q 001353 768 SDENACCSEWNAAMEKVTGWMRHEVIGIT------------------------GQ--GTENFPFGFFNRQGQFVEVALTA 821 (1093)
Q Consensus 768 ~D~~g~i~~~N~a~~~l~G~~~eEliG~~------------------------~~--~~~~~e~~~~~kdG~~~~v~~~~ 821 (1093)
.|.+|+++++|+++++++||+.+|++|.. .. .....++.+.+++|+.+|+..+.
T Consensus 552 ~D~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~ 631 (1092)
T PRK09776 552 TDMAMKVTFMNPVAEKMTGWTQEEALGVPLLTVLHITFGDNGPLMENIYSCLTSRSAAYLEQDVVLHCRSGGSYDVHYSI 631 (1092)
T ss_pred ECCCCeEEEEcHHHHHHhCCCHHHHcCCCHHHHcccccCCcchhhHHHHHHHhcCCCccccceEEEEeCCCcEEEEEEEe
Confidence 99999999999999999999999999811 00 01234567789999999999999
Q ss_pred eEeecCCCcEEEEEEEEeecccCcHHHHHHHhH
Q 001353 822 SRRTDAEGKVIGCFCFMQILVPDLQPALEAQGL 854 (1093)
Q Consensus 822 ~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~ 854 (1093)
.|+.+.+|++.|++++++|||++|+.+.++++.
T Consensus 632 ~pi~~~~g~~~g~v~~~~DITe~k~~e~~L~~~ 664 (1092)
T PRK09776 632 TPLSTLDGENIGSVLVIQDVTESRKMLRQLSYS 664 (1092)
T ss_pred eeeecCCCCEEEEEEEEEecchHHHHHHHHHhh
Confidence 999999999999999999999999888776543
No 46
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.87 E-value=4.7e-21 Score=254.33 Aligned_cols=243 Identities=15% Similarity=0.101 Sum_probs=214.7
Q ss_pred hhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCC
Q 001353 608 QGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGE 687 (1093)
Q Consensus 608 q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~ 687 (1093)
+..++|++++++++.++++++++++.+|.+|+++++|+++++++||+.++++|+++. +++++++.+.....+.....++
T Consensus 273 ~~~~~l~~~e~r~~~l~e~~~~~i~~~d~dG~i~~~N~~~~~l~G~~~~el~g~~~~-~~~~~~d~~~~~~~~~~~~~~~ 351 (1092)
T PRK09776 273 AERKHISESETRFRNAMEYSAIGMALVGTEGQWLQVNKALCQFLGYSQEELRGLTFQ-QLTWPEDLNKDLQQVEKLLSGE 351 (1092)
T ss_pred HHHHHHHHHHHHHHHHHHhCCceEEEEcCCCcEEehhHHHHHHhCCCHHHHccCCce-eccCcchhHhHHHHHHHHHcCC
Confidence 445778999999999999999999999999999999999999999999999999998 8889988888877777777665
Q ss_pred CCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEE
Q 001353 688 EDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFA 767 (1093)
Q Consensus 688 ~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~ 767 (1093)
.. .+.......+++|+.+|+.++..+++|.+|++.+++++++|||++|++|+++++++++++.+++..+. ++|.
T Consensus 352 ~~---~~~~e~~~~~~dG~~~~~~~~~~~~~~~~g~~~~~i~~~~DITerk~~e~~l~~~~~~~~~~~~~~~~---~i~~ 425 (1092)
T PRK09776 352 IN---SYSMEKRYYRRDGEVVWALLAVSLVRDTDGTPLYFIAQIEDINELKRTEQVNERLMERITLANEAGGI---GIWE 425 (1092)
T ss_pred cc---ceeeeeEEEcCCCCEEEEEEEEEEEECCCCCEeeehhhHHhhHHHHHHHHHHHHHHHHHHHHHHhcCc---eEEE
Confidence 33 22233334578999999999999999999999999999999999999999999999999999999887 8999
Q ss_pred ecCCCcEeechhhhHHHhCCCcchhcc-----------------------ccCCCccceeeEEEccCCcEEEEEEEEeEe
Q 001353 768 SDENACCSEWNAAMEKVTGWMRHEVIG-----------------------ITGQGTENFPFGFFNRQGQFVEVALTASRR 824 (1093)
Q Consensus 768 ~D~~g~i~~~N~a~~~l~G~~~eEliG-----------------------~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i 824 (1093)
+|.++++++||+++.+++||+.++..+ ..+......++++.++|| .+|+.....++
T Consensus 426 ~d~~~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~dG-~~w~~~~~~~~ 504 (1092)
T PRK09776 426 WDLKPNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQGRSPFKLEFRIVVKDG-VRHIRALANRV 504 (1092)
T ss_pred EecCCCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHhcCCCeeEEEEEEcCCc-eEEEEEeeEEE
Confidence 999999999999999999999887443 234555678999999999 99999999999
Q ss_pred ecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHH
Q 001353 825 TDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMD 858 (1093)
Q Consensus 825 ~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~ 858 (1093)
.|.+|++.+++++.+|||++++.++++++.+++.
T Consensus 505 ~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~l 538 (1092)
T PRK09776 505 LNKDGEVERLLGINMDMTEVRQLNEALFQEKERL 538 (1092)
T ss_pred ECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999887776655443
No 47
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=99.87 E-value=3.7e-21 Score=210.66 Aligned_cols=207 Identities=14% Similarity=0.307 Sum_probs=173.6
Q ss_pred HHHHHHHHhhhhHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHHHHHHHHHhcc-cccccccCccccceeeeeHHHH
Q 001353 864 KELAYIRQEVKNPLNGIRFVHKLLE---SSSISENQRQYLETSDACERQIMTIIDGM-DLRCIEEGNMELKSEEFLLGNI 939 (1093)
Q Consensus 864 ~~la~isHELrnPLt~I~g~~~LL~---~~~l~~~~~~~l~~i~~~~~rl~~lI~dL-dlsrie~g~~~l~~~~v~L~~l 939 (1093)
+-+..++|||++||+++..|+--.. +...++....++++|..-.+||.+||+.| .|+|-.++. ....||+|.++
T Consensus 453 qTmTslaHEinQPLnAmsaYLFsA~~A~e~~~s~qa~~~L~kie~L~eR~~~Iv~sLRqF~Rk~s~~--~~lqpV~L~~~ 530 (673)
T COG4192 453 QTMTSLAHEINQPLNAMSAYLFSARLALEEAPSAQAATSLDKIENLTERMGKIVNSLRQFARKNSSD--ESLQPVRLNSV 530 (673)
T ss_pred HHHHHHHHHhcCchHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCC--CCcccccHHHH
Confidence 4577899999999999997654433 34566777889999999999999999997 898865543 34689999999
Q ss_pred HHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeE
Q 001353 940 LDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVH 1019 (1093)
Q Consensus 940 l~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1019 (1093)
++++...+....+.+.+++....+. ++|.||..+++|||.|++.||++++.....+|.|.+..+.. ..
T Consensus 531 v~~AweLl~~khk~rQ~~Li~ptD~----~~V~gd~v~ieQVlvNl~~NaldA~~h~~p~i~~~~~~~~~--------e~ 598 (673)
T COG4192 531 VEQAWELLQTKHKRRQIKLINPTDD----LMVMGDAVSIEQVLVNLIVNALDASTHFAPWIKLIALGTEQ--------EM 598 (673)
T ss_pred HHHHHHHHHhhhhhccccccCCccc----ceecchhhhHHHHHHHHHHHHHhhhccCCceEEEEeecCcc--------cc
Confidence 9999999999998888888765533 48999999999999999999998865433799988766332 27
Q ss_pred EEEEEecCCCCCChhhHhhhccCCCC-CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEe
Q 001353 1020 VQFRLTHPGEGIPSHLIEDMYNGRNQ-WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLE 1084 (1093)
Q Consensus 1020 v~l~V~DnG~GIp~e~~~~IFe~F~~-~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LP 1084 (1093)
+++.|.|||+|.|-+..+++|.||.+ |.-|.||||+||..+++.|.|++.+.|...+ ++..+.|.
T Consensus 599 l~i~i~DnGqGwp~~l~dkLl~PFttsK~vgLGlGLSIsqSlmeqmqG~l~lAStLt~nA~ViL~f~ 665 (673)
T COG4192 599 LRIAIIDNGQGWPHELVDKLLTPFTTSKEVGLGLGLSISQSLMEQMQGRLALASTLTKNAMVILEFQ 665 (673)
T ss_pred eEEEEecCCCCCchhHHHHhcCCcccccccccccchhHHHHHHHHhcCcchHhhhcccCcEEEEEEe
Confidence 89999999999999999999999987 7789999999999999999999999998876 65555443
No 48
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=99.84 E-value=1.9e-19 Score=216.55 Aligned_cols=193 Identities=15% Similarity=0.197 Sum_probs=153.9
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHH
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLESSSI-SENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLG 937 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l-~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~ 937 (1093)
..+.++.+.++||++|||++|.+..+++++... +++.++..+.+.+...++.+.+++ ++..+ ....+++++.
T Consensus 300 ~~r~~ia~elhdeI~~pLtaI~~~a~ll~~~~~~~~~~~~~~~~I~~~~~~l~~~vr~LL~~lr------~~~l~~~~L~ 373 (495)
T PRK11644 300 SVRRDVARELHDEIGQTITAIRTQAGIIKRLAADNASVKQSAQLIEQLSLGVYDTVRRLLGRLR------PRQLDDLTLE 373 (495)
T ss_pred HHHHHHHHHhhhhhhhHHHHHHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhccC------CcccccCCHH
Confidence 345578888999999999999999998876433 344567788888888888888888 43322 2234578999
Q ss_pred HHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCce
Q 001353 938 NILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQF 1017 (1093)
Q Consensus 938 ~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~ 1017 (1093)
+.+++++..+.......++++..+.++. + ....++..+.|++.|+++||+||+++ +.|.|++...++
T Consensus 374 ~~l~~l~~~l~~~~~~~~v~l~~~~~~~--~-l~~~~~~~L~ril~nlL~NAiKha~~--~~I~I~l~~~~~-------- 440 (495)
T PRK11644 374 QAIRSLMREMELEDRGIVSHLDWRIDES--A-LSETQRVTLFRVCQEGLNNIVKHADA--SAVTLQGWQQDE-------- 440 (495)
T ss_pred HHHHHHHHHHHHhhcCceEEEEecCCcc--c-CChhHHHHHHHHHHHHHHHHHHhCCC--CEEEEEEEEcCC--------
Confidence 9999999888765544455555544432 1 35567889999999999999999986 789999887777
Q ss_pred eEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEee
Q 001353 1018 VHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLEL 1085 (1093)
Q Consensus 1018 ~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPl 1085 (1093)
.+.++|+|||+|||++. .|+|+||+++|++++.|||+++++| .+||+|+|++|.
T Consensus 441 -~i~l~V~DnG~Gi~~~~------------~~~GLGL~ivr~iv~~~GG~i~v~S-~~Gt~f~I~LP~ 494 (495)
T PRK11644 441 -RLMLVIEDDGSGLPPGS------------GQQGFGLRGMRERVTALGGTLTISC-THGTRLSVSLPQ 494 (495)
T ss_pred -EEEEEEEECCCCCCcCC------------CCCCCcHHHHHHHHHHcCCEEEEEc-CCCEEEEEEEeC
Confidence 89999999999999763 4679999999999999999999999 557999999995
No 49
>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=99.83 E-value=3.9e-19 Score=212.35 Aligned_cols=221 Identities=14% Similarity=0.093 Sum_probs=176.4
Q ss_pred HHHHHHHHHHHHHHHHhcCccEEEECC-CCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCC
Q 001353 610 VDELSSVACEMVRLIETATAPIFGVDS-SGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEE 688 (1093)
Q Consensus 610 ~~eL~~~~~~l~~lie~~~~~I~~~D~-dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~ 688 (1093)
..+|++++++|+.++++++++++++|. +|+|+++|+++++++||+.++++|+++. +++++++.+.+...+.....++.
T Consensus 125 ~~~l~~~e~r~~~l~e~~~~~i~~~d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~-~~~~~~~~~~~~~~l~~~~~~g~ 203 (442)
T TIGR02040 125 YWTLREMETRYRVVLEVSSDAVLLVDMSTGRIVEANSAAAALLGGVGQSLVGRAFP-QEFEGRRREELMLTLRNVRATGS 203 (442)
T ss_pred HHHHHHHHHHHHHHHhhCCceEEEEECCCCEEEEEcHHHHHHhCcCHHHHcCCCHH-HhCCHHHHHHHHHHHHHHHhcCC
Confidence 357888899999999999999999998 7999999999999999999999999998 88899888888888888776665
Q ss_pred CceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEe
Q 001353 689 DKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFAS 768 (1093)
Q Consensus 689 ~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~ 768 (1093)
....++.+ ++|+..| .+...++.. +|. ..+++.++|||+++++++++. ++|+.+++++++ +|+++
T Consensus 204 ~~~~~~~~------~~~~~~~-~~~~~~~~~-~~~-~~~l~~~~dit~~~~~e~~~~---~~~~~l~e~~~d---~I~v~ 268 (442)
T TIGR02040 204 AAPVRILL------RRSQKRL-LVVVSVFRQ-DGE-SLFLCQLSPAGATQPVGDELS---ENLARLYHEAPD---AIVFS 268 (442)
T ss_pred CcceEEEE------cCCCeEE-EEEEEEEEe-CCc-eEEEEEEcccchhhhhhHHHH---HHHHHHHHhCCc---eEEEE
Confidence 43333322 2344444 344555553 333 356677899999998887653 379999999998 89999
Q ss_pred cCCCcEeechhhhHHHhCCC-cchhccc---------------------cCCCccceeeEEEccCCcEEEEEEEEeEeec
Q 001353 769 DENACCSEWNAAMEKVTGWM-RHEVIGI---------------------TGQGTENFPFGFFNRQGQFVEVALTASRRTD 826 (1093)
Q Consensus 769 D~~g~i~~~N~a~~~l~G~~-~eEliG~---------------------~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d 826 (1093)
|.+|+|+++|+++++++||+ .++++|. ..+....++..+.+++|+.+|+.+++.++.+
T Consensus 269 D~~G~I~~~N~a~~~l~G~~~~~~l~G~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~ve~s~~~i~~ 348 (442)
T TIGR02040 269 DADGTIRGANEAFLELTDSSSLEAVRGRTLDRWLGRGGVDLRVLLSNVRRTGQVRLYATTLTGEFGAQTEVEISAAWVDQ 348 (442)
T ss_pred cCCCcEEehhHHHHHHhCCCChHHHcCCCHHHHhCCCcccHHHHHHHHhhcCceEEEEEEEEcCCCCEEEEEEEEEEecc
Confidence 99999999999999999997 5778881 1122233566778999999999999999987
Q ss_pred CCCcEEEEEEEEeecccCcHHH
Q 001353 827 AEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 827 ~~G~v~g~i~~~~DITe~k~~e 848 (1093)
.++ ..++++++|||++++.+
T Consensus 349 ~~~--~~~~~v~rDITeR~~~~ 368 (442)
T TIGR02040 349 GER--PLIVLVIRDISRRLTMR 368 (442)
T ss_pred CCc--eEEEEEEecchhhccCC
Confidence 665 35788999999987764
No 50
>PRK13560 hypothetical protein; Provisional
Probab=99.81 E-value=1.6e-18 Score=222.80 Aligned_cols=241 Identities=18% Similarity=0.176 Sum_probs=190.6
Q ss_pred hhhHHHHHHHHHHH-HHHHHhcCccEEEECCCCc----EEEecHHHHHhcCCCccccCCCC-ccccccccccHHHHH---
Q 001353 607 MQGVDELSSVACEM-VRLIETATAPIFGVDSSGT----INGWNAKVAELTGLPASEAMGKS-LIDEVVHEESQGAVE--- 677 (1093)
Q Consensus 607 ~q~~~eL~~~~~~l-~~lie~~~~~I~~~D~dG~----I~~~N~~~~~llG~~~eeliG~~-~~~~lv~~~~~~~~~--- 677 (1093)
+..+++|+++++++ +.+++++|++++.++.+|. +.+++++..+++|+.+.++++.. ....++||++.+.+.
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 34567788888888 9999999999999877766 33477777888888888766543 223678888887664
Q ss_pred ----HHHHHHHcCCCCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHH
Q 001353 678 ----NLICRALLGEEDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEA 753 (1093)
Q Consensus 678 ----~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~ 753 (1093)
+.+..++..+.....++++. ++|| .|+.+...|.++.+|.+ ++.++++|||++|++|++|++++++|+.
T Consensus 136 ~~~~~~~~~~~~~~~~~~~e~r~~----~~dg--~~~~~~~~~~~~~~g~~-~~~g~~~DIT~rk~ae~~l~~~~~~l~~ 208 (807)
T PRK13560 136 FRSAETIAMALQSDDWQEEEGHFR----CGDG--RFIDCCLRFERHAHADD-QVDGFAEDITERKRAEERIDEALHFLQQ 208 (807)
T ss_pred hhHHHHHHHHhccCcccceEEEEE----eCCc--cEEEEEeeeeecCCCce-EEEEEEEccchHHHHHHHHHHHHHHHHH
Confidence 33444444444445555543 5677 47777888888888876 6889999999999999999999999999
Q ss_pred HHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCccceeeEEEccC
Q 001353 754 IIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFPFGFFNRQ 811 (1093)
Q Consensus 754 i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e~~~~~kd 811 (1093)
+++++++ ++|+.|.+|+++++|+++++++||+++|++| ........++..+.++|
T Consensus 209 l~e~~~~---~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~d 285 (807)
T PRK13560 209 LLDNIAD---PAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDADGSQIIEAEFQNKD 285 (807)
T ss_pred HHhhCCC---eEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccCCceEEEEEEEcCC
Confidence 9999998 8999999999999999999999999999998 12233445678899999
Q ss_pred CcEEEEEEE--EeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHH
Q 001353 812 GQFVEVALT--ASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDM 857 (1093)
Q Consensus 812 G~~~~v~~~--~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~ 857 (1093)
|+.+|+.+. ..+..+.+|.+.|++++++|||++++.+.++++..++
T Consensus 286 G~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se~~ 333 (807)
T PRK13560 286 GRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDM 333 (807)
T ss_pred CCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHHHH
Confidence 999966654 4567899999999999999999999988776654443
No 51
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.74 E-value=1.4e-16 Score=204.85 Aligned_cols=222 Identities=12% Similarity=0.109 Sum_probs=178.0
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLR 697 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~ 697 (1093)
..+..+++.++++++++|.+|+|++||+++++++||++++++|+++. .+++++........+.....++......+...
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 34577899999999999999999999999999999999999999998 88888766655555555555443322112222
Q ss_pred EeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeec
Q 001353 698 KFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEW 777 (1093)
Q Consensus 698 ~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~ 777 (1093)
....+++|..+|+.+...++ +.+|.. +++++.+|||++++.++++ ..+..++++.+. +++++|.+|+++++
T Consensus 91 ~~~~~~dG~~~~v~~~~~~~-~~~g~~-~~~~~~~DiT~~~~~~~~~----~~~~~~~~~~~~---~i~~~d~~g~i~~~ 161 (799)
T PRK11359 91 LQLEKKDGSKIWTRFALSKV-SAEGKV-YYLALVRDASVEMAQKEQT----RQLIIAVDHLDR---PVIVLDPERRIVQC 161 (799)
T ss_pred eEEecCCcCEEEEEEEeeee-ccCCce-EEEEEEeeccchhhhHHHH----HHHHHHHhcCCC---cEEEEcCCCcEEEE
Confidence 23357899999999988876 445554 5678889999988776654 445567888887 89999999999999
Q ss_pred hhhhHHHhCCCcchhcc-----------------------ccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEE
Q 001353 778 NAAMEKVTGWMRHEVIG-----------------------ITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGC 834 (1093)
Q Consensus 778 N~a~~~l~G~~~eEliG-----------------------~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~ 834 (1093)
|+++++++||+.++++| ..+......++++.+++|..+|+..+..|+.+.+|.+.++
T Consensus 162 N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~v~d~~g~~~~~ 241 (799)
T PRK11359 162 NRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWIKASISPVYDVLAHLQNL 241 (799)
T ss_pred ChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCcceeEEeCCCCCEEEEEeeeeeeecCCCceeEE
Confidence 99999999999999888 1122334456788899999999999999999999999999
Q ss_pred EEEEeecccCcHHHH
Q 001353 835 FCFMQILVPDLQPAL 849 (1093)
Q Consensus 835 i~~~~DITe~k~~e~ 849 (1093)
+++.+|||++++.+.
T Consensus 242 ~~~~~DITerk~~e~ 256 (799)
T PRK11359 242 VMTFSDITEERQIRQ 256 (799)
T ss_pred EEEeehhhhHHHHHH
Confidence 999999999887653
No 52
>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=99.74 E-value=9e-18 Score=160.60 Aligned_cols=103 Identities=23% Similarity=0.435 Sum_probs=96.0
Q ss_pred ecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC------C
Q 001353 973 GDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ------W 1046 (1093)
Q Consensus 973 ~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~------~ 1046 (1093)
||+..|.++|.||+.||++|++. ++.|.|.+....+ ++.|+|.|+|.|||++.++++|++|++ .
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 68999999999999999999987 6999999999888 999999999999999999999999986 2
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEee
Q 001353 1047 TTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLEL 1085 (1093)
Q Consensus 1047 ~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPl 1085 (1093)
.+|+|+||++|+.+++.|+|++++.+.++ +|+|++.+|+
T Consensus 71 ~~g~GlGL~~~~~~~~~~~g~l~~~~~~~~gt~v~~~~p~ 110 (111)
T PF02518_consen 71 ISGHGLGLYIVKQIAERHGGELTIESSEGGGTTVTFTLPL 110 (111)
T ss_dssp SSSSSHHHHHHHHHHHHTTEEEEEEEETTTEEEEEEEEEG
T ss_pred cCCCChHHHHHHHHHHHCCCEEEEEEcCCCcEEEEEEEEC
Confidence 46899999999999999999999999965 5999999996
No 53
>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=99.69 E-value=5.5e-16 Score=185.27 Aligned_cols=210 Identities=17% Similarity=0.158 Sum_probs=156.9
Q ss_pred HHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeec
Q 001353 623 LIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQ 702 (1093)
Q Consensus 623 lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~ 702 (1093)
++++++++++++|.+|+|++||..+++++||+.++++|+++. +++++++.+.+...+..+..++.. ..+.+ .....
T Consensus 1 ~~~~~~d~~~~~d~~g~i~~~n~~~~~~~g~~~~el~G~~~~-~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e--~~~~~ 76 (442)
T TIGR02040 1 LLATAADVTLLLDAEGVVREVAANPHHPSFEQLSEWEGRRWE-EIVTAESVEKFELRLSEALRTGRG-AVRVE--LNHID 76 (442)
T ss_pred CCcccCcEEEEECCCCcEEEEEECCCcccccccccCCCCcHh-HhhCcchHHHHHHHHHHHhccCCC-cceEe--eccCC
Confidence 367899999999999999999999999999999999999998 999998888888877776666543 12222 22345
Q ss_pred cCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHH-----------HH---HHHHHHHHHHHHHHhcCCCCCceEEe
Q 001353 703 KQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVL-----------MD---KFIRLQGDYEAIIQSVNPLIPPIFAS 768 (1093)
Q Consensus 703 kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~a-----------Ee---~L~~se~~lr~i~~~~~~li~~I~~~ 768 (1093)
++|..+|+.++..++.+. .+++++++|||+++.. |+ +|++++++|+.+++++++ +||++
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 566677787777776542 2678899999875433 33 677888999999999998 89999
Q ss_pred cC-CCcEeechhhhHHHhCCCcchhccc----------------------cCCCccceeeEEEccCCcEEEEEEEEeEee
Q 001353 769 DE-NACCSEWNAAMEKVTGWMRHEVIGI----------------------TGQGTENFPFGFFNRQGQFVEVALTASRRT 825 (1093)
Q Consensus 769 D~-~g~i~~~N~a~~~l~G~~~eEliG~----------------------~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~ 825 (1093)
|. +|+++++|+++++++||++++++|. ..+. ..++.+..++|...| .+...++.
T Consensus 150 d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~--~~~~~~~~~~~~~~~-~~~~~~~~ 226 (442)
T TIGR02040 150 DMSTGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGS--AAPVRILLRRSQKRL-LVVVSVFR 226 (442)
T ss_pred ECCCCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCC--CcceEEEEcCCCeEE-EEEEEEEE
Confidence 98 8999999999999999999999981 1111 223344455555544 34455554
Q ss_pred cCCCcEEEEEEEEeecccCcHHH
Q 001353 826 DAEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 826 d~~G~v~g~i~~~~DITe~k~~e 848 (1093)
. +|.. .+++.+.|||++++.+
T Consensus 227 ~-~~~~-~~l~~~~dit~~~~~e 247 (442)
T TIGR02040 227 Q-DGES-LFLCQLSPAGATQPVG 247 (442)
T ss_pred e-CCce-EEEEEEcccchhhhhh
Confidence 3 3433 5678889999876554
No 54
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=99.69 E-value=1.4e-15 Score=187.64 Aligned_cols=194 Identities=13% Similarity=0.171 Sum_probs=140.9
Q ss_pred HHHHHHHHHhhhhHHHHHHHHHHH----HhcC--CCCHHHHHHHHHHHHHHHHHHHHHhcc-cccccccCccccceeeee
Q 001353 863 IKELAYIRQEVKNPLNGIRFVHKL----LESS--SISENQRQYLETSDACERQIMTIIDGM-DLRCIEEGNMELKSEEFL 935 (1093)
Q Consensus 863 ~~~la~isHELrnPLt~I~g~~~L----L~~~--~l~~~~~~~l~~i~~~~~rl~~lI~dL-dlsrie~g~~~l~~~~v~ 935 (1093)
.+....++||+++|+..+..++.+ +... ...++..+.+..+.....++.+.+.++ ... .....+++
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 344566899999888887766543 3321 223445556666666666666666663 222 23456789
Q ss_pred HHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeC-CccccCC
Q 001353 936 LGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPG-LKLIKDA 1014 (1093)
Q Consensus 936 L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~-~~~~~~~ 1014 (1093)
+.+++..++..+..... ..+.+..+.+.. ....+++.++.|++.|++.||+||++. +.|.|.+... .+
T Consensus 434 l~~~l~~~~~~~~~~~~-~~i~~~~~~~~~---~~~~~~~~~l~qv~~nll~NA~k~~~~--~~i~i~~~~~~~~----- 502 (565)
T PRK10935 434 LGSALEEMLDQLRNQTD-AKITLDCRLPSQ---ALDAQQQVHLLQIIREATLNAIKHANA--SEIAVSCVTNPDG----- 502 (565)
T ss_pred HHHHHHHHHHHHHHhhC-CeEEEEeeCCCC---CCCHHHHHHHHHHHHHHHHHHHhcCCC--CeEEEEEEEcCCC-----
Confidence 99999999998876532 234444443332 123344667999999999999999875 8899888766 44
Q ss_pred CceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCCc
Q 001353 1015 DQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTRG 1089 (1093)
Q Consensus 1015 ~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~~ 1089 (1093)
.+.++|.|||+|||++ +..|+|+||+||+++++.|||+|+++|.+|+ |+|+|.||.+...
T Consensus 503 ----~~~i~V~D~G~Gi~~~-----------~~~~~glGL~i~~~iv~~~~G~i~v~s~~~~Gt~~~i~lP~~~~~ 563 (565)
T PRK10935 503 ----EHTVSIRDDGIGIGEL-----------KEPEGHYGLNIMQERAERLGGTLTISQPPGGGTTVSLTFPSQQEP 563 (565)
T ss_pred ----EEEEEEEECCcCcCCC-----------CCCCCCcCHHHHHHHHHHcCCEEEEEECCCCcEEEEEEECCCCCC
Confidence 7999999999999974 2347899999999999999999999999885 9999999988654
No 55
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=99.68 E-value=4e-15 Score=183.55 Aligned_cols=188 Identities=16% Similarity=0.202 Sum_probs=139.4
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHH
Q 001353 866 LAYIRQEVKNPLNGIRFVHKLLES--SSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDA 942 (1093)
Q Consensus 866 la~isHELrnPLt~I~g~~~LL~~--~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~ 942 (1093)
...+++.|.++|+.+...+..+.. ...+++.++.+..+....+++...+.+ +...+. ...+.++.+.+.+
T Consensus 366 arelhd~i~~~L~~l~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~~~~~lr~ll~~~r~-------~~~~~~l~~~l~~ 438 (569)
T PRK10600 366 ARELHDSIAQSLSCMKMQVSCLQMQGDALPESSRELLSQIRNELNASWRQLRELLTTFRL-------QLTEPGLRPALEA 438 (569)
T ss_pred HHHhccHHHHHHHHHHHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc-------CcccCCHHHHHHH
Confidence 334445555566666655544432 334567778888888888888888887 444442 3456788999999
Q ss_pred HHHHHHHHhccCCeEEEeecCCCccceEEE-ecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEE
Q 001353 943 VVSQVMVLLRDKNLHLLHDIPEEIKALSLN-GDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQ 1021 (1093)
Q Consensus 943 v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~-~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~ 1021 (1093)
++..+..... ..+.+..+.++. .+. .++..|.+++.|+++||+||+++ +.|.|++...++ .+.
T Consensus 439 ~~~~~~~~~~-~~i~~~~~~~~~----~~~~~~~~~l~~il~ell~NA~kha~a--~~i~V~~~~~~~---------~~~ 502 (569)
T PRK10600 439 SCEEFSARFG-FPVKLDYQLPPR----LVPSHQAIHLLQIAREALSNALKHAQA--SEVVVTVAQNQN---------QVK 502 (569)
T ss_pred HHHHHHHHhC-CeEEEEecCCcc----cCCHHHHHHHHHHHHHHHHHHHHhCCC--CeEEEEEEEcCC---------EEE
Confidence 9888876542 234444433332 222 23556999999999999999986 789998877777 899
Q ss_pred EEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecC
Q 001353 1022 FRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKT 1087 (1093)
Q Consensus 1022 l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~ 1087 (1093)
|+|.|||+|||++. ..++|+||+||+++++.|||+|++.|.+| ||+|+|+||...
T Consensus 503 l~V~D~G~Gi~~~~-----------~~~~glGL~i~~~~~~~lgG~l~i~s~~~~Gt~v~i~lp~~~ 558 (569)
T PRK10600 503 LSVQDNGCGVPENA-----------ERSNHYGLIIMRDRAQSLRGDCRVRRRESGGTEVVVTFIPEK 558 (569)
T ss_pred EEEEECCCCCCccc-----------cCCCCccHHHHHHHHHHcCCEEEEEECCCCCEEEEEEEecCC
Confidence 99999999999863 24679999999999999999999999987 499999999753
No 56
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.62 E-value=8.4e-14 Score=148.73 Aligned_cols=198 Identities=20% Similarity=0.259 Sum_probs=156.4
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHH
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNIL 940 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll 940 (1093)
.+..++..++|.+||.|+.|.+.+.+..+...++ ..+++.........|..+.+.|.-+ ....++...++
T Consensus 18 ~~~~ll~Ei~HRVKNnLqiIsSll~lq~r~~~~~-~~~~~~~~~~Ri~sla~~He~L~~s---------~~~~~~~~~~~ 87 (221)
T COG3920 18 EKELLLREIHHRVKNNLQIISSLLRLQARKFEDE-VLEALRESQNRIQSLALIHELLYKS---------GDDTWDFASYL 87 (221)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHHHHHhcC---------CcceEcHHHHH
Confidence 4556789999999999999999999887766565 6677777777777777777665211 23567889999
Q ss_pred HHHHHHHHHHhccCCeEEEeecCCCccceEEEec-HHHHHHHHHHHHHHHHHcCCC--CCCeEEEEEEeCCccccCCCce
Q 001353 941 DAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGD-RIRLQLVLSDFLHCVVRHAPS--PDGWVEIKVLPGLKLIKDADQF 1017 (1093)
Q Consensus 941 ~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D-~~~L~qVl~nLl~NAik~t~~--~~g~I~I~v~~~~~~~~~~~~~ 1017 (1093)
+.+...+.+....+.+.+..+..+. +.+..| ...|..|+.+|++||+||+.. ++|.|.|++....+ ++
T Consensus 88 ~~L~~~l~~~~~~~~~~~~~~~~~~---~~l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~--~~---- 158 (221)
T COG3920 88 ELLASNLFPSYGGKDIRLILDSGPN---VFLDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGD--GG---- 158 (221)
T ss_pred HHHHHHHHHhcCCCCceEEEecCCc---eEECchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCC--CC----
Confidence 9999888876555567777777765 345556 688999999999999999654 37999999988877 11
Q ss_pred eEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHH-HHcCCEEEEEeeCCeeEEEEEEeecCCc
Q 001353 1018 VHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLL-IMMNGRVRYVRENSKCYFVIDLELKTRG 1089 (1093)
Q Consensus 1018 ~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~iv-e~hgG~I~v~S~~ggt~F~v~LPlp~~~ 1089 (1093)
...+.|.|||.|+|.+. .. ...|+|+.+++.++ ++.||.+...+.. |++|+|++|.+...
T Consensus 159 -~~~l~v~deg~G~~~~~---------~~-~~~g~G~~Lv~~lv~~q~~g~~~~~~~~-Gt~~~i~~~~~~~~ 219 (221)
T COG3920 159 -RFLLTVWDEGGGPPVEA---------PL-SRGGFGLQLVERLVPEQLGGELEDERPD-GTEFRLRFPLSEAA 219 (221)
T ss_pred -eEEEEEEECCCCCCCCC---------CC-CCCCcHHHHHHHHHHHHcCCeEEEEcCC-CEEEEEEEeccccc
Confidence 47899999999999863 11 45799999999999 8999999998866 79999999987643
No 57
>PRK10547 chemotaxis protein CheA; Provisional
Probab=99.61 E-value=1.7e-14 Score=175.64 Aligned_cols=142 Identities=14% Similarity=0.162 Sum_probs=114.5
Q ss_pred eeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHH---HHHHHHHHHHcCC-----------CCCCe
Q 001353 934 FLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLV---LSDFLHCVVRHAP-----------SPDGW 999 (1093)
Q Consensus 934 v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qV---l~nLl~NAik~t~-----------~~~g~ 999 (1093)
+.+..++...-..++..+...+.++.+.+... .+..|+..+.++ |.||+.||++|+. +.+|.
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 44677777777777666665555666665543 256799999888 6799999999951 22689
Q ss_pred EEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhH---------------------hhhccCCCC-C-----CCCccc
Q 001353 1000 VEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLI---------------------EDMYNGRNQ-W-----TTPEGL 1052 (1093)
Q Consensus 1000 I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~---------------------~~IFe~F~~-~-----~~GtGL 1052 (1093)
|.|++...++ ++.++|+|+|.||+++.+ ..||+|||+ . .+|+|+
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 9999988877 899999999999998754 369999665 2 369999
Q ss_pred hHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecCC
Q 001353 1053 GLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKTR 1088 (1093)
Q Consensus 1053 GL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~~ 1088 (1093)
||.+||++++.|||+|++.|.+|+ |+|++.||+..+
T Consensus 490 GL~iVk~~ve~lgG~I~v~S~~g~Gt~f~i~LPltla 526 (670)
T PRK10547 490 GMDVVKRNIQEMGGHVEIQSKQGKGTTIRILLPLTLA 526 (670)
T ss_pred hHHHHHHHHHHcCCEEEEEecCCCcEEEEEEEechhh
Confidence 999999999999999999999985 999999998764
No 58
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.47 E-value=3.8e-12 Score=135.44 Aligned_cols=353 Identities=15% Similarity=0.130 Sum_probs=212.8
Q ss_pred HHhcCccE-EEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeec
Q 001353 624 IETATAPI-FGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQ 702 (1093)
Q Consensus 624 ie~~~~~I-~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~ 702 (1093)
++--+||+ |++|.+|+= +..-...+..|++++ ++..|+....++..+.++..||.-..+-|+-..
T Consensus 89 ldyG~DGYFF~YD~~G~N---------lvHPrQpelvG~nlw-~L~D~rGd~~Iq~Li~kAq~GGG~~qYlWeKPS---- 154 (459)
T COG4564 89 LDYGSDGYFFVYDYQGTN---------LVHPRQPELVGQNLW-QLTDPRGDRVIQALIAKAQEGGGLHQYLWEKPS---- 154 (459)
T ss_pred cccCCCceEEEEecCCcc---------ccCCCCccccccchh-hccCCCcChHHHHHHHHHHhCCCeEEEeecCCC----
Confidence 44556665 456777753 334445688999999 999999888999999999988876555443221
Q ss_pred cCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhH
Q 001353 703 KQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAME 782 (1093)
Q Consensus 703 kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~ 782 (1093)
.+..--..+...-.|.-+..+|.-....|+...-.+.++ .+++=++..-- + .++..-++..
T Consensus 155 --s~e~v~KLsyaa~ldkW~WMiGTGlYldDv~~~~~~~~~------~~~anId~tf~----~-------Vv~iavv~vl 215 (459)
T COG4564 155 --SHETVDKLSYAAGLDKWEWMIGTGLYLDDVSAETAAAQA------AVRANIDTTFL----I-------VVLIAVVAVL 215 (459)
T ss_pred --cccchhhhccccCccccceeeecceehHhHHHHHHHHHH------HHhcCcchhHH----H-------HHHHHHHHHH
Confidence 111111223333345556667776677777655433322 22211110000 0 0000001111
Q ss_pred HHhCCCcchhccccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHH---
Q 001353 783 KVTGWMRHEVIGITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDI--- 859 (1093)
Q Consensus 783 ~l~G~~~eEliG~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~--- 859 (1093)
-++ ..|..-+..+++.+..++++.+++.-
T Consensus 216 lV~------------------------------------------------~t~lalNl~ehRlAD~kLkeL~qrvv~tQ 247 (459)
T COG4564 216 LVF------------------------------------------------ATCLALNLREHRLADKKLKELAQRVVDTQ 247 (459)
T ss_pred HHH------------------------------------------------HHHHHhhhHHHHhhhhHHHHHHHHHhhch
Confidence 111 12334455566666655555554432
Q ss_pred -HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceee---ee
Q 001353 860 -YAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEE---FL 935 (1093)
Q Consensus 860 -~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~---v~ 935 (1093)
..|.++...++.-|.+.|-+....++++.+.-.++..- .-..+.++++++..-|+.. .|+. ..+.+.. .-
T Consensus 248 edEr~rlaRELHDGIsQ~LVs~k~~lela~~ql~~p~~~-a~~aieKaa~aL~~Ai~EV--RRiS---H~LRP~~LDDLG 321 (459)
T COG4564 248 EDERARLARELHDGISQNLVSVKCALELAARQLNPPKGG-AHPAIEKAADALNGAIKEV--RRIS---HDLRPRALDDLG 321 (459)
T ss_pred hHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccCCCCCCC-CchhhhhHHHHHHHHHHHH--HHhc---cccChhhhhhhh
Confidence 23445566666678888888889999987632222210 0112223334444444431 1111 1222222 33
Q ss_pred HHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCC
Q 001353 936 LGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDAD 1015 (1093)
Q Consensus 936 L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~ 1015 (1093)
|...++.+++.+. ...++.+.++.+.. |......-...|.+|.++-++|.-+|+.+ .+|+|.+....+
T Consensus 322 L~aALe~L~~~f~---~~tg~~itle~~~~-p~~l~~e~~talyRv~QEaltNIErHa~A--trv~ill~~~~d------ 389 (459)
T COG4564 322 LTAALEALLEDFK---ERTGIEITLEFDTQ-PGKLKPEVATALYRVVQEALTNIERHAGA--TRVTILLQQMGD------ 389 (459)
T ss_pred HHHHHHHHHHHhh---hccCeEEEEEecCC-cccCCcHHHHHHHHHHHHHHHHHHhhcCC--eEEEEEeccCCc------
Confidence 4455555555554 45567777665432 22222334678999999999999999976 899999888887
Q ss_pred ceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEeecC
Q 001353 1016 QFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLELKT 1087 (1093)
Q Consensus 1016 ~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPlp~ 1087 (1093)
.+.+.|.|||+|++.+.... .-.|+||.-+++.+...||++.++|+|.||..++.||+-.
T Consensus 390 ---~vql~vrDnG~GF~~~~~~~---------~~~GiGLRNMrERma~~GG~~~v~s~p~GTel~v~Lp~~~ 449 (459)
T COG4564 390 ---MVQLMVRDNGVGFSVKEALQ---------KRHGIGLRNMRERMAHFGGELEVESSPQGTELTVLLPLDA 449 (459)
T ss_pred ---ceEEEEecCCCCccchhhcc---------CccccccccHHHHHHHhCceEEEEecCCCcEEEEEecchh
Confidence 89999999999998764321 2269999999999999999999999999999999999754
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=99.44 E-value=5.8e-13 Score=125.89 Aligned_cols=110 Identities=27% Similarity=0.356 Sum_probs=99.1
Q ss_pred HHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeecc
Q 001353 624 IETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQK 703 (1093)
Q Consensus 624 ie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~k 703 (1093)
++++|++++++|.+|+|+++|+++++++|++.++++|+++. +++++...+.+...+.+++.++.....+... ..
T Consensus 1 l~~~p~~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~ 74 (110)
T PF08448_consen 1 LDSSPDGIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLF-DLLPPEDREEFQAALRRALAGGEPVFFEEIL-----LR 74 (110)
T ss_dssp HHHCSSEEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHH-HHSCCGCHHHHHHHHHHHHHHTSEEEEEEEE-----CT
T ss_pred CCCCCceeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccch-hccccchhhhhHHHHHHhhccCceEEEEEEE-----ee
Confidence 68999999999999999999999999999999999999999 8999999999999999999988764444333 23
Q ss_pred CCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHH
Q 001353 704 QHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKV 739 (1093)
Q Consensus 704 dG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~ 739 (1093)
+|+.+|+.++..|++|.+|++.|++++++|||++|+
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
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.44 E-value=8.2e-12 Score=145.39 Aligned_cols=190 Identities=14% Similarity=0.154 Sum_probs=125.5
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhc--CCCCHHH----HHHHHHHHHHHHHHHHHHhcccccccccCccccceee
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLES--SSISENQ----RQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEE 933 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~--~~l~~~~----~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~ 933 (1093)
+.|.+....+++.+-+-|+++.....+... ....++. +...+.++++.+.++.++.+|.-.. ...
T Consensus 169 ~ER~RIARdLHDsv~q~L~~i~m~~~~~~~~~~~~~e~~~~~l~~i~~~~~e~l~evR~~v~~Lrp~~---------l~~ 239 (365)
T COG4585 169 EERNRIARDLHDSVGQSLTAISMLLALLLLLADEDAEKAQEELKEIEKLLREALQEVRALVRDLRPVE---------LEG 239 (365)
T ss_pred HHHHHHHHHHhhHHhhHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCch---------hhc
Confidence 345555566666666666766641111111 1222222 3344445666666666666551111 111
Q ss_pred eeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccC
Q 001353 934 FLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKD 1013 (1093)
Q Consensus 934 v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~ 1013 (1093)
..+.+-+...+..+. ...++.+..+.....++ .-..-...+.+++++.++||+||+.+ ..+.|++...++
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 223344444444443 44456666655532111 12245788999999999999999998 899999999999
Q ss_pred CCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEee
Q 001353 1014 ADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLEL 1085 (1093)
Q Consensus 1014 ~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPl 1085 (1093)
.+.++|.|||+|++++. .+ .|+||.-+|+.++..||++.+.|.+| ||+.++++|+
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-GGFGLLGMRERVEALGGTLTIDSAPGQGTTVTITLPL 365 (365)
T ss_pred -----EEEEEEEECCcCCCccc-----------cC-CCcchhhHHHHHHHcCCEEEEEecCCCceEEEEecCC
Confidence 99999999999988763 11 68999999999999999999999996 5999999885
No 61
>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=99.41 E-value=2e-12 Score=122.83 Aligned_cols=112 Identities=26% Similarity=0.400 Sum_probs=93.4
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCC-CceEEEEE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEE-DKNVELKL 696 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~-~~~~e~~l 696 (1093)
++|++++++++++++++|.+|+|++||++++++||++.++++|+++. +++++++.......+...+.... ....+..+
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 88888776666666666555443 33333433
Q ss_pred EEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEec
Q 001353 697 RKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDI 734 (1093)
Q Consensus 697 ~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DI 734 (1093)
.. ++|+.+|+.+++.|+++.+|++.|++++++||
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 32 68999999999999999999999999999997
No 62
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=99.40 E-value=2.5e-11 Score=130.89 Aligned_cols=193 Identities=14% Similarity=0.251 Sum_probs=146.5
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHH
Q 001353 860 YAKIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNI 939 (1093)
Q Consensus 860 ~~k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~l 939 (1093)
..|.+....+++||.+.+++|.--..+.++...++..++....|++-+.++-.-+..| +.++. +-...+..+...
T Consensus 301 siRk~vARELHDeIGQnITAIr~Qa~ivkR~~~~~q~kqaas~Ie~LslrI~~svrqL-L~rLR----P~~LDdL~l~qa 375 (497)
T COG3851 301 SIRKDVARELHDEIGQNITAIRTQAGIVKRAADNAQVKQAASLIEQLSLRIYDSVRQL-LGRLR----PRQLDDLTLEQA 375 (497)
T ss_pred HHHHHHHHHHHHHhcchHHHHHHHHHHHHhccCCHhHHhHHHHHHHHHHHHHHHHHHH-HHhcC----CcccccccHHHH
Confidence 3455678888999999999999888888887667777777777766666666655553 22221 112345668888
Q ss_pred HHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeE
Q 001353 940 LDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVH 1019 (1093)
Q Consensus 940 l~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~ 1019 (1093)
+.+++..++ +.+++|...++...+-.+ .-..-...|.++.+++++|.+||+.+ ..|+|.+...++ .
T Consensus 376 i~~l~~Em~--~~ergihcq~~~~~n~~~-ldet~rvTLyRl~QE~LNNI~KHA~A--S~V~i~l~~~~e---------~ 441 (497)
T COG3851 376 IRSLLREME--LEERGIHCQLDWRINETA-LDETQRVTLYRLCQELLNNICKHADA--SAVTIQLWQQDE---------R 441 (497)
T ss_pred HHHHHHHhh--hhhcCeEEEeccccCccc-CCcceeEeHHHHHHHHHHHHHhcccc--ceEEEEEeeCCc---------E
Confidence 888888776 456677777665433111 11112456899999999999999998 899999999888 8
Q ss_pred EEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEe
Q 001353 1020 VQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLE 1084 (1093)
Q Consensus 1020 v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LP 1084 (1093)
+.++|+|||.|+|+.. +-+|+||.-+++.|...||++..+|..| |+..|.+|
T Consensus 442 l~Lei~DdG~Gl~~~~------------~v~G~Gl~GmrERVsaLGG~ltlssq~G-TrviVnLP 493 (497)
T COG3851 442 LMLEIEDDGSGLPPGS------------GVQGFGLTGMRERVSALGGTLTLSSQHG-TRVIVNLP 493 (497)
T ss_pred EEEEEecCCcCCCCCC------------CccCcCcchHHHHHHHhCCceEEEeccC-cEEEEecc
Confidence 9999999999999853 3469999999999999999999999544 88899888
No 63
>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=99.40 E-value=2.2e-12 Score=120.41 Aligned_cols=104 Identities=29% Similarity=0.345 Sum_probs=89.6
Q ss_pred CccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcE
Q 001353 628 TAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSV 707 (1093)
Q Consensus 628 ~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~ 707 (1093)
|++++++|.+|+|+++|+++++++|+++++++|+++. ++++++........+.+++.++.....++.+ .+++|+.
T Consensus 1 p~~i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~----~~~~g~~ 75 (104)
T PF13426_consen 1 PDGIFILDPDGRILYVNPAFERLFGYSREELIGKSIS-DFFPEEDRPEFEEQIERALEEGGSWSGEVRL----RRKDGET 75 (104)
T ss_dssp -SEEEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGG-GGCSTTSCHHHHHHHHHHHHHTSSEEEEEEE----EETTSEE
T ss_pred CEEEEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcc-cccCcccchhhHHHHHHHHhcCCceeEEEEE----EcCCCCE
Confidence 7899999999999999999999999999999999998 8888877777777788877766665555555 4679999
Q ss_pred EEEEEEEEEeecCCCCEEEEEEEEEecch
Q 001353 708 VYILVNACTSRDYKNNVKGVCFVGQDITH 736 (1093)
Q Consensus 708 ~~v~v~~~pi~d~~g~v~gv~~v~~DITe 736 (1093)
+|+.+++.|+.+.+|++.+++++++|||+
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 64
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=99.38 E-value=3.2e-12 Score=128.87 Aligned_cols=153 Identities=18% Similarity=0.232 Sum_probs=117.3
Q ss_pred CHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecCCCCC
Q 001353 230 DIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDCHAIP 309 (1093)
Q Consensus 230 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~~~~~ 309 (1093)
|++++++.+++++++++|+||++||.+++++..-...-.....-.+..+..++.. .....+.......-.|+|+...+
T Consensus 1 Dl~~~l~~~~~~l~~~l~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~d~~~~~ 78 (154)
T PF01590_consen 1 DLDELLQRILRELAELLGADRASIFLLDPDGNRLYSVAGVGLPDPPPGGRRLSMD--ESICGQVLQSREPIVISDVAADP 78 (154)
T ss_dssp SHHHHHHHHHHHHHHHHTESEEEEEEEETTTTEEEEEEEEEGGGSEHHHEEEETT--SSHHHHHHHHTSCEEESSSGGST
T ss_pred CHHHHHHHHHHHHHHHHCCCEEEEEEEecCCCeEEEEEeeccccccccccccccc--ccHHHHHHhCCCeEeeccccccc
Confidence 6899999999999999999999999999999776444443332222223233221 11255666677777888887666
Q ss_pred cccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCC-CCCCchHHHHHHHH
Q 001353 310 VMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSP-RYIPFPLRYACEFL 388 (1093)
Q Consensus 310 ~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p-~~~~~~~r~~~~~l 388 (1093)
-. .+.......+|+.++++.+|+..+|++|.|++||..+| ++||.|.++++.| |.|+.+++.+++.+
T Consensus 79 ~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~g----~~~G~l~l~~~~~~~~~~~~d~~ll~~~ 146 (154)
T PF01590_consen 79 RF--------APQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISGG----RLIGVLSLYRTRPGRPFTEEDLALLESF 146 (154)
T ss_dssp TS--------SCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEETT----EEEEEEEEEEESSSSS--HHHHHHHHHH
T ss_pred cc--------cccccccccccccccccccccccccCceeeEeeeeccc----CcEEEEEEEECCCCCCcCHHHHHHHHHH
Confidence 53 22333445678889999999999999999999999888 9999999999997 99999999999999
Q ss_pred HHHHHHHH
Q 001353 389 VQAFSLQL 396 (1093)
Q Consensus 389 ~~~~~~~l 396 (1093)
++++++.|
T Consensus 147 a~~~a~ai 154 (154)
T PF01590_consen 147 AQQLAIAI 154 (154)
T ss_dssp HHHHHHHH
T ss_pred HHHHHhhC
Confidence 99998865
No 65
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=99.38 E-value=3.7e-11 Score=136.92 Aligned_cols=184 Identities=17% Similarity=0.272 Sum_probs=131.3
Q ss_pred HHHHHHHHhhhhHHHHHHHHHHH----HhcC---CCCHHHHHHHHH----HHHHHHHHHHHHhcccccccccCcccccee
Q 001353 864 KELAYIRQEVKNPLNGIRFVHKL----LESS---SISENQRQYLET----SDACERQIMTIIDGMDLRCIEEGNMELKSE 932 (1093)
Q Consensus 864 ~~la~isHELrnPLt~I~g~~~L----L~~~---~l~~~~~~~l~~----i~~~~~rl~~lI~dLdlsrie~g~~~l~~~ 932 (1093)
+.-+.|+.||+.-|.-..+|+++ |+.. ...++.++.+.. ...+-.+++.++..+ .+...
T Consensus 371 EERatIAReLHDSiAQsLS~LkiQvt~L~~~~~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtTF----------RltL~ 440 (574)
T COG3850 371 EERATIARELHDSIAQSLSFLKIQVTLLKTAIPEELPEKAREIIAQIRQGLNDAYRQLRELLTTF----------RLTLQ 440 (574)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHH----------HHhcc
Confidence 44567788888777777666554 4331 333444444433 445556666666643 22345
Q ss_pred eeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEec-HHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccc
Q 001353 933 EFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGD-RIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLI 1011 (1093)
Q Consensus 933 ~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D-~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~ 1011 (1093)
+-+|...+++++..+.... ++++.+++ .+|+..+..+ ..++-||+.+-++||+||+.+ ..|.|++....+
T Consensus 441 e~~L~~AL~~~~~~f~~qt---g~~~~l~~--qlp~~~lpa~qqvHlLqIvREAlsNa~KHa~A--s~i~V~~~~~~g-- 511 (574)
T COG3850 441 EAELPPALEQMLAEFSNQT---GITVTLDY--QLPPRALPAHQQVHLLQIVREALSNAIKHAQA--SEIKVTVSQNDG-- 511 (574)
T ss_pred cCchHHHHHHHHHHHHhcc---CCeEEEec--cCCCCCCCHHHHHHHHHHHHHHHHHHHHhccc--CeEEEEEEecCC--
Confidence 5677888888888877544 44444433 3344445555 688999999999999999997 889998887777
Q ss_pred cCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEe
Q 001353 1012 KDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLE 1084 (1093)
Q Consensus 1012 ~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LP 1084 (1093)
.++++|.|||+|||+.. ..+| --||.|++..++..||.+.+++.+|| |...++||
T Consensus 512 -------~~~~~VeDnG~Gi~~~~----------e~~g-HyGL~IM~ERA~~L~~~L~i~~~~~gGT~V~ltf~ 567 (574)
T COG3850 512 -------QVTLTVEDNGVGIDEAA----------EPSG-HYGLNIMRERAQRLGGQLRIRRREGGGTEVSLTFP 567 (574)
T ss_pred -------eEEEEEeeCCcCCCCcc----------CCCC-CcchHHHHHHHHHhcCeEEEeecCCCCeEEEEEec
Confidence 89999999999999872 2234 68999999999999999999999886 87777766
No 66
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=99.37 E-value=7e-12 Score=117.97 Aligned_cols=104 Identities=27% Similarity=0.457 Sum_probs=92.9
Q ss_pred ecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-C-----
Q 001353 973 GDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W----- 1046 (1093)
Q Consensus 973 ~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~----- 1046 (1093)
+|+..|.+++.|++.||++|+.. ++.|.|.+..... .+.+.|.|+|.|++++...++|.+++. .
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 46788999999999999999986 6899999988877 899999999999999999999999765 2
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEeeC-CeeEEEEEEeec
Q 001353 1047 TTPEGLGLKLSRKLLIMMNGRVRYVREN-SKCYFVIDLELK 1086 (1093)
Q Consensus 1047 ~~GtGLGL~ivr~ive~hgG~I~v~S~~-ggt~F~v~LPlp 1086 (1093)
..+.|+||++|+.+++.|+|++.+.+.+ ++++|++.+|++
T Consensus 71 ~~~~g~gl~~~~~~~~~~~g~~~~~~~~~~g~~~~~~~~~~ 111 (111)
T smart00387 71 IGGTGLGLSIVKKLVELHGGEISVESEPGGGTTFTITLPLE 111 (111)
T ss_pred CCcccccHHHHHHHHHHcCCEEEEEecCCCcEEEEEEeeCC
Confidence 4679999999999999999999999874 469999999875
No 67
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=99.34 E-value=1.5e-11 Score=150.72 Aligned_cols=166 Identities=16% Similarity=0.234 Sum_probs=124.4
Q ss_pred HHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHH
Q 001353 902 TSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLV 981 (1093)
Q Consensus 902 ~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qV 981 (1093)
.......++.+++.+|.-+- +....+.+..++...-..++..++.-+-++.+.+..+ ....|..-|.++
T Consensus 365 el~~~~~~l~~~~~~LQd~v-------m~~RMvP~~~vf~RfpR~VRdla~~lgK~V~L~ieG~----~telDksIlE~l 433 (716)
T COG0643 365 ELDEALRQLSRLTTDLQDEV-------MKIRMVPFEQVFSRFPRMVRDLARKLGKQVELVIEGE----DTELDKSILERL 433 (716)
T ss_pred HHHHHHHHHHHHHHHHHHHH-------HHHhceeHHHHHhhccHHHHHHHHHhCCeeEEEEecC----CeeehHHHHHHh
Confidence 34444556666666541111 1123456677777777777766666555555555554 256688777776
Q ss_pred ---HHHHHHHHHHcC-----------CCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhh------------
Q 001353 982 ---LSDFLHCVVRHA-----------PSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHL------------ 1035 (1093)
Q Consensus 982 ---l~nLl~NAik~t-----------~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~------------ 1035 (1093)
|..|+.||+.|. .++.|+|+++.+..++ ++.|.|.|+|.||+.+.
T Consensus 434 ~dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn---------~ivIev~DDG~Gid~ekI~~KAiErGli~ 504 (716)
T COG0643 434 GDPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGN---------NIVIEVSDDGAGIDREKIREKAIERGLIT 504 (716)
T ss_pred cccHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCC---------eEEEEEeeCCCCCCHHHHHHHHHHcCCCC
Confidence 789999999993 2347999999999998 99999999999998643
Q ss_pred ------------HhhhccCCCC------CCCCccchHHHHHHHHHHcCCEEEEEeeCCe-eEEEEEEeecC
Q 001353 1036 ------------IEDMYNGRNQ------WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK-CYFVIDLELKT 1087 (1093)
Q Consensus 1036 ------------~~~IFe~F~~------~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg-t~F~v~LPlp~ 1087 (1093)
..-||.|.|+ .-+|.|.||-+||+-++.+||+|.|+|++|+ |+|+++||+-.
T Consensus 505 ~~~a~~lSd~Ei~~LIF~PGFSTa~~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~~G~GT~Fti~LPLTL 575 (716)
T COG0643 505 EEEAETLSDEEILNLIFAPGFSTAEQVTDVSGRGVGMDVVKTNIEQLGGSISVSSEPGKGTTFTIRLPLTL 575 (716)
T ss_pred hHHhccCCHHHHHHHHhcCCCCcchhhhcccCCccCHHHHHHHHHHcCCEEEEEecCCCCeEEEEecCcHH
Confidence 3459999555 5679999999999999999999999999996 99999999854
No 68
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.29 E-value=1.4e-11 Score=145.18 Aligned_cols=110 Identities=15% Similarity=0.258 Sum_probs=88.0
Q ss_pred EecHHHHHHHHHHHHHHHHHcCCCCCC---eEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC--C
Q 001353 972 NGDRIRLQLVLSDFLHCVVRHAPSPDG---WVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ--W 1046 (1093)
Q Consensus 972 ~~D~~~L~qVl~nLl~NAik~t~~~~g---~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~--~ 1046 (1093)
.++...|.|++.||+.||++|++. +| .|.|.+..... ....+.|+|.|||+|||++.++++|++|+. +
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------GKDHYRVTVEDNGPGIPPEEIPKVFGKLLYGSK 103 (535)
T ss_pred cCCHHHHHHHHHHHHHHHHHHhhh-cCCCceEEEEEEEccC------CCcEEEEEEEcCCCCCCHHHHHHHhhhhhcccc
Confidence 345678999999999999999876 34 57777764310 011788999999999999999999999743 1
Q ss_pred -------CCCccchHHHHHHHHHHcCCE-EEEEeeCCe-e-EEEEEEeecCC
Q 001353 1047 -------TTPEGLGLKLSRKLLIMMNGR-VRYVRENSK-C-YFVIDLELKTR 1088 (1093)
Q Consensus 1047 -------~~GtGLGL~ivr~ive~hgG~-I~v~S~~gg-t-~F~v~LPlp~~ 1088 (1093)
.+++||||++|+.+++.|+|. +++.|.+++ + .|.+.||++..
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 246899999999999999987 999998875 5 78999987643
No 69
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.21 E-value=1.1e-10 Score=139.95 Aligned_cols=112 Identities=8% Similarity=0.090 Sum_probs=84.8
Q ss_pred CCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCC---eEEEEEEeCCccccCCCceeEEEEEEecCCCC
Q 001353 954 KNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDG---WVEIKVLPGLKLIKDADQFVHVQFRLTHPGEG 1030 (1093)
Q Consensus 954 ~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g---~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~G 1030 (1093)
+.+.+..-+..+.+.+-...|...|.+++.|||.||++|++. +| .|.|.+...++ ++.|.|.|||+|
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 456666666666443333445778999999999999999976 44 68888877666 899999999999
Q ss_pred CChhhHhhhccCCCC-----------CCCCccchHHHHHHHHHHcCCEEEEEeeCCe
Q 001353 1031 IPSHLIEDMYNGRNQ-----------WTTPEGLGLKLSRKLLIMMNGRVRYVRENSK 1076 (1093)
Q Consensus 1031 Ip~e~~~~IFe~F~~-----------~~~GtGLGL~ivr~ive~hgG~I~v~S~~gg 1076 (1093)
||++.++++|++|++ ...|.||||++++..+ .+||.+.+.|..++
T Consensus 93 Ip~EdLp~IFerf~~tSKf~~~~~srG~rG~GLglai~~sql-t~GgpI~I~S~~~~ 148 (795)
T PRK14868 93 ITKEQIPKVFGKLLYGSRFHAREQSRGQQGIGISAAVLYSQL-TSGKPAKITSRTQG 148 (795)
T ss_pred CCHHHHHHHhhhhcccccccccccCCCCCceehHHHHHHHHH-cCCCcEEEEeCCCC
Confidence 999999999999752 1235555555555555 47999999998754
No 70
>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=99.17 E-value=2.8e-10 Score=105.25 Aligned_cols=97 Identities=30% Similarity=0.497 Sum_probs=82.7
Q ss_pred HHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCC--CC---CCCCccc
Q 001353 978 LQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGR--NQ---WTTPEGL 1052 (1093)
Q Consensus 978 L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F--~~---~~~GtGL 1052 (1093)
|.+++.+++.||++|+...++.|.|.+....+ .+.|.|.|+|.|+++..++++|.+| .. ...+.|+
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 45899999999999987324788888888777 8999999999999999999999875 22 4558999
Q ss_pred hHHHHHHHHHHcCCEEEEEeeC-CeeEEEEEE
Q 001353 1053 GLKLSRKLLIMMNGRVRYVREN-SKCYFVIDL 1083 (1093)
Q Consensus 1053 GL~ivr~ive~hgG~I~v~S~~-ggt~F~v~L 1083 (1093)
||++++++++.|||.+++.+.. ++++|++.+
T Consensus 72 gl~~~~~~~~~~~g~~~~~~~~~~g~~~~~~~ 103 (103)
T cd00075 72 GLSIVKKLVELHGGRIEVESEPGGGTTFTITL 103 (103)
T ss_pred CHHHHHHHHHHcCCEEEEEeCCCCcEEEEEEC
Confidence 9999999999999999999988 568887753
No 71
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.15 E-value=2.1e-10 Score=133.94 Aligned_cols=105 Identities=16% Similarity=0.280 Sum_probs=85.4
Q ss_pred EEecHHHHHHHHHHHHHHHHHcCCCCCC---eEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC--
Q 001353 971 LNGDRIRLQLVLSDFLHCVVRHAPSPDG---WVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-- 1045 (1093)
Q Consensus 971 v~~D~~~L~qVl~nLl~NAik~t~~~~g---~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-- 1045 (1093)
..++...|.+++.||+.||++|+.. .| .|.|.+...+. .++.++|.|||+|||++.++++|++|+.
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 5567889999999999999999875 34 67777765332 1678999999999999999999999754
Q ss_pred C-------CCCccchHHHHHHHHHHcCCE-EEEEeeCCeeEE--EEEEe
Q 001353 1046 W-------TTPEGLGLKLSRKLLIMMNGR-VRYVRENSKCYF--VIDLE 1084 (1093)
Q Consensus 1046 ~-------~~GtGLGL~ivr~ive~hgG~-I~v~S~~ggt~F--~v~LP 1084 (1093)
+ .++.|+||++++.+.+.|+|. +++.|..+++.| .+.+.
T Consensus 93 K~~~~~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~~~g~~~~~~~~~~ 141 (488)
T TIGR01052 93 KFHRIIQSRGQQGIGISGAVLYSQMTTGKPVKVISSTGGEIYVYKMKLK 141 (488)
T ss_pred ccccccccCCCccEehhHHHHHHHHcCCceEEEEEecCCceEEEEEEEE
Confidence 1 257999999999999999999 999998877555 44443
No 72
>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=99.11 E-value=5.4e-10 Score=111.08 Aligned_cols=94 Identities=15% Similarity=0.191 Sum_probs=77.6
Q ss_pred cHHHHHHHHHHHHHHHHHcCC--CCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC---CCC
Q 001353 974 DRIRLQLVLSDFLHCVVRHAP--SPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ---WTT 1048 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~--~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~---~~~ 1048 (1093)
+...+.+++.|++.||++|+. ..++.|.|++...++ .+.++|.|+|.|||+ ..++|+||++ ...
T Consensus 36 ~~~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~---------~~~i~I~D~G~gi~~--~~~~~~~~~~~~~~~~ 104 (137)
T TIGR01925 36 ELTDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDH---------EVYITVRDEGIGIEN--LEEAREPLYTSKPELE 104 (137)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCC---------EEEEEEEEcCCCcCc--hhHhhCCCcccCCCCC
Confidence 566799999999999999852 225789999888877 899999999999984 6789999987 234
Q ss_pred CccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEE
Q 001353 1049 PEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVID 1082 (1093)
Q Consensus 1049 GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~ 1082 (1093)
+.|+||+++++ +.+++++++.++ |++|+++
T Consensus 105 ~~GlGL~lv~~----~~~~l~~~~~~~~Gt~v~i~ 135 (137)
T TIGR01925 105 RSGMGFTVMEN----FMDDVSVDSEKEKGTKIIMK 135 (137)
T ss_pred CCcccHHHHHH----hCCcEEEEECCCCCeEEEEE
Confidence 79999999876 557999999876 4888875
No 73
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.10 E-value=5.8e-08 Score=125.17 Aligned_cols=125 Identities=17% Similarity=0.174 Sum_probs=100.5
Q ss_pred HHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccc-cccHHHHHHHHHHHHcCCCCceEEE
Q 001353 616 VACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVH-EESQGAVENLICRALLGEEDKNVEL 694 (1093)
Q Consensus 616 ~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~-~~~~~~~~~~l~~~l~g~~~~~~e~ 694 (1093)
.++.+..++++++++++.+|.+|+++++|+++++++|++.++++|++.. ++++ +.........+...+.++.....++
T Consensus 134 ~~~~~~~~~~~~~~~i~~~d~~g~i~~~N~~~~~l~G~~~~e~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 212 (799)
T PRK11359 134 QTRQLIIAVDHLDRPVIVLDPERRIVQCNRAFTEMFGYCISEASGMQPD-TLLNIPEFPADNRIRLQQLLWKTARDQDEF 212 (799)
T ss_pred HHHHHHHHHhcCCCcEEEEcCCCcEEEEChhhHhhhCCCHHHHCCCChH-HhcCCCCCcHHHHHHHHHhhccCCCCccee
Confidence 3455667899999999999999999999999999999999999999987 5543 4444445555555555544433343
Q ss_pred EEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHH
Q 001353 695 KLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFI 745 (1093)
Q Consensus 695 ~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~ 745 (1093)
.. .+++|..+|+.++..|+.|.+|.+.+++++++|||++|++++..+
T Consensus 213 ~~----~~~dG~~~~~~~~~~~v~d~~g~~~~~~~~~~DITerk~~e~~~~ 259 (799)
T PRK11359 213 LL----LTRTGEKIWIKASISPVYDVLAHLQNLVMTFSDITEERQIRQLEG 259 (799)
T ss_pred EE----eCCCCCEEEEEeeeeeeecCCCceeEEEEEeehhhhHHHHHHHHH
Confidence 33 467999999999999999999999999999999999998876543
No 74
>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=99.06 E-value=4.7e-09 Score=102.54 Aligned_cols=139 Identities=26% Similarity=0.392 Sum_probs=112.3
Q ss_pred CHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecCCCCC
Q 001353 230 DIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDCHAIP 309 (1093)
Q Consensus 230 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~~~~~ 309 (1093)
|++++++.+++.+.+++++||+.||.++++..+............+..+..+|..+ ...+..+..+....+.|....+
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~ 78 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDRGELVLVAADGLTLPLLGLRYPLGE--GLAGRVAETGRPLNIPDVEADP 78 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCCCcEEEEEecCCCcccceEEecCCC--ChHHHHHHcCCeEEeechhhCC
Confidence 46889999999999999999999999999888888887776655556677787666 5567777788888888776554
Q ss_pred cccccccccCCCccccCccccCCChhHHHHHHhc-CceeEEEEEEEEcCCCCcceeEEEEeecC-CCCCCCchHHHHHHH
Q 001353 310 VMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNM-GSIASLVMAVIINSKDSMKLWGLVVCHHT-SPRYIPFPLRYACEF 387 (1093)
Q Consensus 310 ~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~-~v~asl~~~i~~~~~~~~~LWGl~~~h~~-~p~~~~~~~r~~~~~ 387 (1093)
.+ .. .+...+ |+++.+++||..+| ++||+|.+.++ .++.|+..++.+++.
T Consensus 79 ~~-----------------------~~-~~~~~~~~~~s~~~~Pl~~~~----~~~G~l~~~~~~~~~~~~~~~~~~l~~ 130 (149)
T smart00065 79 VF-----------------------AL-DLLGRYQGVRSFLAVPLVADG----ELVGVLALHNKDSPRPFTEEDEELLQA 130 (149)
T ss_pred cc-----------------------cc-ccccceeceeeEEEeeeeecC----EEEEEEEEEecCCCCCCCHHHHHHHHH
Confidence 22 11 122223 38999999999988 99999999999 699999999999999
Q ss_pred HHHHHHHHHHH
Q 001353 388 LVQAFSLQLYM 398 (1093)
Q Consensus 388 l~~~~~~~l~~ 398 (1093)
+++.++..++.
T Consensus 131 ~~~~i~~~l~~ 141 (149)
T smart00065 131 LANQLAIALAN 141 (149)
T ss_pred HHHHHHHHHHH
Confidence 99999988854
No 75
>PRK03660 anti-sigma F factor; Provisional
Probab=99.05 E-value=1.8e-09 Score=108.59 Aligned_cols=101 Identities=19% Similarity=0.249 Sum_probs=82.3
Q ss_pred cHHHHHHHHHHHHHHHHHcCCC--CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-C--CC
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPS--PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-W--TT 1048 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~--~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~--~~ 1048 (1093)
+...+.+++.|++.||++|+.. .++.|.|++...++ .+.+.|.|+|.|||+ ..+.|+||++ . ..
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 5677899999999999998632 13689998887777 899999999999986 5688999877 2 25
Q ss_pred CccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCc
Q 001353 1049 PEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRG 1089 (1093)
Q Consensus 1049 GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~ 1089 (1093)
+.|+||+++++ +.+.+++++.++ |++|+++++++...
T Consensus 105 ~~GlGL~i~~~----~~~~i~~~~~~~~Gt~~~i~~~~~~~~ 142 (146)
T PRK03660 105 RSGMGFTVMES----FMDEVEVESEPGKGTTVRMKKYLKKSK 142 (146)
T ss_pred CccccHHHHHH----hCCeEEEEecCCCcEEEEEEEEecccc
Confidence 78999999864 567899998876 49999999987653
No 76
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.02 E-value=7.2e-11 Score=148.46 Aligned_cols=221 Identities=23% Similarity=0.345 Sum_probs=190.1
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccccceeeeeHHHHHHHH
Q 001353 865 ELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMELKSEEFLLGNILDAV 943 (1093)
Q Consensus 865 ~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l~~~~v~L~~ll~~v 943 (1093)
+.+.++|||++|+.+ +....+-.+..+.+++.++.....+......++++ +|.++++.|..++...+|++..+++.+
T Consensus 224 ~~~~~sHeir~p~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~s~ln~i~d~~~v~~g~~~l~~~rf~l~~ll~~~ 301 (786)
T KOG0519|consen 224 FLATLSHEIRTPLNG--GMLGGLSDTDLDSDQRLILNTDRVSAKSLLSLLNDILDLSKVESGKGELVAKRFDLRTLLNFV 301 (786)
T ss_pred hcccccceeeccccc--CcceEEeccccchHHHHHHHHHhhhccccchhHHHhhcccccccccceeeeeecchHhhhhhh
Confidence 889999999999998 66666667788899999999999999999999999 799999999999999999999999999
Q ss_pred HHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCcccc-----------
Q 001353 944 VSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIK----------- 1012 (1093)
Q Consensus 944 ~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~----------- 1012 (1093)
+..+.+.+..++..+....+.+.|. .+.+|..++.||+.|++.||+|++.. |.|.+++.......-
T Consensus 302 ~~~~~e~~~~~~~~l~~~~~~~~p~-~v~~de~~~~qv~~n~v~naik~t~~--~~i~~~~~~~~~~~~~~~~l~~~~~e 378 (786)
T KOG0519|consen 302 ISLLSELSQAKYAILVLDLSSGVPR-NVRGDEARLRQVIANLVSNAIKFTHA--GHLEESVIAREELSESNDVLLRAKEE 378 (786)
T ss_pred hhhhHHHhhcCCeEEEEecCCCCcc-eeeccceeeeeeehhhccceeccccc--ceEEEEEEeehhcchhhHHHHhhhhh
Confidence 9999999999999999999988775 78999999999999999999999987 778777765543100
Q ss_pred --C-----------------CC-c--------eeEEEEEEecCCCCCChhhHhh-hccCCCC-------CCCCccchHHH
Q 001353 1013 --D-----------------AD-Q--------FVHVQFRLTHPGEGIPSHLIED-MYNGRNQ-------WTTPEGLGLKL 1056 (1093)
Q Consensus 1013 --~-----------------~~-~--------~~~v~l~V~DnG~GIp~e~~~~-IFe~F~~-------~~~GtGLGL~i 1056 (1093)
. .. + ...-.+.+.|+|.||+.+.... +|..|-+ ..+|+|+|+.+
T Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~~gt~~~~~i 458 (786)
T KOG0519|consen 379 AHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLYGGTGLGESI 458 (786)
T ss_pred hhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhccccccccccCCCcccchh
Confidence 0 00 0 1244678889999999998888 9998744 56899999999
Q ss_pred HHHHHHHcCCEEEEEeeCC-eeEEEEEEeecCCcc
Q 001353 1057 SRKLLIMMNGRVRYVRENS-KCYFVIDLELKTRGR 1090 (1093)
Q Consensus 1057 vr~ive~hgG~I~v~S~~g-gt~F~v~LPlp~~~~ 1090 (1093)
++.+++.++|.+.+.+... +++|++.+++-....
T Consensus 459 ~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~ 493 (786)
T KOG0519|consen 459 VFSLVELMSGEISDISCISLGKTFSFTLDLLTNLP 493 (786)
T ss_pred hccHHHHHHHHhhhhhhhccCceeeEEEEeccCCC
Confidence 9999999999999999998 588999888765543
No 77
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.01 E-value=5e-09 Score=132.12 Aligned_cols=137 Identities=19% Similarity=0.181 Sum_probs=113.1
Q ss_pred HHHHHHHHhcCccEEEECC---CCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEE
Q 001353 618 CEMVRLIETATAPIFGVDS---SGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVEL 694 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~---dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~ 694 (1093)
+.+..+++.++++++++|. +|++++||+++++++||+.++++|+++. .+.++.........+...+..+.....++
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 3456799999999999984 7999999999999999999999999987 77776665555555666665555544444
Q ss_pred EEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcC
Q 001353 695 KLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVN 759 (1093)
Q Consensus 695 ~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~ 759 (1093)
.. .+++|..+|+.++..|+++.+|.+.+++++++|||++|++|+++++.+..++.+++.++
T Consensus 227 ~~----~~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~~~~~L~~l~~~~~ 287 (665)
T PRK13558 227 RN----YRKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRERRKLQRLLERVE 287 (665)
T ss_pred EE----ECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 33 47899999999999999999999999999999999999999999988888877665543
No 78
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=99.00 E-value=2.2e-09 Score=129.07 Aligned_cols=104 Identities=7% Similarity=0.163 Sum_probs=84.1
Q ss_pred HHHHHHHHHHHHHHHHcCCCCC--CeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC--------
Q 001353 976 IRLQLVLSDFLHCVVRHAPSPD--GWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-------- 1045 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~~~--g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-------- 1045 (1093)
..|.+++.||+.||++|+...+ +.|.|.+...+. ..+.++|.|||+|||++.++++|++|++
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 3455999999999999987512 278888765432 1789999999999999999999999754
Q ss_pred -CCCCccchHHHHHHHHHHc-CCEEEEEeeCC-eeEEEEEEeecC
Q 001353 1046 -WTTPEGLGLKLSRKLLIMM-NGRVRYVRENS-KCYFVIDLELKT 1087 (1093)
Q Consensus 1046 -~~~GtGLGL~ivr~ive~h-gG~I~v~S~~g-gt~F~v~LPlp~ 1087 (1093)
..++.|+||+++..+.+.+ ||.+.+.|.++ +++|++.+|+..
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 2347899999999998875 66799999876 488999999865
No 79
>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=98.99 E-value=1.1e-09 Score=101.96 Aligned_cols=81 Identities=23% Similarity=0.341 Sum_probs=72.4
Q ss_pred CceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCccceeeEEEccCCcEEEEEEE
Q 001353 763 PPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFPFGFFNRQGQFVEVALT 820 (1093)
Q Consensus 763 ~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e~~~~~kdG~~~~v~~~ 820 (1093)
.|++++|.+|+|+++|+++++++||++++++| ...+.....++.+.+++|+.+|+.++
T Consensus 2 ~~i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~~~~~~~~ 81 (104)
T PF13426_consen 2 DGIFILDPDGRILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIERALEEGGSWSGEVRLRRKDGETFWVEVS 81 (104)
T ss_dssp SEEEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHHHHHHTSSEEEEEEEEETTSEEEEEEEE
T ss_pred EEEEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHHHHhcCCceeEEEEEEcCCCCEEEEEEE
Confidence 48999999999999999999999999999999 33344467789999999999999999
Q ss_pred EeEeecCCCcEEEEEEEEeeccc
Q 001353 821 ASRRTDAEGKVIGCFCFMQILVP 843 (1093)
Q Consensus 821 ~~~i~d~~G~v~g~i~~~~DITe 843 (1093)
+.|+.+.+|++.+++++++||||
T Consensus 82 ~~~i~~~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 82 ASPIRDEDGEITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEETTSSEEEEEEEEEEEHH
T ss_pred EEEEECCCCCEEEEEEEEEECCC
Confidence 99999999999999999999996
No 80
>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=98.98 E-value=1.9e-09 Score=102.24 Aligned_cols=90 Identities=31% Similarity=0.465 Sum_probs=76.6
Q ss_pred HHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc-----------------------ccCCCccceee
Q 001353 749 GDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG-----------------------ITGQGTENFPF 805 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG-----------------------~~~~~~~~~e~ 805 (1093)
++|+.+++++++ |++++|.+|+|+++|+++++++||++++++| ...........
T Consensus 1 e~~~~i~~~~~~---~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (113)
T PF00989_consen 1 ERYRAILENSPD---GIFVIDEDGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESGESFEV 77 (113)
T ss_dssp HHHHHHHHCSSS---EEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHECEEEE
T ss_pred CHHHHHHhcCCc---eEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCceeEEE
Confidence 578999999998 9999999999999999999999999999999 11222233445
Q ss_pred EEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeec
Q 001353 806 GFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQIL 841 (1093)
Q Consensus 806 ~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DI 841 (1093)
.+..++|+.+|+.+..+|+.+.+|++.|++++++||
T Consensus 78 ~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 78 RFRLRDGRPRWVEVRASPVRDEDGQIIGILVIFRDI 113 (113)
T ss_dssp EEEETTSCEEEEEEEEEEEEETTEEEEEEEEEEEE-
T ss_pred EEEecCCcEEEEEEEEEEEEeCCCCEEEEEEEEEeC
Confidence 555689999999999999999999999999999997
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=98.98 E-value=5.3e-09 Score=96.03 Aligned_cols=120 Identities=26% Similarity=0.344 Sum_probs=98.1
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCC-ceEEEEE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEED-KNVELKL 696 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~-~~~e~~l 696 (1093)
+.++.+++.++++++++|.+|+++++|+++.+++|++..+++|+++. .++++.....+...+.....++.. ...++.+
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVL-ELIPEEDREEVRERIERLLEGEREPVSEERRV 81 (124)
T ss_pred hHHHHHHhhCCceEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchh-hhcChhhhHHHHHHHHHHHcCCCCCcceEeee
Confidence 45678999999999999999999999999999999999999999988 677777777666666666653322 2222222
Q ss_pred EEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHH
Q 001353 697 RKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDK 743 (1093)
Q Consensus 697 ~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~ 743 (1093)
..++|..+|+.....|+. .+|...+++++++|||++++++++
T Consensus 82 ----~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~~~ 123 (124)
T TIGR00229 82 ----RRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAEEA 123 (124)
T ss_pred ----EcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHHhc
Confidence 256889999999999988 788899999999999999988764
No 82
>PRK10060 RNase II stability modulator; Provisional
Probab=98.98 E-value=7.9e-09 Score=129.67 Aligned_cols=166 Identities=20% Similarity=0.199 Sum_probs=117.0
Q ss_pred HHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCce
Q 001353 612 ELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKN 691 (1093)
Q Consensus 612 eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~ 691 (1093)
++......++.+++.++++|+++|.+|+|+++|+++++++||+.++++|+++.+.+.++.+.......+...+..+....
T Consensus 105 ~~~~~~~~~~~v~~~~~~gI~i~D~~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (663)
T PRK10060 105 DLSHGLSFAEQVVSEANSVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYE 184 (663)
T ss_pred HHHHHHHHHHHHHhhCCceEEEEeCCCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceE
Confidence 34555567788999999999999999999999999999999999999999987334456666666666777666665444
Q ss_pred EEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHH---------------HHHHHHHHH
Q 001353 692 VELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRL---------------QGDYEAIIQ 756 (1093)
Q Consensus 692 ~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~s---------------e~~lr~i~~ 756 (1093)
.+..+ .+++|..+|+.....+..+..+...+++++++|||++|++++++++. .++++..+.
T Consensus 185 ~e~~~----~~~~G~~~~~~~~~~~~~~~g~~~~~~i~~~~DITe~k~~e~~l~~~a~~D~LTGL~NR~~f~~~l~~~l~ 260 (663)
T PRK10060 185 VERWI----KTRKGQRLFLFRNKFVHSGSGKNEIFLICSGTDITEERRAQERLRILANTDSITGLPNRNAIQELIDHAIN 260 (663)
T ss_pred EEEEE----EeCCCCEEEEEeeeEEEcCCCCceEEEEEEEEechHHHHHHHHHHHHhhcCccCCCcCHHHHHHHHHHHHH
Confidence 44443 46789888876654443333334567888899999999999998763 344555443
Q ss_pred hcCCCCCceEEecCCCcEeechhhhH
Q 001353 757 SVNPLIPPIFASDENACCSEWNAAME 782 (1093)
Q Consensus 757 ~~~~li~~I~~~D~~g~i~~~N~a~~ 782 (1093)
.......+++.+|.++ +..+|..+.
T Consensus 261 ~~~~~~~~ll~idld~-fk~iNd~~G 285 (663)
T PRK10060 261 AADNNQVGIVYLDLDN-FKKVNDAYG 285 (663)
T ss_pred hCCCCcEEEEEEECcc-hhHHHHhhC
Confidence 3322223577777764 334555443
No 83
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=98.97 E-value=5.3e-09 Score=106.91 Aligned_cols=101 Identities=16% Similarity=0.139 Sum_probs=82.2
Q ss_pred cHHHHHHHHHHHHHHHHHcCCCC--CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-----C
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPSP--DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-----W 1046 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-----~ 1046 (1093)
+...+..++.+++.||++|+... ++.|.|++...++ .+.+.|.|+|+||+++.+...|.||++ .
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 45668899999999999997542 3689998888777 999999999999999999999999875 2
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEeecCC
Q 001353 1047 TTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLELKTR 1088 (1093)
Q Consensus 1047 ~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPlp~~ 1088 (1093)
..+.|+||++++.+++. +.+.+ .+|++|.+.-.++..
T Consensus 110 ~~~~G~GL~li~~l~d~----v~~~~-~~G~~v~~~k~~~~~ 146 (161)
T PRK04069 110 LREGGLGLFLIETLMDD----VTVYK-DSGVTVSMTKYINRE 146 (161)
T ss_pred cCCCceeHHHHHHHHHh----EEEEc-CCCcEEEEEEEcCch
Confidence 34679999999999986 77776 456778877666543
No 84
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=98.92 E-value=4.3e-09 Score=135.14 Aligned_cols=114 Identities=16% Similarity=0.133 Sum_probs=103.6
Q ss_pred EecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc-----------------
Q 001353 732 QDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------- 794 (1093)
Q Consensus 732 ~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------- 794 (1093)
++|+++++++++++++++.++.+++++++ +||+.|.+|++++||+++++++||+.++++|
T Consensus 138 ~~i~~r~~~~~~l~~~~~~l~~il~~~~~---~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~ 214 (779)
T PRK11091 138 NEIKEREETQIELEQQSSLLRSFLDASPD---LVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIE 214 (779)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCcc---eEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHH
Confidence 69999999999999999999999999998 8999999999999999999999999999998
Q ss_pred -----ccCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHH
Q 001353 795 -----ITGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 795 -----~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e 848 (1093)
...+.....+..+..++|+.+|+.++..|+.+.+|.+.|++++++|||++++.+
T Consensus 215 ~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e 273 (779)
T PRK11091 215 TDEKVFRHNVSLTYEQWLDYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQ 273 (779)
T ss_pred HHHHHHhcCCCeEEEEEEEcCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHH
Confidence 123334556778889999999999999999999999999999999999977655
No 85
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=98.91 E-value=1.2e-07 Score=106.91 Aligned_cols=131 Identities=20% Similarity=0.296 Sum_probs=99.3
Q ss_pred eeeeHHHHHHHHHHHHHH---HhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcC---CCCCCeEEEEEE
Q 001353 932 EEFLLGNILDAVVSQVMV---LLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHA---PSPDGWVEIKVL 1005 (1093)
Q Consensus 932 ~~v~L~~ll~~v~~~~~~---~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t---~~~~g~I~I~v~ 1005 (1093)
+.+.|.+=++++-.-+.. ++.. ...+.+++++++.++.+ |. -+++-|+.||+||. +.+.|.|+|++.
T Consensus 415 ~~v~L~kEl~~v~AYl~IEkARF~~-rL~v~i~id~~l~~~~i---P~---filQPLVENAIKHG~~~~~~~g~V~I~V~ 487 (557)
T COG3275 415 EIVTLSKELEHVNAYLSIEKARFGD-RLDVVIDIDEELRQVQI---PS---FILQPLVENAIKHGISQLKDTGRVTISVE 487 (557)
T ss_pred eEeehHHHHHHHHHHHHHHHHhcCC-ceEEEEecCHHHhhccC---ch---hhhhHHHHHHHHhcccchhcCCceEEEEE
Confidence 467777777766554432 3322 46777777776543222 22 45677888999994 334789999999
Q ss_pred eCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCccchHHHHHHHHHHcCC---EEEEEeeCC-eeEEEE
Q 001353 1006 PGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEGLGLKLSRKLLIMMNG---RVRYVRENS-KCYFVI 1081 (1093)
Q Consensus 1006 ~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtGLGL~ivr~ive~hgG---~I~v~S~~g-gt~F~v 1081 (1093)
..+. .+.+.|.|||.||+|+ ...|+|+||+.+++.++.+=| -+.+++.+. ||++.+
T Consensus 488 ~~d~---------~l~i~VeDng~li~p~-----------~~~g~giGL~nv~~RLk~lyG~~~gl~i~~~~q~gTri~f 547 (557)
T COG3275 488 KEDA---------DLRIEVEDNGGLIQPD-----------EEDGTGIGLANVHKRLKLLYGDDEGLHIESLEQAGTRIIF 547 (557)
T ss_pred EeCC---------eEEEEEecCCCCcCCC-----------CCCCCChHHHHHHHHHHHhcCccccceEEeccCCCcEEEE
Confidence 9988 8999999999999996 356899999999999998777 789999888 699999
Q ss_pred EEeecCCc
Q 001353 1082 DLELKTRG 1089 (1093)
Q Consensus 1082 ~LPlp~~~ 1089 (1093)
++|.....
T Consensus 548 ~lp~~~~~ 555 (557)
T COG3275 548 RLPLQRTA 555 (557)
T ss_pred EecCcccc
Confidence 99987654
No 86
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.90 E-value=1.1e-08 Score=96.98 Aligned_cols=106 Identities=24% Similarity=0.317 Sum_probs=81.8
Q ss_pred HHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEe
Q 001353 620 MVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKF 699 (1093)
Q Consensus 620 l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~ 699 (1093)
+..++++++.+++++|.+++|.++|+++.++|++.+.+ +|+++. ++.++...+.+...++.+..++.. ..+....
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 799999 888888888888999888877764 2222221
Q ss_pred eeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecc
Q 001353 700 ELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDIT 735 (1093)
Q Consensus 700 ~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DIT 735 (1093)
.+.+|+.++..|++|.+|+..|++.++.|||
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 3457888899999999999999999999998
No 87
>PRK10060 RNase II stability modulator; Provisional
Probab=98.83 E-value=9.7e-08 Score=119.91 Aligned_cols=144 Identities=15% Similarity=0.097 Sum_probs=107.8
Q ss_pred cCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhH
Q 001353 703 KQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAME 782 (1093)
Q Consensus 703 kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~ 782 (1093)
.+|...|+.....++.+ ....|......|+++ ....+......++.+++++++ +|+++|.+|+|+++|++++
T Consensus 70 ~~g~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~v~~~~~~---gI~i~D~~g~I~~~N~a~~ 141 (663)
T PRK10060 70 LDGEPLSVHLVGRKINK--REWAGTASAWHDTPS---VARDLSHGLSFAEQVVSEANS---VIVILDSRGNIQRFNRLCE 141 (663)
T ss_pred eCCcEEEEEEeeeccCc--ccccchhhHHHHHHH---HHHHHHHHHHHHHHHHhhCCc---eEEEEeCCCCEEEEcHHHH
Confidence 47999999987776543 234444555555555 344455666778889999998 8999999999999999999
Q ss_pred HHhCCCcchhccc-----------------------cCCCccceeeEEEccCCcEEEEEEEEeEeecCCC-cEEEEEEEE
Q 001353 783 KVTGWMRHEVIGI-----------------------TGQGTENFPFGFFNRQGQFVEVALTASRRTDAEG-KVIGCFCFM 838 (1093)
Q Consensus 783 ~l~G~~~eEliG~-----------------------~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G-~v~g~i~~~ 838 (1093)
+++||+.++++|. ..+..+..+....+++|+.+|+.....+ .+.+| ...+++++.
T Consensus 142 ~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~-~~~~g~~~~~~i~~~ 220 (663)
T PRK10060 142 EYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYEVERWIKTRKGQRLFLFRNKFV-HSGSGKNEIFLICSG 220 (663)
T ss_pred HHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceEEEEEEEeCCCCEEEEEeeeEE-EcCCCCceEEEEEEE
Confidence 9999999999991 1233456678889999999888765444 44444 456788999
Q ss_pred eecccCcHHHHHHHhHH
Q 001353 839 QILVPDLQPALEAQGLE 855 (1093)
Q Consensus 839 ~DITe~k~~e~elq~~~ 855 (1093)
+|||++++.+.++++.+
T Consensus 221 ~DITe~k~~e~~l~~~a 237 (663)
T PRK10060 221 TDITEERRAQERLRILA 237 (663)
T ss_pred EechHHHHHHHHHHHHh
Confidence 99999988877665543
No 88
>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=98.82 E-value=1.1e-08 Score=88.52 Aligned_cols=65 Identities=35% Similarity=0.543 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHHHhc-CCCCHHH-HHHHHHHHHHHHHHHHHHhc-ccccccccC
Q 001353 861 AKIKELAYIRQEVKNPLNGIRFVHKLLES-SSISENQ-RQYLETSDACERQIMTIIDG-MDLRCIEEG 925 (1093)
Q Consensus 861 ~k~~~la~isHELrnPLt~I~g~~~LL~~-~~l~~~~-~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g 925 (1093)
++.+|++.++|||||||++|.++++++.. ...++++ +++++.+..+++++..++++ ++++++++|
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 36789999999999999999999999999 8888887 99999999999999999999 699998775
No 89
>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=98.82 E-value=1.4e-08 Score=95.66 Aligned_cols=88 Identities=22% Similarity=0.291 Sum_probs=72.0
Q ss_pred HHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCccceeeEEEccCC
Q 001353 755 IQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFPFGFFNRQG 812 (1093)
Q Consensus 755 ~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e~~~~~kdG 812 (1093)
++++++ +++++|.+|+++++|+++.+++|++.++++| ..++.....+ .....+|
T Consensus 1 l~~~p~---~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 76 (110)
T PF08448_consen 1 LDSSPD---GIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRRALAGGEPVFFE-EILLRDG 76 (110)
T ss_dssp HHHCSS---EEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHHHHHHTSEEEEE-EEECTTS
T ss_pred CCCCCc---eeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHHhhccCceEEEE-EEEeecC
Confidence 456676 8999999999999999999999999999999 2222222222 3333499
Q ss_pred cEEEEEEEEeEeecCCCcEEEEEEEEeecccCcH
Q 001353 813 QFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQ 846 (1093)
Q Consensus 813 ~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~ 846 (1093)
+.+|+.++..|+.|.+|++.|++++++|||++++
T Consensus 77 ~~~~~~~~~~Pi~~~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 77 EERWFEVSISPIFDEDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp CEEEEEEEEEEEECTTTCEEEEEEEEEEECCHHH
T ss_pred CcEEEEEEEEEeEcCCCCEEEEEEEEEECchhhC
Confidence 9999999999999999999999999999999764
No 90
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.81 E-value=8.7e-08 Score=110.96 Aligned_cols=211 Identities=19% Similarity=0.192 Sum_probs=151.1
Q ss_pred HHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEee
Q 001353 621 VRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFE 700 (1093)
Q Consensus 621 ~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~ 700 (1093)
..+++..+++++++|....+..+|..+..+++-....++|+++. ++.++...+.+. ++... .......
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 34899999999999999999999999999999999999999988 777665544332 22222 1111111
Q ss_pred eccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHH-HHHHHHHHHHHHhcCCCCCceEEecCCCcEeechh
Q 001353 701 LQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKF-IRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNA 779 (1093)
Q Consensus 701 ~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L-~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~ 779 (1093)
. + ....+ +...+..++.++++|+..++.|+++.....+.. ++..+.|+.+++.+.+ ++++.|.+|.++++|+
T Consensus 72 -~-~-~~~~~-~~~~~~~~~~~~~~g~~~~~~~~~e~~~~~~~~l~~~~~~l~~il~~~~~---~l~vvD~~G~~i~~N~ 144 (560)
T COG3829 72 -L-K-VKRIV-VVGKTPVDEQGRVVGVLEVFLDISEALELIEENLRQLRQRLEAILDSIDD---GLLVVDEDGIIIYYNK 144 (560)
T ss_pred -c-c-ceeEE-EcCCceeecCCceeeeehhhhhhHHHHHHHHHHHHHHHHHHHHHHhhccC---ceEEEcCCCcEEEEcH
Confidence 1 1 23334 444445677899999999999999977766665 7777889999999998 8999999999999999
Q ss_pred hhHHHhCCCcchhccccCCC-------cc---------ceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeeccc
Q 001353 780 AMEKVTGWMRHEVIGITGQG-------TE---------NFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVP 843 (1093)
Q Consensus 780 a~~~l~G~~~eEliG~~~~~-------~~---------~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe 843 (1093)
++.+++|++.++++|..-.+ .. ..........|... ..+ ......+|.+.|.+.+++|+++
T Consensus 145 ~~~~~~gl~~e~~~gk~~~~v~~~~~~s~~l~vl~~~kp~~~~~~~~~~~~~--i~~-~~pv~~~g~l~G~v~~~~~~~~ 221 (560)
T COG3829 145 AYAKLLGLSPEEVLGKHLLDVVSAGEDSTLLEVLRTGKPIRDVVQTYNGNKI--IVN-VAPVYADGQLIGVVGISKDVSE 221 (560)
T ss_pred HHHHHhCCCHHHHcCCcHHHHHhccCCceehhhhhcCCcceeeeeeecCCce--eEe-eccEecCCcEEEEEEeecchHH
Confidence 99999999999999921111 10 11112222333333 223 3334567799999999999998
Q ss_pred CcHHHHHHHh
Q 001353 844 DLQPALEAQG 853 (1093)
Q Consensus 844 ~k~~e~elq~ 853 (1093)
-.....+..+
T Consensus 222 l~~l~~~~~~ 231 (560)
T COG3829 222 LERLTRELEE 231 (560)
T ss_pred HHHHHHHHHH
Confidence 6655544433
No 91
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=98.81 E-value=2.1e-07 Score=111.48 Aligned_cols=183 Identities=16% Similarity=0.230 Sum_probs=114.9
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeH-HHHHHHHH
Q 001353 866 LAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLL-GNILDAVV 944 (1093)
Q Consensus 866 la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L-~~ll~~v~ 944 (1093)
.....|-+.|-|.+|..++..-. .+.+.+. ...+.++.. .+++..+. ..+... ..+++.-+
T Consensus 263 sqi~pHfL~NtL~~I~~~~~~~~-------~~~~~~~----v~~l~~llR-~~l~~~~~------~~~l~~E~~~~~kyl 324 (456)
T COG2972 263 SQINPHFLYNTLETIRMLAEEDD-------PEEAAKV----VKALSKLLR-YSLSNLDN------IVTLEIELLLIEKYL 324 (456)
T ss_pred hhcchHHHHhHHHHHHHHHHhcC-------HHHHHHH----HHHHHHHHH-HHhhCCCC------eeeHHHHHHHHHHHH
Confidence 44558999999999998776421 1112222 223333333 11121110 011111 22333333
Q ss_pred HHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcC---CCCCCeEEEEEEeCCccccCCCceeEEE
Q 001353 945 SQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHA---PSPDGWVEIKVLPGLKLIKDADQFVHVQ 1021 (1093)
Q Consensus 945 ~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t---~~~~g~I~I~v~~~~~~~~~~~~~~~v~ 1021 (1093)
..-..... ..+++..+++++..+ ..| +..+++.|+.||++|+ ..++|+|.|.....++ .+.
T Consensus 325 ~iq~~r~~-~~le~~~~i~~~~~~---l~~---p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~---------~i~ 388 (456)
T COG2972 325 EIQKLRIG-DRLEVPLPIDEELEP---LID---PKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDD---------VIQ 388 (456)
T ss_pred HHHHhccC-cceEEEeccCccccc---ccC---chHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCC---------EEE
Confidence 33333332 235555555554322 245 4478899999999995 2336899999988877 999
Q ss_pred EEEecCCCCCChhhHhhhccCCCCCCCC-ccchHHHHHHHHHHcCCE--EEEEeeCCe-eEEEEEEeec
Q 001353 1022 FRLTHPGEGIPSHLIEDMYNGRNQWTTP-EGLGLKLSRKLLIMMNGR--VRYVRENSK-CYFVIDLELK 1086 (1093)
Q Consensus 1022 l~V~DnG~GIp~e~~~~IFe~F~~~~~G-tGLGL~ivr~ive~hgG~--I~v~S~~gg-t~F~v~LPlp 1086 (1093)
++|.|||+||+++....+.. +.++ .|+||.-++++++.+-|. +.++|.+++ ++..+.+|..
T Consensus 389 i~i~Dng~g~~~~~~~~~~~----~~~~r~giGL~Nv~~rl~~~~g~~~~~i~s~~~~gt~v~~~~~~~ 453 (456)
T COG2972 389 ISISDNGPGIDEEKLEGLST----KGENRSGIGLSNVKERLKLYFGEPGLSIDSQPGKGTFVQIIIPKR 453 (456)
T ss_pred EEEeeCCCCCChhHHHHHHh----hccCcccccHHHHHHHHHHeeCCcceeEeecCCCcEEEEEEeehh
Confidence 99999999999987776533 3333 499999999999999887 689999986 7767776654
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=98.81 E-value=4.4e-08 Score=99.81 Aligned_cols=101 Identities=16% Similarity=0.170 Sum_probs=80.6
Q ss_pred HHHHHHHHHHHHHHHHHcCCC--CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-----CC
Q 001353 975 RIRLQLVLSDFLHCVVRHAPS--PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-----WT 1047 (1093)
Q Consensus 975 ~~~L~qVl~nLl~NAik~t~~--~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-----~~ 1047 (1093)
...+..++.+++.||++|+.. +++.|.|.+...++ .+.+.|.|+|.||+++.+...|.+++. ..
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 345888999999999999743 24789999888777 899999999999999998888887654 23
Q ss_pred CCccchHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEeecCCc
Q 001353 1048 TPEGLGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLELKTRG 1089 (1093)
Q Consensus 1048 ~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LPlp~~~ 1089 (1093)
.+.|+||++++++++ ++.|.+..| +++++...++..+
T Consensus 111 ~~~G~GL~Li~~L~D----~v~~~~~~G-~~l~l~k~~~~~~ 147 (159)
T TIGR01924 111 REGGLGLFLIETLMD----EVEVYEDSG-VTVAMTKYLNREQ 147 (159)
T ss_pred CCCccCHHHHHHhcc----EEEEEeCCC-EEEEEEEEEcccc
Confidence 467999999999988 788887544 6677776665433
No 93
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=98.72 E-value=5.3e-08 Score=98.54 Aligned_cols=157 Identities=19% Similarity=0.247 Sum_probs=111.9
Q ss_pred HHHHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCC--ceEEEEecCCCCCCccCCccCCCCchH-HHH
Q 001353 215 LAVSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDH--GEVVSEIRRSDLEPYLGIHFPANDIPQ-AAR 291 (1093)
Q Consensus 215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~--G~vvaE~~~~~~~~~lg~~~p~~dip~-~~r 291 (1093)
++..+...+.. +.+.+++++.+++.+.+.+++||..||++++++. +.++++.......+.+...+.....+. ...
T Consensus 5 ~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (175)
T COG2203 5 LLNELAAKIAQ--DLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEAAEAGLEQLIDELFGLVILPACLIG 82 (175)
T ss_pred HHHHHHHHHHH--HCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHHhcchhhhhHHHHhcccCcchhhhh
Confidence 33455556666 6699999999999999999999999999999995 776666654430111111110000010 112
Q ss_pred HhHhcCCeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeec
Q 001353 292 FLFKQNRVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHH 371 (1093)
Q Consensus 292 ~l~~~~~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~ 371 (1093)
......+..++.|+...+.. ..+|..++... ++|.+++||+.++ ++||.++.||
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~~~~-i~~~l~vPl~~~~----~~~G~l~~~~ 136 (175)
T COG2203 83 IALREGRPVVVEDILQDPRF---------------------RDNPLVLLEPP-IRSYLGVPLIAQG----ELLGLLCVHD 136 (175)
T ss_pred hhhcCCceEEeeccccCccc---------------------ccCHHHHHHHH-HHHheeeeeeECC----EeeEEeeeec
Confidence 23345555666676666543 13677666665 8999999999988 9999999999
Q ss_pred CCCC-CCCchHHHHHHHHHHHHHHHHHHH
Q 001353 372 TSPR-YIPFPLRYACEFLVQAFSLQLYME 399 (1093)
Q Consensus 372 ~~p~-~~~~~~r~~~~~l~~~~~~~l~~~ 399 (1093)
+.++ .|+.++..+.+.+++.++.+|...
T Consensus 137 ~~~~~~~~~~e~~ll~~la~~~a~ai~~~ 165 (175)
T COG2203 137 SEPRRQWSEEELELLEELAEQVAIAIERA 165 (175)
T ss_pred cCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 9876 699999999999999999998643
No 94
>PF14501 HATPase_c_5: GHKL domain
Probab=98.63 E-value=4e-07 Score=85.27 Aligned_cols=97 Identities=19% Similarity=0.260 Sum_probs=74.8
Q ss_pred cHHHHHHHHHHHHHHHHHcCCCC--CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCcc
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPSP--DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEG 1051 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtG 1051 (1093)
+...|..+|.||+.||++++... ...|.|.+...++ .+.|.|...-.+ + .+.++ ...++..+.|
T Consensus 2 ~~~dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~---------~~~i~i~N~~~~---~-~~~~~-~~~~~~~~~G 67 (100)
T PF14501_consen 2 DDLDLCRILGNLLDNAIEACKKYEDKRFISISIREENG---------FLVIIIENSCEK---E-IEKLE-SSSSKKKGHG 67 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCC---------EEEEEEEECCCC---c-ccccc-ccccCCCCCC
Confidence 44568899999999999985321 4689999998888 999999988554 2 23333 2224778999
Q ss_pred chHHHHHHHHHHcCCEEEEEeeCCeeEEEEEEe
Q 001353 1052 LGLKLSRKLLIMMNGRVRYVRENSKCYFVIDLE 1084 (1093)
Q Consensus 1052 LGL~ivr~ive~hgG~I~v~S~~ggt~F~v~LP 1084 (1093)
+||..++++++.++|++.++.+.+.-+++|.||
T Consensus 68 ~GL~~v~~i~~~y~g~~~~~~~~~~f~~~i~ip 100 (100)
T PF14501_consen 68 IGLKNVKKILEKYNGSLSIESEDGIFTVKIVIP 100 (100)
T ss_pred cCHHHHHHHHHHCCCEEEEEEECCEEEEEEEEC
Confidence 999999999999999999998776555555555
No 95
>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=98.59 E-value=2.1e-07 Score=84.94 Aligned_cols=86 Identities=23% Similarity=0.276 Sum_probs=70.4
Q ss_pred EEEecHHHHHhcCCCccccCCCC----ccccccccccHHHHHHHHHH-HHcCCCCceEEEEEEEeeeccCCcEEEEEEEE
Q 001353 640 INGWNAKVAELTGLPASEAMGKS----LIDEVVHEESQGAVENLICR-ALLGEEDKNVELKLRKFELQKQHSVVYILVNA 714 (1093)
Q Consensus 640 I~~~N~~~~~llG~~~eeliG~~----~~~~lv~~~~~~~~~~~l~~-~l~g~~~~~~e~~l~~~~~~kdG~~~~v~v~~ 714 (1093)
|++||+.+.+++||+++++ +.. +. .++||++.+.+...+.. ....+.....++++ .+++|+.+|+.+++
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~-~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~----~~~~G~~~wi~~~~ 74 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWL-ERIHPDDRERVRQAIQQAALQNGEPFEIEYRI----RRKDGEYRWIEVRG 74 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHH-HHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEE----EGTTSTEEEEEEEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHH-hhcCHHHHHHHHHHHHHHhhccCcceEEEEEE----ECCCCCEEEEEEEE
Confidence 6899999999999999999 776 66 88999999999999999 67777666666665 47899999999999
Q ss_pred EEeecCCCCEEEEEEEE
Q 001353 715 CTSRDYKNNVKGVCFVG 731 (1093)
Q Consensus 715 ~pi~d~~g~v~gv~~v~ 731 (1093)
.+++|.+|++.+++++.
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 96
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.58 E-value=7.6e-07 Score=110.37 Aligned_cols=131 Identities=18% Similarity=0.270 Sum_probs=102.4
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCC-CC
Q 001353 611 DELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGE-ED 689 (1093)
Q Consensus 611 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~-~~ 689 (1093)
..++..+..++.++++++++++++|.+|+++++|+++++++|+++++++|+++. +++++.. . ....+...+..+ ..
T Consensus 255 ~~l~~~~~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~-~~~~~~~-~-~~~~~~~~~~~~~~~ 331 (607)
T PRK11360 255 QALRETRSLNELILESIADGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYS-ELFPPNT-P-FASPLLDTLEHGTEH 331 (607)
T ss_pred HHHHHHHHHHHHHHHhccCeEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHH-HHcCCch-h-HHHHHHHHHhcCCCc
Confidence 456666677889999999999999999999999999999999999999999988 7766532 2 222333333333 32
Q ss_pred ceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHH
Q 001353 690 KNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQG 749 (1093)
Q Consensus 690 ~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~ 749 (1093)
...++.+ ..++|... +.++..|+.|.+|++.|++++++|||++|++|+++++.+.
T Consensus 332 ~~~~~~~----~~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~~ 386 (607)
T PRK11360 332 VDLEISF----PGRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQER 386 (607)
T ss_pred cceEEEE----EcCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHHH
Confidence 2333333 34566665 8999999999999999999999999999999999877654
No 97
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=98.53 E-value=2e-06 Score=83.66 Aligned_cols=128 Identities=18% Similarity=0.227 Sum_probs=90.9
Q ss_pred CHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecCCCCC
Q 001353 230 DIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDCHAIP 309 (1093)
Q Consensus 230 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~~~~~ 309 (1093)
|++++++.+++.+++++|+|++.||.++++..--.++.+. .+ ..-+...+| .+ ..-....+.+++...++|....+
T Consensus 1 dl~~l~~~i~~~l~~~~~~~~~~l~~~d~~~~~~~~~~~~-~~-~~~~~~~l~-~~-~~~~~~~~~~~~~~~~~~~~~~~ 76 (129)
T PF13492_consen 1 DLDELLERILELLRELLGADRAALFLLDEDGNRLRVVAGW-GG-DPRLSESLP-ED-DPLIGRALETGEPVSVPDIDERD 76 (129)
T ss_dssp -HHHHHHHHHHHHHHHST-SEEEEEEEETTCECEEEEEEE-SS--GCGHHCEE-TT-SHHHHHHHHHTS-EEESTCCC-T
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEEe-CC-CccccccCC-CC-ccHHHHHHhhCCeEEeccccccc
Confidence 5799999999999999999999999999885433343333 21 111222555 22 23334666777765565532211
Q ss_pred cccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHHHHHHH
Q 001353 310 VMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYACEFLV 389 (1093)
Q Consensus 310 ~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~~~~l~ 389 (1093)
. .+.++.|++||..++ +++|+|..++..++.|+.....+++.+|
T Consensus 77 ~--------------------------------~~~~s~~~vPl~~~~----~~~Gvl~~~~~~~~~~~~~d~~~l~~~a 120 (129)
T PF13492_consen 77 F--------------------------------LGIRSLLVVPLRSRD----RVIGVLCLDSREPEEFSDEDLQLLESLA 120 (129)
T ss_dssp T--------------------------------TTTCEEEEEEEEETT----EEEEEEEEEECTTCG-SHHHHHHHHHHH
T ss_pred C--------------------------------CCCCEEEEEEEeECC----EEEEEEEEEECCCCCCCHHHHHHHHHHH
Confidence 1 555888999999988 9999999988888999999999999999
Q ss_pred HHHHHHHH
Q 001353 390 QAFSLQLY 397 (1093)
Q Consensus 390 ~~~~~~l~ 397 (1093)
.++|..|+
T Consensus 121 ~~~a~ale 128 (129)
T PF13492_consen 121 NQLAIALE 128 (129)
T ss_dssp HHHHHHHH
T ss_pred HHHHHHhC
Confidence 99998874
No 98
>PF12860 PAS_7: PAS fold
Probab=98.51 E-value=3.4e-07 Score=88.00 Aligned_cols=104 Identities=22% Similarity=0.333 Sum_probs=72.9
Q ss_pred HHhcCccEEEECCCCcEEEecHHHHHhcCCCcccc-CCCCcccccc---------cccc-HHHHHHHHHHHHcCCCCceE
Q 001353 624 IETATAPIFGVDSSGTINGWNAKVAELTGLPASEA-MGKSLIDEVV---------HEES-QGAVENLICRALLGEEDKNV 692 (1093)
Q Consensus 624 ie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eel-iG~~~~~~lv---------~~~~-~~~~~~~l~~~l~g~~~~~~ 692 (1093)
+++++.||+++|.+|++++||+++.++||++.+.+ .|.++. +++ .+.+ ...+.+.+..... ......
T Consensus 1 Ld~l~~Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~~-~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~-~~~~~~ 78 (115)
T PF12860_consen 1 LDSLPQGVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASFR-DLLRRLAERGEFPPGDPEAWVRQRLARLRR-RQPRSF 78 (115)
T ss_pred CCCcCceEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCHH-HHHHHHHHcCCCCCCCHHHHHHHHHHHHhc-CCCcee
Confidence 47899999999999999999999999999999987 788865 443 2222 3333444433332 222223
Q ss_pred EEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHH
Q 001353 693 ELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMD 742 (1093)
Q Consensus 693 e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe 742 (1093)
++.. ...+|+.+...|..+ | |++.++.|||++|++|+
T Consensus 79 ~~~~--------~dgr~l~~~~~~~~~--G---g~v~~~~DVT~~~~~E~ 115 (115)
T PF12860_consen 79 ELRL--------PDGRWLEVRAQPLPD--G---GFVLTFTDVTERRRAEE 115 (115)
T ss_pred EEEC--------CCCEEEEEEeEECCC--C---CEEEEEEeCCHHHHhcC
Confidence 3222 444677778888754 4 67899999999999874
No 99
>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=98.49 E-value=2e-06 Score=74.64 Aligned_cols=103 Identities=29% Similarity=0.409 Sum_probs=84.7
Q ss_pred cCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCc
Q 001353 627 ATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHS 706 (1093)
Q Consensus 627 ~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~ 706 (1093)
++++++++|.+|.+.++|+.+++++|++..+++|+++. .++++.+...+...+.....++.....++.+ ...+|.
T Consensus 1 ~~~~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~ 75 (103)
T cd00130 1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLL-DLIHPEDREELRERLENLLSGGEPVTLEVRL----RRKDGS 75 (103)
T ss_pred CCceEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHH-HhcCCccchHHHHHHHHHHhcCcCeEEEEEE----EccCCC
Confidence 46789999999999999999999999999999999988 7888877777777777766554443334333 345788
Q ss_pred EEEEEEEEEEeecCCCCEEEEEEEEEec
Q 001353 707 VVYILVNACTSRDYKNNVKGVCFVGQDI 734 (1093)
Q Consensus 707 ~~~v~v~~~pi~d~~g~v~gv~~v~~DI 734 (1093)
.+|+.+...++.+..|...+++++++||
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 76 VIWVLVSLTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEEEEecCCCCEEEEEEEEecC
Confidence 9999999999999889999999999886
No 100
>PRK13559 hypothetical protein; Provisional
Probab=98.49 E-value=7.4e-07 Score=103.65 Aligned_cols=99 Identities=14% Similarity=0.102 Sum_probs=83.7
Q ss_pred HHHHHHHHHHHhcCCCCCceEEecC---CCcEeechhhhHHHhCCCcchhccc----------------------cCCCc
Q 001353 746 RLQGDYEAIIQSVNPLIPPIFASDE---NACCSEWNAAMEKVTGWMRHEVIGI----------------------TGQGT 800 (1093)
Q Consensus 746 ~se~~lr~i~~~~~~li~~I~~~D~---~g~i~~~N~a~~~l~G~~~eEliG~----------------------~~~~~ 800 (1093)
.+...|+.++++.++ +|+++|. +|.+++||+++++++||+.++++|. .....
T Consensus 40 ~~~~~~~~~~e~~~~---~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 116 (361)
T PRK13559 40 ASGRLFEQAMEQTRM---AMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAERE 116 (361)
T ss_pred hhhhHHHHHHHhCCC---cEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCc
Confidence 446678889999987 8999997 5689999999999999999999981 12222
Q ss_pred cceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHH
Q 001353 801 ENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQP 847 (1093)
Q Consensus 801 ~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~ 847 (1093)
...+....+++|+.+|+..+..|+++.+|.+.+++++.+|||++++.
T Consensus 117 ~~~e~~~~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~ 163 (361)
T PRK13559 117 IVVELLNYRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAV 163 (361)
T ss_pred eEEEEEEEcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhh
Confidence 34566777899999999999999999999999999999999997754
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=98.46 E-value=1.2e-06 Score=99.98 Aligned_cols=114 Identities=14% Similarity=0.201 Sum_probs=86.1
Q ss_pred HHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEE
Q 001353 614 SSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVE 693 (1093)
Q Consensus 614 ~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e 693 (1093)
+...++|+.++++++++++++|.+|+|++||++++++||+++++.+|+++. ++.++++ +...+..... .. .
T Consensus 2 ~~~~~~l~~~~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~-~~~~~~~---~~~~l~~~~~---~~--~ 72 (333)
T TIGR02966 2 SALLSRFRAAAQALPDAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRIT-NLIRHPE---FVEYLAAGRF---SE--P 72 (333)
T ss_pred hhHHHHHHHHHHhCcCcEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHH-HHccCHH---HHHHHHhccc---CC--C
Confidence 345678999999999999999999999999999999999999999999988 6655422 2222222211 11 1
Q ss_pred EEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHH
Q 001353 694 LKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFI 745 (1093)
Q Consensus 694 ~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~ 745 (1093)
+.+ ..++|..+|+.+...|+.+.. ++++++|||++++.++...
T Consensus 73 ~~~----~~~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~~~~ 115 (333)
T TIGR02966 73 LEL----PSPINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQMRR 115 (333)
T ss_pred eEe----ecCCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHHHHH
Confidence 222 235788999999999987643 6778899999998876543
No 102
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=98.42 E-value=1.4e-05 Score=88.25 Aligned_cols=191 Identities=14% Similarity=0.192 Sum_probs=129.6
Q ss_pred HHHHHHhcCC---CCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCccc------cceeeeeHHHHHHHHHHHHHHHh
Q 001353 882 FVHKLLESSS---ISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNME------LKSEEFLLGNILDAVVSQVMVLL 951 (1093)
Q Consensus 882 g~~~LL~~~~---l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~------l~~~~v~L~~ll~~v~~~~~~~~ 951 (1093)
|..+.-+... .....+.+|+....+-=.++-+++. +-+.. +|+-+ .--..+++.++|.++.+..+...
T Consensus 156 Gl~E~~~~~~dp~~~~~iqyFLdr~y~sRIsiRMLv~qh~~l~~--~~kp~~~~~iG~I~~~c~v~~vi~~a~e~ar~lC 233 (414)
T KOG0787|consen 156 GLIEYREKDGDPVTEKNIQYFLDRFYMSRISIRMLVNQHLLLFA--SGKPDHPRHIGIIDPRCSVKKVIKDASENARFLC 233 (414)
T ss_pred HHHHHHHhcCCcchHHHHHHHHHHHHHHHHHHHHHHhhhhheec--CCCCCCcceeeeeCCCCCHHHHHHHHHHHHHHHH
Confidence 5555544433 1334456777765544466667777 42222 22221 11256789999999888776544
Q ss_pred ccC---CeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCC---CCC----eEEEEEEeCCccccCCCceeEEE
Q 001353 952 RDK---NLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPS---PDG----WVEIKVLPGLKLIKDADQFVHVQ 1021 (1093)
Q Consensus 952 ~~~---~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~---~~g----~I~I~v~~~~~~~~~~~~~~~v~ 1021 (1093)
... .-.+.++....+.. . ..-|..|.-++-+|+.||.+++-+ ..+ .|.|.+...++ .+.
T Consensus 234 d~yy~~sPel~i~~~~a~~~-~-vyvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gde---------Dl~ 302 (414)
T KOG0787|consen 234 DQYYLNSPELIIEGHNALSF-T-VYVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDE---------DLL 302 (414)
T ss_pred HHhccCCCeeEecCcccccC-c-cccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCc---------ceE
Confidence 332 22344443333221 1 135778999999999999886411 023 48888888877 889
Q ss_pred EEEecCCCCCChhhHhhhccCCCC-------------CCCCccchHHHHHHHHHHcCCEEEEEeeCC-eeEEEEEEee
Q 001353 1022 FRLTHPGEGIPSHLIEDMYNGRNQ-------------WTTPEGLGLKLSRKLLIMMNGRVRYVRENS-KCYFVIDLEL 1085 (1093)
Q Consensus 1022 l~V~DnG~GIp~e~~~~IFe~F~~-------------~~~GtGLGL~ivr~ive~hgG~I~v~S~~g-gt~F~v~LPl 1085 (1093)
+.|+|-|.|||.+..+++|.--|+ .-.|.|.||.|+|.-++-.||.+.+.|-.| ||-..+.|-.
T Consensus 303 ikISDrGGGV~~~~~drlf~Y~ySTa~~~~~d~~~~~plaGfG~GLPisrlYa~yf~Gdl~L~SleG~GTD~yI~Lk~ 380 (414)
T KOG0787|consen 303 IKISDRGGGVPHRDIDRLFSYMYSTAPAPSSDNNRTAPLAGFGFGLPISRLYARYFGGDLKLQSLEGIGTDVYIYLKA 380 (414)
T ss_pred EEEecCCCCcChhHHHHHHhhhcccCCCCCCCCCCcCcccccccCCcHHHHHHHHhCCCeeEEeeeccccceEEEecc
Confidence 999999999999999999988544 234899999999999999999999999998 5666666543
No 103
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=98.42 E-value=1.9e-06 Score=84.13 Aligned_cols=95 Identities=23% Similarity=0.297 Sum_probs=72.9
Q ss_pred cHHHHHHHHHHHHHHHHHcCCCC--CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCCcc
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPSP--DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTPEG 1051 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~~--~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~GtG 1051 (1093)
+...+..++.+++.||++|+... .+.|.|.+....+ .+.+.|.|+|.|+++.....-...-.......|
T Consensus 28 ~~~~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~---------~l~i~v~D~G~~~d~~~~~~~~~~~~~~~~~~G 98 (125)
T PF13581_consen 28 DRDDLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPD---------RLRISVRDNGPGFDPEQLPQPDPWEPDSLREGG 98 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCC---------EEEEEEEECCCCCChhhccCcccccCCCCCCCC
Confidence 35678999999999999997652 2678888888888 899999999999998865543221112455789
Q ss_pred chHHHHHHHHHHcCCEEEEEeeCCeeEEEEE
Q 001353 1052 LGLKLSRKLLIMMNGRVRYVRENSKCYFVID 1082 (1093)
Q Consensus 1052 LGL~ivr~ive~hgG~I~v~S~~ggt~F~v~ 1082 (1093)
+||.+++++++.. .| +..+|+++++.
T Consensus 99 ~Gl~li~~l~D~~----~~-~~~~gn~v~l~ 124 (125)
T PF13581_consen 99 RGLFLIRSLMDEV----DY-REDGGNTVTLR 124 (125)
T ss_pred cCHHHHHHHHcEE----EE-ECCCeEEEEEE
Confidence 9999999999876 55 56667776664
No 104
>PRK13558 bacterio-opsin activator; Provisional
Probab=98.38 E-value=3.6e-06 Score=106.26 Aligned_cols=101 Identities=19% Similarity=0.226 Sum_probs=86.2
Q ss_pred HHHHHHhcCCCCCceEEec---CCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCccceee
Q 001353 751 YEAIIQSVNPLIPPIFASD---ENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFPF 805 (1093)
Q Consensus 751 lr~i~~~~~~li~~I~~~D---~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e~ 805 (1093)
++.++++.+. ++|..| .+|++++||+++.+++||++++++| .........++
T Consensus 150 ~~~~~~~~~~---gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 226 (665)
T PRK13558 150 KERALDEAPV---GITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERPTSVEL 226 (665)
T ss_pred HHHHHhcCCc---cEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHHHHHHHHhcCCCeEEEE
Confidence 4567888876 799987 4789999999999999999999988 12233456778
Q ss_pred EEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhH
Q 001353 806 GFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGL 854 (1093)
Q Consensus 806 ~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~ 854 (1093)
++.+++|..+|+.++..|+.+.+|.+.+++++.+|||++|+.+.++++.
T Consensus 227 ~~~~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~~ 275 (665)
T PRK13558 227 RNYRKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRE 275 (665)
T ss_pred EEECCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHHH
Confidence 8899999999999999999999999999999999999999988776643
No 105
>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=98.36 E-value=6.8e-07 Score=107.93 Aligned_cols=104 Identities=15% Similarity=0.134 Sum_probs=88.2
Q ss_pred HHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhccc----------------------cCCCccceeeE
Q 001353 749 GDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIGI----------------------TGQGTENFPFG 806 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG~----------------------~~~~~~~~e~~ 806 (1093)
+.|+.++++++. ++|++|.+|+++++|+++++++||++++++|. .....+..++.
T Consensus 4 ~~~~~i~~~~~~---~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (494)
T TIGR02938 4 EAYRQTVDQAPL---AISITDLKANILYANDAFTRITGYTKEEIIGKNESVLSNHTTPPEVYQALWGSLAEQKPWAGKLL 80 (494)
T ss_pred HHHHHHHHhCCc---eEEEECCCCcEEEEchhheeecCCCHHHHhCCCchhhcCCCCCHHHHHHHHHHHHhCCcccceee
Confidence 568899999997 89999999999999999999999999999881 11222334556
Q ss_pred EEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHH
Q 001353 807 FFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLE 855 (1093)
Q Consensus 807 ~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~ 855 (1093)
..+++|+.+|+..+..|+.+.+|.+.+++++++|||++++.+.++++..
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~DIt~~k~~e~~l~~~~ 129 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDITELHRLEQVVANQK 129 (494)
T ss_pred ccCCCccchhhheeeEEEECCCCCEEEEEEehhhhhHHHHHHHHHHHHH
Confidence 6788999999999999999999999999999999999998877655433
No 106
>PRK13557 histidine kinase; Provisional
Probab=98.36 E-value=4.2e-06 Score=102.61 Aligned_cols=104 Identities=16% Similarity=0.125 Sum_probs=87.0
Q ss_pred HHHHHHHHHHHHHHHhcCCCCCceEEecC---CCcEeechhhhHHHhCCCcchhccc----------------------c
Q 001353 742 DKFIRLQGDYEAIIQSVNPLIPPIFASDE---NACCSEWNAAMEKVTGWMRHEVIGI----------------------T 796 (1093)
Q Consensus 742 e~L~~se~~lr~i~~~~~~li~~I~~~D~---~g~i~~~N~a~~~l~G~~~eEliG~----------------------~ 796 (1093)
+.....+..|+.++++++. +|+++|. +|+++++|+++++++||+.+|++|. .
T Consensus 23 ~~~~~~~~~~~~~~~~~~~---~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~ 99 (540)
T PRK13557 23 DVSDHRSDIFFAAVETTRM---PMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVRDAIA 99 (540)
T ss_pred hhhhhhhHHHHHHHHhCcC---cEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHHHHHHH
Confidence 4444557889999999987 8999995 7899999999999999999999991 1
Q ss_pred CCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHH
Q 001353 797 GQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 797 ~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e 848 (1093)
.......++...+++|+.+|+..+..|+.+.+|.+++++++.+|||++++.+
T Consensus 100 ~~~~~~~~~~~~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e 151 (540)
T PRK13557 100 ERREIATEILNYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAE 151 (540)
T ss_pred cCCCceEEEEEEeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHH
Confidence 1222344566778999999999999999999999999999999999876554
No 107
>PF13185 GAF_2: GAF domain; PDB: 2QYB_A 3KSG_B 3KSF_C 3KSI_A 3KSH_A 3MMH_A 3RFB_B 1F5M_A 3KO6_B 3HCY_A ....
Probab=98.36 E-value=6e-06 Score=82.29 Aligned_cols=137 Identities=15% Similarity=0.164 Sum_probs=89.9
Q ss_pred CHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccC--CC-Cc-hHHHH-----HhHhcCCeE
Q 001353 230 DIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFP--AN-DI-PQAAR-----FLFKQNRVR 300 (1093)
Q Consensus 230 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p--~~-di-p~~~r-----~l~~~~~~r 300 (1093)
+++++++.+++.+.+++++|...||-+++++ +.......... ...++..++ .. +. +...+ ..+..++..
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 323332221 11 11 11111 015556555
Q ss_pred EEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCch
Q 001353 301 MICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFP 380 (1093)
Q Consensus 301 ~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~ 380 (1093)
++. .+.... +. .......|++|-+++||+.+| ++||.|..-+..++.++..
T Consensus 81 ~~~-~~~~~~-----------------------~~-~~~~~~~~~~s~l~vPl~~~~----~~~Gvl~l~~~~~~~f~~~ 131 (148)
T PF13185_consen 81 IIN-DDDSSF-----------------------PP-WELARHPGIRSILCVPLRSGG----EVIGVLSLYSKEPNAFSEE 131 (148)
T ss_dssp EES-CCCGGG-----------------------ST-THHHCCTT-SEEEEEEEEETT----EEEEEEEEEESSTT---HH
T ss_pred EEe-Cccccc-----------------------cc-hhhhccccCCEEEEEEEeECC----EEEEEEEEeeCCCCCcCHH
Confidence 555 101111 11 366899999999999999998 9999999988889999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q 001353 381 LRYACEFLVQAFSLQLY 397 (1093)
Q Consensus 381 ~r~~~~~l~~~~~~~l~ 397 (1093)
.+.+++.+++++|..|+
T Consensus 132 ~~~~l~~la~~~a~aie 148 (148)
T PF13185_consen 132 DLELLEALADQIAIAIE 148 (148)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhC
Confidence 99999999999998773
No 108
>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=98.28 E-value=4.4e-06 Score=76.26 Aligned_cols=96 Identities=20% Similarity=0.239 Sum_probs=78.1
Q ss_pred HHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------cc-CCCccceee
Q 001353 749 GDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------IT-GQGTENFPF 805 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~-~~~~~~~e~ 805 (1093)
+.++.++++++. ++++.|.+|+++++|+++.+++|++.++++| .. .......++
T Consensus 3 ~~~~~~~~~~~~---~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPD---AIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCc---eEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 456778888887 8999999999999999999999999888776 11 112233445
Q ss_pred EEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHH
Q 001353 806 GFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 806 ~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e 848 (1093)
.+..++|..+|+.....++. .+|...+++++..|+|++++.+
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~ 121 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAE 121 (124)
T ss_pred eeEcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHH
Confidence 55688999999999999988 8899999999999999876654
No 109
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=98.24 E-value=4e-05 Score=93.93 Aligned_cols=151 Identities=10% Similarity=0.042 Sum_probs=109.1
Q ss_pred HHHHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhH
Q 001353 215 LAVSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLF 294 (1093)
Q Consensus 215 ~~~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~ 294 (1093)
.+.++...+.+ +.+++++++.+++.+.+++|+||..||-+++++.-.+ ..+....-+..-..+|+.. .--....+
T Consensus 6 ~L~~is~~l~~--~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~~~l~-~aa~g~~~~~~~~~~~~~~--~gi~g~v~ 80 (534)
T TIGR01817 6 ALYEISKILSA--PTRLEKTLANVLNVLSNDLGMRHGLITLSDSEGEPLL-VAAIGWSEEGFAPIRYRVG--EGAIGQIV 80 (534)
T ss_pred HHHHHHHHHhc--cCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCCCEEE-EEEeCCChhhcccccccCC--ccHHHHHH
Confidence 34455566666 6799999999999999999999999999988865433 3333222111111344322 13345677
Q ss_pred hcCCeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCC-
Q 001353 295 KQNRVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTS- 373 (1093)
Q Consensus 295 ~~~~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~- 373 (1093)
..+..-+|.|+...+... .+.. +...+++|-|+|||..+| +++|.|..+...
T Consensus 81 ~~~~pvii~Dv~~d~~~~---------------------~~~~--~~~~~~~S~l~VPL~~~g----~viGvL~v~s~~~ 133 (534)
T TIGR01817 81 ATGNSLVVPDVAAEPLFL---------------------DRLS--LYDPGPVPFIGVPIKADS----ETIGVLAADRDFR 133 (534)
T ss_pred hcCCeEEecccccCchhh---------------------hccc--cccCCcceEEEEEEcCCC----EEEEEEEEEeccc
Confidence 888888999987665431 0010 234678999999999888 999999999876
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHH
Q 001353 374 PRYIPFPLRYACEFLVQAFSLQLY 397 (1093)
Q Consensus 374 p~~~~~~~r~~~~~l~~~~~~~l~ 397 (1093)
++.+..+...+++.+|.+++..|.
T Consensus 134 ~~~ft~~d~~lL~~lA~~ia~aI~ 157 (534)
T TIGR01817 134 SRERLEEEVRFLEMVANLIGQTVR 157 (534)
T ss_pred cccccHHHHHHHHHHHHHHHHHHH
Confidence 677899999999999999999885
No 110
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.23 E-value=7e-06 Score=98.01 Aligned_cols=117 Identities=14% Similarity=0.135 Sum_probs=82.1
Q ss_pred hHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCC
Q 001353 609 GVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEE 688 (1093)
Q Consensus 609 ~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~ 688 (1093)
..++|++.+++|+.+++++|++++++|.+|+|+++|++++++||++.++.+|+++. +++...+. ...+.. ...
T Consensus 89 ~~~~l~~~~~~~~~~~~~~~~~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~-~~~~~~~~---~~~~~~---~~~ 161 (430)
T PRK11006 89 RRRELGNLIKRFRSGAESLPDAVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNIL-NLLRYPEF---TQYLKT---RDF 161 (430)
T ss_pred HHHHHHHHHHHHHHHHHhCCCeEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHH-HHhcCHHH---HHHHHh---ccc
Confidence 34678888899999999999999999999999999999999999999999999988 55543221 112211 111
Q ss_pred CceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHH
Q 001353 689 DKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFI 745 (1093)
Q Consensus 689 ~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~ 745 (1093)
.. ...+. ..++ .++.+...|..+ + +.+.+.+|||++++.+++.+
T Consensus 162 ~~--~~~~~----~~~~--~~~~~~~~~~~~--~---~~~~~~~dit~~~~~e~~~~ 205 (430)
T PRK11006 162 SR--PLTLV----LNNG--RHLEIRVMPYTE--G---QLLMVARDVTQMHQLEGARR 205 (430)
T ss_pred CC--CeEEE----cCCC--CEEEEEEEEcCC--C---cEEEEEehhhHHHHHHHHHH
Confidence 11 11221 1233 355566666543 2 35677899999998887654
No 111
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.17 E-value=5.3e-05 Score=94.94 Aligned_cols=205 Identities=14% Similarity=0.149 Sum_probs=120.8
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHh-----cCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAEL-----TGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNV 692 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~l-----lG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~ 692 (1093)
+.+..++...+..+++.|.+|.|+.++....-+ .|+. .|..+.+..+... .+-.++..+.+..+
T Consensus 62 ~~l~~~l~~~~~~~~l~D~~G~vL~~~g~~~~~~~~~~~~~~----~G~~w~E~~~GTn-------aig~al~~~~pv~v 130 (638)
T PRK11388 62 EDAWEYMADRECALLILDETGCILSRNGDPQTLQQLSALGFN----DGTYCAEGIIGTN-------ALSLAAISGQPVKT 130 (638)
T ss_pred HHHHHHhcCCCcEEEEEcCCceEEEEeCCHHHHHHHHHcCCc----cCCccchhccCcC-------HHHHHHhcCCceEE
Confidence 345566777889999999999999875433221 2221 2333331221111 22333433332111
Q ss_pred EEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecch------------------hHHHHHHH---HHHHHHH
Q 001353 693 ELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITH------------------EKVLMDKF---IRLQGDY 751 (1093)
Q Consensus 693 e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITe------------------rK~aEe~L---~~se~~l 751 (1093)
. .. -|-......+.+.+.|++|.+|+++|++.+..+... +....... ......+
T Consensus 131 --~--g~-EH~~~~~~~~~c~aaPI~d~~G~liGvl~l~~~~~~~~~~~l~lv~~~a~~Ie~~l~~~~~~~~~~~~~~~~ 205 (638)
T PRK11388 131 --M--GD-QHFKQALHNWAFCATPVFDSKGRLTGTIALACPVEQTSAADLPLTLSIAREVGNLLLTDSLLAESNRHLNQL 205 (638)
T ss_pred --e--cH-HHHHHhccCceEEeeEEEcCCCCEEEEEEEEecccccChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 00 011122344678899999999999999987765432 11111111 2222333
Q ss_pred HHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcccc------C----------CC-ccceeeEEEccCCcE
Q 001353 752 EAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIGIT------G----------QG-TENFPFGFFNRQGQF 814 (1093)
Q Consensus 752 r~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG~~------~----------~~-~~~~e~~~~~kdG~~ 814 (1093)
..++++.++ ||+++|.+|+|+++|+++++++|++.++++|.. . .. ....+. ....+|..
T Consensus 206 ~~il~~~~~---gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~~~~~l~~vl~~~~~~~~~~~-~l~~~g~~ 281 (638)
T PRK11388 206 NALLESMDD---GVIAWDEQGNLQFLNAQAARLLRLDATASQGRAITELLTLPAVLQQAIKQAHPLKHVEV-TFESQGQF 281 (638)
T ss_pred HHHHhccCC---cEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHHHHhccchHHHHHHhcCCceeeEEE-EEecCCce
Confidence 457777766 999999999999999999999999988988811 0 00 111111 22345777
Q ss_pred EEEEEEEeEeecCCCcEEEEEEEEeecccC
Q 001353 815 VEVALTASRRTDAEGKVIGCFCFMQILVPD 844 (1093)
Q Consensus 815 ~~v~~~~~~i~d~~G~v~g~i~~~~DITe~ 844 (1093)
+++.++..|+.+..|. +++.++.+++..
T Consensus 282 ~~~~v~~~Pi~~~~g~--~~v~~l~~~~~~ 309 (638)
T PRK11388 282 IDAVITLKPIIEGQGT--SFILLLHPVEQM 309 (638)
T ss_pred EEEEEEEEeecccCce--EEEEEehhhHHH
Confidence 7888899998755553 355556676653
No 112
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.16 E-value=2.1e-05 Score=96.68 Aligned_cols=126 Identities=14% Similarity=0.186 Sum_probs=91.8
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCC---ccccCCCCccccccccccHHHHHHHHHHHHcCC
Q 001353 611 DELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLP---ASEAMGKSLIDEVVHEESQGAVENLICRALLGE 687 (1093)
Q Consensus 611 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~---~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~ 687 (1093)
.|+....++++.++++++++|+++|.+|+|++||++++++||++ ..+.+|+.+. .+.+.. .+...+..+
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 56677778889999999999999999999999999999999765 3466777766 444422 233344444
Q ss_pred CCce-EEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHH
Q 001353 688 EDKN-VELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAI 754 (1093)
Q Consensus 688 ~~~~-~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i 754 (1093)
.... .+.. .+| .++.++..|+.+ +|.+.|++.+++|+|+.++.++++.......+.+
T Consensus 286 ~~~~~~~~~-------~~g--~~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~~~~~~~~l 343 (542)
T PRK11086 286 TPRRDEEIN-------ING--RLLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDGMVNYADAL 343 (542)
T ss_pred CCccceEEE-------ECC--EEEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHHHHHHHHHH
Confidence 3321 1111 123 356677889998 8999999999999999999998887766544433
No 113
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=98.15 E-value=1.6e-05 Score=93.34 Aligned_cols=207 Identities=11% Similarity=0.173 Sum_probs=136.4
Q ss_pred HHHHH-HHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCC---------
Q 001353 618 CEMVR-LIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGE--------- 687 (1093)
Q Consensus 618 ~~l~~-lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~--------- 687 (1093)
+.+.. ++++..-.|++++.||.++|++......+|++.-|+.|.+++ |++||.|.+.+.+.+.......
T Consensus 118 ~~l~~~iLqsLDGFVm~l~~dG~~lYiSEtVS~yLGLSQvELTG~SvF-DfiHP~DheE~~eqL~l~~~~p~~~es~~~~ 196 (768)
T KOG3558|consen 118 QHLGDHILQSLDGFVMALTQDGDFLYISETVSIYLGLSQVELTGSSVF-DFIHPCDHEEIAEQLGLRLTTPEVKESTDTS 196 (768)
T ss_pred hhhhhhHHhhccceEEEEccCCCEEEEechhHhhhCccceeeecchhh-hccCccCHHHHHHHhccccCCCcccccccCc
Confidence 34443 566666667889999999999999999999999999999999 9999999998888775544311
Q ss_pred CCceEEEEEEEeeeccCCcEEEEEEEEEEee---------cCCCC----------EEEEEEEEEecchhHHHHHHHHHHH
Q 001353 688 EDKNVELKLRKFELQKQHSVVYILVNACTSR---------DYKNN----------VKGVCFVGQDITHEKVLMDKFIRLQ 748 (1093)
Q Consensus 688 ~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~---------d~~g~----------v~gv~~v~~DITerK~aEe~L~~se 748 (1093)
.++.+-++++.. ..+-|+...+......+. +..+. ..|.+.+..-|---+-.|-.|
T Consensus 197 teRsFflRMKsT-LT~RGRtlnlKSa~yKvlh~tgh~rv~~~~sh~s~~~g~~~Pl~~lV~~a~alp~ps~~EipL---- 271 (768)
T KOG3558|consen 197 TERSFFLRMKST-LTKRGRTLNLKSAGYKVLHCTGHLRVYNNPSHNSPLCGYKEPLLGLVALAEALPPPSYTEIPL---- 271 (768)
T ss_pred cceeEEEEeeee-eccCCceeeeeccceeEEEEeeeeeeccCCCCCCcccCccccchheeeeeccCCCCccccccc----
Confidence 123444555443 455565444433222221 11111 122222222111111111110
Q ss_pred HHHHHHHHhcCCCCCceEE--ecCCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCcccee
Q 001353 749 GDYEAIIQSVNPLIPPIFA--SDENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFP 804 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~--~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e 804 (1093)
--.+|+ ...|.+|+||.+.+.+++||.++|++| ...+......
T Consensus 272 -------------~~~~FvtRhs~DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~Tgy 338 (768)
T KOG3558|consen 272 -------------DCHMFVTRHSLDMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVVTGY 338 (768)
T ss_pred -------------CCceeEEeeecceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhcCccchhH
Confidence 001344 567889999999999999999999999 4455556667
Q ss_pred eEEEccCCcEEEEEEEEeEeecC-CCcEEEEEEEEeeccc
Q 001353 805 FGFFNRQGQFVEVALTASRRTDA-EGKVIGCFCFMQILVP 843 (1093)
Q Consensus 805 ~~~~~kdG~~~~v~~~~~~i~d~-~G~v~g~i~~~~DITe 843 (1093)
|++..|+|.++|+...++.+.+. +++-..++|+---++.
T Consensus 339 YR~lak~GGyvWlQTqATVi~~tkn~q~q~IicVnYVlS~ 378 (768)
T KOG3558|consen 339 YRLLAKNGGYVWLQTQATVIYNTKNPQEQNIICVNYVLSN 378 (768)
T ss_pred HHHHHhcCCeEEEEeeeEEEecCCCCCcceEEEEEeeecc
Confidence 89999999999999999988874 3445666776655554
No 114
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.14 E-value=2.6e-05 Score=94.81 Aligned_cols=112 Identities=12% Similarity=0.119 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceE
Q 001353 613 LSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNV 692 (1093)
Q Consensus 613 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~ 692 (1093)
+++.+.++.++++++++||+++|.+|+|+++|++++++||++.++++|+++. ++++.... ...+..+.....
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 77765432 223333332111
Q ss_pred EEEEEEeeeccCCcEEEEEEEEEEee--cCCCCE--EEEEEEEEecchhHH
Q 001353 693 ELKLRKFELQKQHSVVYILVNACTSR--DYKNNV--KGVCFVGQDITHEKV 739 (1093)
Q Consensus 693 e~~l~~~~~~kdG~~~~v~v~~~pi~--d~~g~v--~gv~~v~~DITerK~ 739 (1093)
...+ ..+|..++ +...|+. |.+|.. .|++.+++|+|+..+
T Consensus 147 ~~~v-----~~~g~~~~--v~~~PI~~~d~~g~~~~~GaVivlrd~~~l~~ 190 (520)
T PRK10820 147 NEHV-----VINGQDFL--MEITPVYLQDENDQHVLVGAVVMLRSTARMGR 190 (520)
T ss_pred eEEE-----EECCEEEE--EEEEeeeecCCCCceeEEEEEEEeccHHHHHH
Confidence 1122 22455444 5667776 666654 899999999998643
No 115
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=98.08 E-value=1.6e-05 Score=89.69 Aligned_cols=103 Identities=15% Similarity=0.242 Sum_probs=79.3
Q ss_pred HHHHHHHHHHHHHHHHHcCCCCC--CeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCC-CC------
Q 001353 975 RIRLQLVLSDFLHCVVRHAPSPD--GWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGR-NQ------ 1045 (1093)
Q Consensus 975 ~~~L~qVl~nLl~NAik~t~~~~--g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F-~~------ 1045 (1093)
.-.|.+++.+|++|+++++...| .+|.|.+...+. .+..+.|.|||+|||++.++++|..+ |.
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 45689999999999999987622 378888877632 29999999999999999999999883 22
Q ss_pred --CCCCccchHHHHHHHHHHcCCE-EEEEeeCCe--eEEEEEEee
Q 001353 1046 --WTTPEGLGLKLSRKLLIMMNGR-VRYVRENSK--CYFVIDLEL 1085 (1093)
Q Consensus 1046 --~~~GtGLGL~ivr~ive~hgG~-I~v~S~~gg--t~F~v~LPl 1085 (1093)
..+.-|||.+-+--..+.+-|+ +.|.|..++ +...+.|-+
T Consensus 106 ~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~i 150 (538)
T COG1389 106 IQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKI 150 (538)
T ss_pred hhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEe
Confidence 4566899999998888877665 899887763 444444443
No 116
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.07 E-value=0.00028 Score=71.14 Aligned_cols=204 Identities=23% Similarity=0.287 Sum_probs=135.7
Q ss_pred EEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcEEEE
Q 001353 631 IFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSVVYI 710 (1093)
Q Consensus 631 I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~~v 710 (1093)
.+..+..+.+.+.|......+++......+ .. .......................... ........++...++
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~ 74 (232)
T COG2202 2 ILVLDRDGRIIYANEAAEELLGYSAEELLG--LL-LALHPEDRDRLRELLRRLLAGEELLS----EELRLVRKDGEERWV 74 (232)
T ss_pred eEEEcccccEEEecccchhhcCCChHHhhh--hh-hccCccchhhhHHHHHHHhccCCcch----hhHHhhhcCCcEEEE
Confidence 355677888999999999888887776655 11 11111111111111222221111100 001112234555555
Q ss_pred EEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcc
Q 001353 711 LVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRH 790 (1093)
Q Consensus 711 ~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~e 790 (1093)
...........+........ .|++..+..++.++..+.+++.++++.+. +++..|.+|.+.++|+++.+++|++..
T Consensus 75 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~d~~~~~~~~n~~~~~~~g~~~~ 150 (232)
T COG2202 75 ELSAAPLRDGEGRVLGLLGL-RDITERKRAEEALRESEERLRALLEASPD---GIWVLDEDGRILYANPAAEELLGYSPE 150 (232)
T ss_pred EecceEEEcCCCCEEEEEee-eecchHHHHHHHHHHHHHHHHHHHhhCCc---eEEEEeCCCCEEEeCHHHHHHhCCChH
Confidence 44444334445555555556 89999999999999999999999999997 899999999999999999999999976
Q ss_pred hhcc------------------------ccCCCccceeeEEEccCCcE-EEEEEEEeEeecCCCcEEEEEEEEeecccCc
Q 001353 791 EVIG------------------------ITGQGTENFPFGFFNRQGQF-VEVALTASRRTDAEGKVIGCFCFMQILVPDL 845 (1093)
Q Consensus 791 EliG------------------------~~~~~~~~~e~~~~~kdG~~-~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k 845 (1093)
+..+ .........++....++|.. .+......+... +|.+.++.+...|+++++
T Consensus 151 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~d~~~~~ 229 (232)
T COG2202 151 EELGRGLSDLIHPEDEERRELELARALAEGRGGPLEIEYRVRRKDGERVRWILSRISPVRD-DGEIVGVVGIARDITERK 229 (232)
T ss_pred HhcCCChhheEecCCCchhhHHHHHHhhccCCCCcceEEEEEecCCCEEEEEEeeeeEecC-CCceEEEEEEEechHHHh
Confidence 6666 01111234567788899996 777777776655 789999999999999865
Q ss_pred H
Q 001353 846 Q 846 (1093)
Q Consensus 846 ~ 846 (1093)
+
T Consensus 230 ~ 230 (232)
T COG2202 230 Q 230 (232)
T ss_pred h
Confidence 4
No 117
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.05 E-value=5.9e-05 Score=88.01 Aligned_cols=169 Identities=19% Similarity=0.289 Sum_probs=115.7
Q ss_pred HHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceE
Q 001353 613 LSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNV 692 (1093)
Q Consensus 613 L~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~ 692 (1093)
|....+.|..+++.+.++++++|.+|.++++|+++..++|++.++++|+++. +++.... ......++..+.+.
T Consensus 112 l~~~~~~l~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk~~~-~v~~~~~----~s~~l~vl~~~kp~-- 184 (560)
T COG3829 112 LRQLRQRLEAILDSIDDGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGKHLL-DVVSAGE----DSTLLEVLRTGKPI-- 184 (560)
T ss_pred HHHHHHHHHHHHhhccCceEEEcCCCcEEEEcHHHHHHhCCCHHHHcCCcHH-HHHhccC----CceehhhhhcCCcc--
Confidence 5566788999999999999999999999999999999999999999999988 6651100 01222334333331
Q ss_pred EEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHH--------HHHHh-------
Q 001353 693 ELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYE--------AIIQS------- 757 (1093)
Q Consensus 693 e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr--------~i~~~------- 757 (1093)
.....+. .|... ..+..|++ .+|.+.|++.+++|+++.+.+..++.+++...+ .|+-.
T Consensus 185 ~~~~~~~----~~~~~--i~~~~pv~-~~g~l~G~v~~~~~~~~l~~l~~~~~~~~~~~~~~a~y~f~~Iig~S~~m~~~ 257 (560)
T COG3829 185 RDVVQTY----NGNKI--IVNVAPVY-ADGQLIGVVGISKDVSELERLTRELEESEGLLRLKAKYTFDDIIGESPAMLRV 257 (560)
T ss_pred eeeeeee----cCCce--eEeeccEe-cCCcEEEEEEeecchHHHHHHHHHHHHHhhhhccccccchhhhccCCHHHHHH
Confidence 1122211 23322 55666665 466999999999999999999988888776655 22211
Q ss_pred ------cCCCCCceEEecC-------------------CCcEeechhhh-------HHHhCCCcchhccc
Q 001353 758 ------VNPLIPPIFASDE-------------------NACCSEWNAAM-------EKVTGWMRHEVIGI 795 (1093)
Q Consensus 758 ------~~~li~~I~~~D~-------------------~g~i~~~N~a~-------~~l~G~~~eEliG~ 795 (1093)
.......|.+..+ +|-++.+|=++ .++|||.+..+.|.
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 1111114555544 45577888666 47899999888883
No 118
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.04 E-value=0.00044 Score=87.40 Aligned_cols=146 Identities=5% Similarity=0.001 Sum_probs=103.1
Q ss_pred CCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEec--CCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecC
Q 001353 228 GGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIR--RSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDC 305 (1093)
Q Consensus 228 ~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~--~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~ 305 (1093)
+.+++++++.+++.+++++++|++.|+-++++...-++.-+. ....+...+...|... .-+...+..+...++.|.
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 679999999999999999999999999998886543332222 2222333343433221 234566777788788776
Q ss_pred CCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHHH
Q 001353 306 HAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYAC 385 (1093)
Q Consensus 306 ~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~~ 385 (1093)
...+....+ ....+ +..-++++.++||++.+| +.=|.|..-++.++.|+.....++
T Consensus 275 ~~d~~~~~~-------------------~~~~~-~~~~~~~s~l~vPL~~~~----~v~GvL~l~~~~~~~F~~~dl~lL 330 (686)
T PRK15429 275 ERDDLAPYE-------------------RMLFD-TWGNQIQTLCLLPLMSGD----TMLGVLKLAQCEEKVFTTTNLKLL 330 (686)
T ss_pred cCcccchhh-------------------hhhhh-cccccceEEEEEeEEECC----EEEEEEEEeeCCCCcCCHHHHHHH
Confidence 554432100 00011 123457899999999988 999999988888999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 001353 386 EFLVQAFSLQLYME 399 (1093)
Q Consensus 386 ~~l~~~~~~~l~~~ 399 (1093)
..+|.++++.|...
T Consensus 331 ~~iA~~~A~Aie~a 344 (686)
T PRK15429 331 RQIAERVAIAVDNA 344 (686)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999998643
No 119
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=97.99 E-value=0.00058 Score=83.14 Aligned_cols=153 Identities=11% Similarity=0.073 Sum_probs=106.9
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhc
Q 001353 217 VSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQ 296 (1093)
Q Consensus 217 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~ 296 (1093)
.++...|.+ +.+++++++.+++.+++++++|.+-|+-++++ .+...+..+.-....+..|+..+=|--...+ ..
T Consensus 7 ~eis~~L~~--s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~---~l~~~as~gl~~~~~~~~~~~geGP~l~av~-~~ 80 (509)
T PRK05022 7 LPIALDLSR--GLPHQDRFQRLLTTLRQVLPCDASALLRLDGD---QLVPLAIDGLSPDVLGRRFALEEHPRLEAIL-RA 80 (509)
T ss_pred HHHHHHHhc--CCCHHHHHHHHHHHHHHHcCCCEEEEEecCCC---cEEEEEEcCCChHhhCCccCCCcchHHHHHH-hc
Confidence 345556666 78999999999999999999999999999753 3333344333344556677766554332222 33
Q ss_pred CCeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCC
Q 001353 297 NRVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRY 376 (1093)
Q Consensus 297 ~~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~ 376 (1093)
+++..|+|...-|.++ + |-.. ....++|++|.|+|||.++| +.+|.|.+....|..
T Consensus 81 g~~v~v~~~~~~p~~~-~---------------~~~~----~~~~~~gi~S~l~vPL~~~~----~~~GvL~l~~~~~~~ 136 (509)
T PRK05022 81 GDPVRFPADSELPDPY-D---------------GLIP----GVQESLPVHDCMGLPLFVDG----RLIGALTLDALDPGQ 136 (509)
T ss_pred CCeEEEecCCCCCccc-c---------------cccc----cccccCCcceEEEEEEEECC----EEEEEEEEeeCCCCc
Confidence 5555565543323221 0 0000 01345799999999999998 999999999988888
Q ss_pred CCchHHHHHHHHHHHHHHHHHHH
Q 001353 377 IPFPLRYACEFLVQAFSLQLYME 399 (1093)
Q Consensus 377 ~~~~~r~~~~~l~~~~~~~l~~~ 399 (1093)
+......+++.++.+++..+...
T Consensus 137 f~~~~~~~l~~~a~~~a~Al~~a 159 (509)
T PRK05022 137 FDAFSDEELRALAALAAATLRNA 159 (509)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Confidence 88888999999999999988643
No 120
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=97.98 E-value=0.00018 Score=82.98 Aligned_cols=219 Identities=18% Similarity=0.113 Sum_probs=136.4
Q ss_pred CCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHH-HhHhcCC-eEEE-ec
Q 001353 228 GGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAAR-FLFKQNR-VRMI-CD 304 (1093)
Q Consensus 228 ~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r-~l~~~~~-~r~i-~d 304 (1093)
..+++.++..+++.+..+.|||+++++++|.+. .+..+...-..+.+|.+-+....+.+.- +.+..+. ++++ .|
T Consensus 46 ~~~~e~ll~~v~~~l~~~~~~~~~~ll~~d~~~---l~~~~~~gl~~~~~~~~~~~~~~~~~~l~~i~~~~~p~~~~~~d 122 (550)
T COG3604 46 PLRLERLLAEVAKELHSLFGCDASALLRLDSKN---LIPLATDGLSKDHLGREQRFVVEGHPLLEQILKAGRPLVFHPAD 122 (550)
T ss_pred chhHHHHHHHHHHHHHHHhcCCeeEEEEecccc---cchhhhhcccccccccccccccCcchHHHHHHhCCCcEEEecCC
Confidence 347999999999999999999999999999988 5555555555566666433444454442 3444444 4441 22
Q ss_pred CCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHH
Q 001353 305 CHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYA 384 (1093)
Q Consensus 305 ~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~ 384 (1093)
.. .|++..+ -+.-.+|+++.|.|.+||.+++ ++||.|.--|+.|-.+.+..-..
T Consensus 123 ~~------~~~~~~~----------------l~~~~~~~~~~a~i~~PL~~~~----~~~G~Ltld~~~~~~f~~~~~~~ 176 (550)
T COG3604 123 SL------FPDPYDG----------------LLPDTEGNKKHACIGVPLKSGD----KLIGALTLDHTEPDQFDEDLDEE 176 (550)
T ss_pred cc------cCCcccc----------------cccCccCCcceeEEeeeeeeCC----eeeeeEEeeeecccccchhHHHH
Confidence 21 1111110 0111467788999999999999 99999999999998888888888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH-HHHHhhcc--CCCcccccCCcchhhhccCCEEEEEECCeEEEecCC
Q 001353 385 CEFLVQAFSLQLYMELQVAMQLA-EKNILRTQV-LLCDMLLR--DAPFSIVTQSPSIMDLVKCDGAALYYGGRCWLVGVT 460 (1093)
Q Consensus 385 ~~~l~~~~~~~l~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~--~~~~~~~~~~~~~~~l~~a~g~al~~~~~~~~~G~~ 460 (1093)
.++|+...+.......- .+++. .++.+..+. .+..-+.. -...+|+.+|+.++++++.=-.+--.+-.+-..|+|
T Consensus 177 lr~La~~a~la~~~~~l-~~~l~~~~~~l~~e~~~~~~~~~~~~~~~~~iIG~S~am~~ll~~i~~VA~Sd~tVLi~GET 255 (550)
T COG3604 177 LRFLAALAALAVANALL-HRELSSLKERLEEENLALEEQLSEVVLEVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGET 255 (550)
T ss_pred HHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhhhhhhccccchhcccccceecCHHHHHHHHHHHHHhcCCCeEEEecCC
Confidence 88888888877643211 11111 111111110 01111111 124578889988888777555555556666777888
Q ss_pred CCHHHH-HHHHHHHHhc
Q 001353 461 PTESQL-KDIAWWLLNN 476 (1093)
Q Consensus 461 p~~~~~-~~l~~~l~~~ 476 (1093)
=+-.++ ...+..++.+
T Consensus 256 GtGKElvAraIH~~S~R 272 (550)
T COG3604 256 GTGKELVARAIHQLSPR 272 (550)
T ss_pred CccHHHHHHHHHhhCcc
Confidence 776554 3344455444
No 121
>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=97.90 E-value=3.6e-05 Score=70.13 Aligned_cols=65 Identities=12% Similarity=0.259 Sum_probs=53.7
Q ss_pred EeechhhhHHHhCCCcchh-cc-------------------------ccCCCccceeeEEEccCCcEEEEEEEEeEeecC
Q 001353 774 CSEWNAAMEKVTGWMRHEV-IG-------------------------ITGQGTENFPFGFFNRQGQFVEVALTASRRTDA 827 (1093)
Q Consensus 774 i~~~N~a~~~l~G~~~eEl-iG-------------------------~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~ 827 (1093)
+++||+.+.+++||+++++ .. .........++++++++|+++|+..++.++.|.
T Consensus 1 ~i~~s~~~~~i~G~~~~~~~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~~G~~~wi~~~~~~~~d~ 80 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEIGKPDFEEWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIRRKDGEYRWIEVRGRPIFDE 80 (91)
T ss_dssp -EEE-THHHHHHTS-HHHHTCBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEEGTTSTEEEEEEEEEEEETT
T ss_pred CEEEeHHHHHHhCCCHHHhccCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEECCCCCEEEEEEEEEEEECC
Confidence 5899999999999999999 33 234567888999999999999999999999999
Q ss_pred CCcEEEEEEEE
Q 001353 828 EGKVIGCFCFM 838 (1093)
Q Consensus 828 ~G~v~g~i~~~ 838 (1093)
+|++.+++|+.
T Consensus 81 ~g~~~~~~Gv~ 91 (91)
T PF08447_consen 81 NGKPIRIIGVI 91 (91)
T ss_dssp TS-EEEEEEEE
T ss_pred CCCEEEEEEEC
Confidence 99999999874
No 122
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=97.86 E-value=0.00017 Score=72.10 Aligned_cols=95 Identities=25% Similarity=0.358 Sum_probs=71.8
Q ss_pred ecHHHHHHHHHHHHHHHHHcCCC---CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCCCCCC
Q 001353 973 GDRIRLQLVLSDFLHCVVRHAPS---PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQWTTP 1049 (1093)
Q Consensus 973 ~D~~~L~qVl~nLl~NAik~t~~---~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~~~~G 1049 (1093)
.+..++.-++.+++.||++|+-. +.|.|.|.+....+ .++++|.|.|+||++ .++-++|.+....+
T Consensus 36 ~~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~---------~~~i~i~D~G~~~~~--~~~~~~~~~~~~~~ 104 (146)
T COG2172 36 VDIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDG---------KLEIRIWDQGPGIED--LEESLGPGDTTAEG 104 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCC---------eEEEEEEeCCCCCCC--HHHhcCCCCCCCcc
Confidence 37788999999999999999532 24899999999988 899999999977654 44556665554444
Q ss_pred c---cchHHHHHHHHHHcCCEEEEEeeCCe--eEEEEE
Q 001353 1050 E---GLGLKLSRKLLIMMNGRVRYVRENSK--CYFVID 1082 (1093)
Q Consensus 1050 t---GLGL~ivr~ive~hgG~I~v~S~~gg--t~F~v~ 1082 (1093)
. |+||.++++++ .++.+++++++ +-|++.
T Consensus 105 ~~~~G~Gl~l~~~~~----D~~~~~~~~~~~~~~~~~~ 138 (146)
T COG2172 105 LQEGGLGLFLAKRLM----DEFSYERSEDGRNRLTKIT 138 (146)
T ss_pred cccccccHHHHhhhh----eeEEEEeccCCceEEEEEE
Confidence 4 99999997766 57889966665 444443
No 123
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=97.83 E-value=0.00016 Score=69.03 Aligned_cols=101 Identities=14% Similarity=0.156 Sum_probs=79.0
Q ss_pred EEEECCCCcEEEecHH-HHHhcCCCccccCCCCccccccccccHHH-HHHHHHHHHcCCCCceEEEEEEEeeeccCCcEE
Q 001353 631 IFGVDSSGTINGWNAK-VAELTGLPASEAMGKSLIDEVVHEESQGA-VENLICRALLGEEDKNVELKLRKFELQKQHSVV 708 (1093)
Q Consensus 631 I~~~D~dG~I~~~N~~-~~~llG~~~eeliG~~~~~~lv~~~~~~~-~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~ 708 (1093)
+...+.||+|+++.++ ...++||.++|++|++++ +++||+|... +.+..+.+++.|.....-+++ ..++|+.+
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-DFVHPDDLQRVLKQHHREVLQKGQSVSPYYRF----RTKNGGYV 79 (111)
T ss_dssp EEEEETTSBEEEEETTHHHHHHSS-HHHHTTSBGG-GGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEE----E-TTSSEE
T ss_pred EEEECCCcEEEEEcCccChhhcCCCcHHHcCCchH-HhCCHhhhhhHHHHHHHHHhhCCCcCcceEEE----EecCCcEE
Confidence 4456899999999999 699999999999999999 9999999996 888888888777654444554 46799999
Q ss_pred EEEEEEEEeecCC-CCEEEEEEEEEecch
Q 001353 709 YILVNACTSRDYK-NNVKGVCFVGQDITH 736 (1093)
Q Consensus 709 ~v~v~~~pi~d~~-g~v~gv~~v~~DITe 736 (1093)
|+...+.+..++. +++..++++-+=|++
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 9999999998754 455666665444443
No 124
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=97.82 E-value=0.00035 Score=88.09 Aligned_cols=151 Identities=11% Similarity=0.059 Sum_probs=109.8
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhc
Q 001353 217 VSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQ 296 (1093)
Q Consensus 217 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~ 296 (1093)
.++...+.+ +.+++++++.+++.+++++++|+..||-+++++..-+++-+...+-+..-..+||-.. --....+..
T Consensus 6 ~eIs~~L~s--~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~ge--Gi~G~Va~t 81 (748)
T PRK11061 6 REIVEKVAS--APRLNEALDILVTETCLAMDTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDE--GIVGLVGRL 81 (748)
T ss_pred HHHHHHHhc--cCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCc--chHHHHhcc
Confidence 344555555 6699999999999999999999999999999876655554443222222223444321 123455666
Q ss_pred CCeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCC
Q 001353 297 NRVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRY 376 (1093)
Q Consensus 297 ~~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~ 376 (1093)
+..-.|.|+...|--. +...+...+++|-|+|||+.+| ++=|.|.+++..|+.
T Consensus 82 g~pV~V~Dv~~dprf~-----------------------~~~~~~~~~~~S~L~VPL~~~g----eVIGVL~v~~~~~~~ 134 (748)
T PRK11061 82 AEPINLADAQKHPSFK-----------------------YIPSVKEERFRAFLGVPIIYRR----QLLGVLVVQQRELRQ 134 (748)
T ss_pred CceEEECCcccCcccc-----------------------cCccccCccceEEEEEEEeeCC----EEEEEEEEeeCCCCC
Confidence 7777888887654321 0001124688999999999887 999999999999999
Q ss_pred CCchHHHHHHHHHHHHHHHHHH
Q 001353 377 IPFPLRYACEFLVQAFSLQLYM 398 (1093)
Q Consensus 377 ~~~~~r~~~~~l~~~~~~~l~~ 398 (1093)
++.....+++.++.+++..|..
T Consensus 135 Fs~~d~~lL~~LA~~aAiAL~n 156 (748)
T PRK11061 135 FDESEESFLVTLATQLAAILSQ 156 (748)
T ss_pred CCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999988853
No 125
>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=97.80 E-value=0.00014 Score=82.85 Aligned_cols=81 Identities=11% Similarity=0.147 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-CC-------
Q 001353 976 IRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WT------- 1047 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~------- 1047 (1093)
..+.+++.||+.||+++.. ..|.|.+... + ...+.|.|||.||+++.++++|++|++ +.
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 3477999999999999764 5788877542 2 456999999999999999999999987 21
Q ss_pred -----CCccchHHHHHHHHHHcCCEEEEEeeC
Q 001353 1048 -----TPEGLGLKLSRKLLIMMNGRVRYVREN 1074 (1093)
Q Consensus 1048 -----~GtGLGL~ivr~ive~hgG~I~v~S~~ 1074 (1093)
+-.|.||+....+ +.+.+.|..
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 2347788766443 257777653
No 126
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=97.72 E-value=8.4e-05 Score=62.56 Aligned_cols=62 Identities=39% Similarity=0.575 Sum_probs=53.0
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccc
Q 001353 862 KIKELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIE 923 (1093)
Q Consensus 862 k~~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie 923 (1093)
+.++++.++||+||||++|.++.+++.....+++...+++.+..+++++..++++ +++++.+
T Consensus 2 ~~~~~~~i~Hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~ 64 (66)
T smart00388 2 KREFLANLSHELRTPLTAIRGYLELLEDTELSEEQREYLETILRSAERLLRLINDLLDLSRIE 64 (66)
T ss_pred HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3568899999999999999999998887666666688999999999999999999 5777654
No 127
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.69 E-value=0.00028 Score=82.44 Aligned_cols=126 Identities=20% Similarity=0.313 Sum_probs=96.2
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCcc--ccCCCCcccccccc-ccHHHHHHHHHHHHcCC
Q 001353 611 DELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPAS--EAMGKSLIDEVVHE-ESQGAVENLICRALLGE 687 (1093)
Q Consensus 611 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~e--eliG~~~~~~lv~~-~~~~~~~~~l~~~l~g~ 687 (1093)
.|+...-++..++++++..|++.+|..|.|..+|.++++++|+... +.+|+++. ++++| .+.+. .++.+
T Consensus 208 ~EIa~l~~er~A~l~si~EGviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~-~v~~p~~~l~~-------vl~~~ 279 (537)
T COG3290 208 EEIATLLEERQAMLQSIKEGVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIV-EVLPPDSDLPE-------VLETG 279 (537)
T ss_pred HHHHHHHHHHHHHHHHhhceEEEECCCCeEeehhHHHHHHhcccCcCcccccccce-EeeccccCcHH-------HHhcC
Confidence 6677777888999999999999999999999999999999998776 68999999 77776 22222 22222
Q ss_pred CC-ceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHH
Q 001353 688 ED-KNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAI 754 (1093)
Q Consensus 688 ~~-~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i 754 (1093)
.+ +..++++ +.+++.++..|++ .+|+++|.+.++||=|+-++..++|........++
T Consensus 280 ~~~~~~e~~~---------ng~~~i~nr~pI~-~~~~~~GaI~tFRdktei~~L~eqLt~vr~ya~aL 337 (537)
T COG3290 280 KPQHDEEIRI---------NGRLLVANRVPIR-SGGQIVGAIITFRDKTEIKKLTEQLTGVRQYAEAL 337 (537)
T ss_pred Ccccchhhhc---------CCeEEEEEeccEE-ECCEEeEEEEEEecHHHHHHHHHHHHHHHHHHHHH
Confidence 22 2222222 2356778888887 47899999999999999999998887665544443
No 128
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.64 E-value=0.00071 Score=83.41 Aligned_cols=126 Identities=17% Similarity=0.258 Sum_probs=89.5
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCc--cccCCCCccccccccccHHHHHHHHHHHHcCCC
Q 001353 611 DELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPA--SEAMGKSLIDEVVHEESQGAVENLICRALLGEE 688 (1093)
Q Consensus 611 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~--eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~ 688 (1093)
.++.....++..+++++++|++++|.+|+|+++|+++++++|++. ++++|+++. +++++... . ..... ..
T Consensus 215 ~~~~~~~~~~~~il~~~~egii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~-~~~~~~~~--~----~~~~~-~~ 286 (545)
T PRK15053 215 KQIARVVRQQEALFSSVYEGLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIA-EVVRPADF--F----TEQID-EK 286 (545)
T ss_pred HHHHHHHHHHHHHHHHhCceEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHH-HhCCCchh--h----hhhcC-Cc
Confidence 455566677889999999999999999999999999999999875 468999987 66654321 1 11111 11
Q ss_pred CceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHH
Q 001353 689 DKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAI 754 (1093)
Q Consensus 689 ~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i 754 (1093)
....... .+| ..+.++..|+.+ +|++.|++.+++|+|+.++.++++...+...+.+
T Consensus 287 ~~~~~~~-------~~~--~~~~~~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~~~~~e~l 342 (545)
T PRK15053 287 RQDVVAN-------FNG--LSVIANREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQIKQYVESL 342 (545)
T ss_pred ccceEEE-------ECC--EEEEEEeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHHHHHHHHH
Confidence 1111111 123 345577778775 5677899999999999999988887776554433
No 129
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=97.60 E-value=0.0012 Score=66.56 Aligned_cols=125 Identities=23% Similarity=0.311 Sum_probs=87.0
Q ss_pred HHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHH-HHHHHHHHH-cCC
Q 001353 610 VDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGA-VENLICRAL-LGE 687 (1093)
Q Consensus 610 ~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~-~~~~l~~~l-~g~ 687 (1093)
..++.....++..+++..+++++.+|.+|.++++|+.+.+++|++..+..++... .+........ ......... ...
T Consensus 104 ~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 182 (232)
T COG2202 104 EEALRESEERLRALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLS-DLIHPEDEERRELELARALAEGRG 182 (232)
T ss_pred HHHHHHHHHHHHHHHhhCCceEEEEeCCCCEEEeCHHHHHHhCCChHHhcCCChh-heEecCCCchhhHHHHHHhhccCC
Confidence 3556666677999999999999999999999999999999999998877777765 4433322221 122222222 222
Q ss_pred CCceEEEEEEEeeeccCCcE-EEEEEEEEEeecCCCCEEEEEEEEEecchhHHH
Q 001353 688 EDKNVELKLRKFELQKQHSV-VYILVNACTSRDYKNNVKGVCFVGQDITHEKVL 740 (1093)
Q Consensus 688 ~~~~~e~~l~~~~~~kdG~~-~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~a 740 (1093)
.....++.. ..++|.. .+......+... .|.+.++.....|+|++++.
T Consensus 183 ~~~~~~~~~----~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 183 GPLEIEYRV----RRKDGERVRWILSRISPVRD-DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred CCcceEEEE----EecCCCEEEEEEeeeeEecC-CCceEEEEEEEechHHHhhc
Confidence 222333333 3467885 777777766654 78899999999999998865
No 130
>cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.
Probab=97.58 E-value=0.00057 Score=58.76 Aligned_cols=79 Identities=20% Similarity=0.315 Sum_probs=66.7
Q ss_pred CceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCccceeeEEEccCCcEEEEEEE
Q 001353 763 PPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFPFGFFNRQGQFVEVALT 820 (1093)
Q Consensus 763 ~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e~~~~~kdG~~~~v~~~ 820 (1093)
.+++.+|.+|.++++|+++.+++|++.++++| .........++.+...+|..+|+...
T Consensus 3 ~~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (103)
T cd00130 3 DGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIWVLVS 82 (103)
T ss_pred ceEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEEEEEEE
Confidence 37999999999999999999999999988887 11123345566778888999999999
Q ss_pred EeEeecCCCcEEEEEEEEeec
Q 001353 821 ASRRTDAEGKVIGCFCFMQIL 841 (1093)
Q Consensus 821 ~~~i~d~~G~v~g~i~~~~DI 841 (1093)
..+..+.+|...++++++.||
T Consensus 83 ~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 83 LTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEecCCCCEEEEEEEEecC
Confidence 999999999999999998885
No 131
>PF12860 PAS_7: PAS fold
Probab=97.48 E-value=0.00018 Score=68.98 Aligned_cols=83 Identities=16% Similarity=0.215 Sum_probs=58.2
Q ss_pred HhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchh-cc---------------ccCC--------------Cccceee
Q 001353 756 QSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEV-IG---------------ITGQ--------------GTENFPF 805 (1093)
Q Consensus 756 ~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEl-iG---------------~~~~--------------~~~~~e~ 805 (1093)
++++. ||+++|.+|++++||+++.+++|++.+.+ .| .... ......+
T Consensus 2 d~l~~---Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (115)
T PF12860_consen 2 DSLPQ---GVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASFRDLLRRLAERGEFPPGDPEAWVRQRLARLRRRQPRSF 78 (115)
T ss_pred CCcCc---eEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhcCCCcee
Confidence 34454 99999999999999999999999999887 55 1101 1112234
Q ss_pred EEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHH
Q 001353 806 GFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 806 ~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e 848 (1093)
.+...||+++.+. ..|. ++| |++.++.|||+++++|
T Consensus 79 ~~~~~dgr~l~~~--~~~~--~~G---g~v~~~~DVT~~~~~E 114 (115)
T PF12860_consen 79 ELRLPDGRWLEVR--AQPL--PDG---GFVLTFTDVTERRRAE 114 (115)
T ss_pred EEECCCCEEEEEE--eEEC--CCC---CEEEEEEeCCHHHHhc
Confidence 4556777665554 4444 334 5778999999988765
No 132
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=97.45 E-value=0.00041 Score=65.47 Aligned_cols=85 Identities=19% Similarity=0.223 Sum_probs=56.9
Q ss_pred HHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc---------------------ccCCCccceeeEEEc
Q 001353 751 YEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG---------------------ITGQGTENFPFGFFN 809 (1093)
Q Consensus 751 lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG---------------------~~~~~~~~~e~~~~~ 809 (1093)
++.++++++. ++.++|.++++.++|+++.++|+....+ +| ...+.....+... .
T Consensus 1 L~~il~s~~~---~i~~vD~~~~I~~~n~~a~~~f~~~~~~-iGr~l~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~-~ 75 (106)
T PF13596_consen 1 LNNILDSMPI---GIIFVDRNLRIRYFNPAAARLFNLSPSD-IGRPLFDIHPPLSYPNLKKIIEQVRSGKEEEFEIVI-P 75 (106)
T ss_dssp HHHHHHHSSS---EEEEEETTSBEEEE-SCGC-SS---GGG-TTSBCCCSS-HHHHHHHHHHHHHHHTTSBSEEEEEE-E
T ss_pred ChHHHhcCCC---CEEEEcCCCeEEEeChhHhhhcCCChHH-CCCCHHHcCCccchHHHHHHHHHHHcCCCceEEEEe-c
Confidence 4578888887 8999999999999999999999976544 46 1112222222222 2
Q ss_pred cCCcEEEEEEEEeEeecCCCcEEEEEEEEeecc
Q 001353 810 RQGQFVEVALTASRRTDAEGKVIGCFCFMQILV 842 (1093)
Q Consensus 810 kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DIT 842 (1093)
.+| +|+.++..|+++.+|+..|++.++.|||
T Consensus 76 ~~~--~~~~~~~~P~~~~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 76 NGG--RWYLVRYRPYRDEDGEYAGAVITFQDIT 106 (106)
T ss_dssp ETT--EEEEEEEEEEE-TTS-EEEEEEEEEE-G
T ss_pred CCC--EEEEEEEEEEECCCCCEEEEEEEEEecC
Confidence 344 5666788999999999999999999997
No 133
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=97.42 E-value=0.00016 Score=61.37 Aligned_cols=43 Identities=23% Similarity=0.256 Sum_probs=36.5
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCcc
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLI 664 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~ 664 (1093)
++|+.+++++|+||+++| +++|+++|++++++|||+ ..|+.+.
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 5566654
No 134
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=97.36 E-value=0.0019 Score=74.57 Aligned_cols=91 Identities=16% Similarity=0.042 Sum_probs=68.7
Q ss_pred HHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcccc--------------------CCCccceeeEEE
Q 001353 749 GDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIGIT--------------------GQGTENFPFGFF 808 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG~~--------------------~~~~~~~e~~~~ 808 (1093)
..++.+++++++ |++++|.+|+|+++|+++++++||+.++++|.. ............
T Consensus 7 ~~~~~il~~~~~---gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (348)
T PRK11073 7 PDAGQILNSLIN---SILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSLNIELMRESLQAGQGFTDNEVTL 83 (348)
T ss_pred chHHHHHhcCcC---eEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcchhhHHHHHHHHHcCCcccccceEE
Confidence 456889999998 899999999999999999999999999998810 011111122334
Q ss_pred ccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHH
Q 001353 809 NRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQP 847 (1093)
Q Consensus 809 ~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~ 847 (1093)
.++|+.+|+.++..|+. + .+++..++|+|++++.
T Consensus 84 ~~~g~~~~~~~~~~~~~--~---~~~~~~~~dit~~~~~ 117 (348)
T PRK11073 84 VIDGRSHILSLTAQRLP--E---GMILLEMAPMDNQRRL 117 (348)
T ss_pred EECCceEEEEEEEEEcc--C---ceeEEEEechhHHHHH
Confidence 56999999999999987 2 2456778999875543
No 135
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=97.34 E-value=0.054 Score=68.64 Aligned_cols=200 Identities=11% Similarity=0.026 Sum_probs=114.8
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHH-HHHhHh
Q 001353 217 VSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQA-ARFLFK 295 (1093)
Q Consensus 217 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~-~r~l~~ 295 (1093)
.++-..+.+ ..+++++++.+-..++++.-+|||-|.-+|+.. +.+.- .....+..- ++. ....+.
T Consensus 12 ~~is~~~~~--~~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~-~~~~~----------~~~~~~~~~-~~~~~~~~~~ 77 (686)
T PRK15429 12 FDITRTLLQ--QPDLASLCEALSQLVKRSALADNAAIVLWQAQT-QRASY----------YASREKGTP-VKYEDETVLA 77 (686)
T ss_pred HHHHHHHHc--CCCHHHHHHHHHHHHHhhcccceEEEEEEcCCC-Ceeee----------eeccccccc-hhccchhhhc
Confidence 344444555 459999999999999999999999999999976 55532 111111100 000 011122
Q ss_pred cCCeEEEecCCCCCcccccccccCCCccccCccccCCChhHH--HHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCC
Q 001353 296 QNRVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHL--QYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTS 373 (1093)
Q Consensus 296 ~~~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~--~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~ 373 (1093)
.+.+..+ -.+++|+-+++..++-..|--. .+...| ++.+.|||.+.| +.+|-|.--.+.
T Consensus 78 ~g~~g~v-------------l~~~~~l~~~~~~~~~~~~~l~~~~~~~~~--~~~lgvPl~~~~----~v~G~l~l~~~~ 138 (686)
T PRK15429 78 HGPVRRI-------------LSRPDTLHCSYEEFCETWPQLAAGGLYPKF--GHYCLMPLAAEG----HIFGGCEFIRYD 138 (686)
T ss_pred cCcceEE-------------eecCceEEEchHHhhhccHHHhhcccccCc--cceEEeceeeCC----eeEEEEEEEEcC
Confidence 2222211 1234444444333333222111 122344 558889999998 999999988888
Q ss_pred CCCCCchHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHH----HHHHHHHHHh----hccCCCcccccC-CcchhhhccC
Q 001353 374 PRYIPFPLRYACEFLVQAFSLQLYMELQV-AMQLAEKNI----LRTQVLLCDM----LLRDAPFSIVTQ-SPSIMDLVKC 443 (1093)
Q Consensus 374 p~~~~~~~r~~~~~l~~~~~~~l~~~~~~-~~~~~~~~~----~~~~~~~~~~----~~~~~~~~~~~~-~~~~~~l~~a 443 (1093)
+..++.++..++..++++.+..++..... ..+.++..+ .. +..+.++ ++..++..+... ...+..+++|
T Consensus 139 ~~~Ft~~d~~ll~~la~~a~~aie~~~~~e~~~~~~~~L~~~r~~-~~~L~eIs~~l~s~~dl~ell~~I~~~i~~~~~a 217 (686)
T PRK15429 139 DRPWSEKEFNRLQTFTQIVSVVTEQIQSRVVNNVDYELLCRERDN-FRILVAITNAVLSRLDMDELVSEVAKEIHYYFDI 217 (686)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH-HHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhCC
Confidence 99999999999999999999998643211 111111111 11 1122222 122222222222 3467788999
Q ss_pred CEEEEEE
Q 001353 444 DGAALYY 450 (1093)
Q Consensus 444 ~g~al~~ 450 (1093)
|.+.|+.
T Consensus 218 ~~~~I~L 224 (686)
T PRK15429 218 DAISIVL 224 (686)
T ss_pred CEEEEEE
Confidence 9988864
No 136
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.16 E-value=0.0024 Score=70.18 Aligned_cols=109 Identities=12% Similarity=0.139 Sum_probs=85.4
Q ss_pred EecchhH-HHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc------ccCCCccce-
Q 001353 732 QDITHEK-VLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG------ITGQGTENF- 803 (1093)
Q Consensus 732 ~DITerK-~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG------~~~~~~~~~- 803 (1093)
.|.|++. .+++.+..-+.++..++..+.+ |++..|..|+|+.+|..+.+++|.+.++++| ....+.+.+
T Consensus 93 n~Lt~~~~~aq~n~e~Er~kL~SvlayMtD---GViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~~~ 169 (459)
T COG5002 93 NDLTKRVQEAQANTEQERRKLDSVLAYMTD---GVIATDRRGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTFE 169 (459)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHHHHcC---ceEeecCCCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccceeHH
Confidence 4555543 3445555566778999999988 8999999999999999999999999999999 222222222
Q ss_pred ---------eeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccC
Q 001353 804 ---------PFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPD 844 (1093)
Q Consensus 804 ---------e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~ 844 (1093)
-....+ .++.....+..+.+..+.|-+.|++.++.|+||+
T Consensus 170 dL~e~~~s~lld~~~-~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEq 218 (459)
T COG5002 170 DLVEKNDSLLLDSSD-EEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQ 218 (459)
T ss_pred HHHhcCCcEEEeecC-CCccEEEEEEEEEEeecccccceeEEEEecccHH
Confidence 112222 7888899999999999999999999999999983
No 137
>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=97.11 E-value=0.0016 Score=54.10 Aligned_cols=59 Identities=34% Similarity=0.494 Sum_probs=48.9
Q ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHhcc-ccc
Q 001353 862 KIKELAYIRQEVKNPLNGIRFVHKLLESSS-ISENQRQYLETSDACERQIMTIIDGM-DLR 920 (1093)
Q Consensus 862 k~~~la~isHELrnPLt~I~g~~~LL~~~~-l~~~~~~~l~~i~~~~~rl~~lI~dL-dls 920 (1093)
+.++.+.++||+||||+++.++++.+.... ..+....++..+..+..++..+++++ +++
T Consensus 4 ~~~~~~~~~hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 64 (65)
T cd00082 4 KGEFLANVSHELRTPLTAIRGALELLEEELLDDEEQREYLERIREEAERLLRLINDLLDLS 64 (65)
T ss_pred HHHHHHHHhHHhcchHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 557889999999999999999999887643 35667788999999999999999984 544
No 138
>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=97.09 E-value=0.00025 Score=70.50 Aligned_cols=89 Identities=15% Similarity=0.259 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHcCCCCCCeEEEEEEeCC-ccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC---------CCC
Q 001353 979 QLVLSDFLHCVVRHAPSPDGWVEIKVLPGL-KLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ---------WTT 1048 (1093)
Q Consensus 979 ~qVl~nLl~NAik~t~~~~g~I~I~v~~~~-~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~---------~~~ 1048 (1093)
..+|.+||.||+.+.. ..|.|.+.... + ...|.|.|||.||+++.+...|...++ ..+
T Consensus 4 ~~al~ElI~Ns~DA~a---~~I~I~i~~~~~~---------~~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~~~~~~~~G 71 (137)
T PF13589_consen 4 EDALRELIDNSIDAGA---TNIKISIDEDKKG---------ERYIVIEDNGEGMSREDLESFFRIGRSSKKSEKDRQSIG 71 (137)
T ss_dssp THHHHHHHHHHHHHHH---HHEEEEEEEETTT---------TTEEEEEESSS---HHHHHHHTTCHHTHHHHHHHGGGGG
T ss_pred HHHHHHHHHHHHHccC---CEEEEEEEcCCCC---------CcEEEEEECCcCCCHHHHHHhccccCCCCCchhhhhcCC
Confidence 4789999999999765 36777776653 2 246888999999999999998876544 122
Q ss_pred Cccch--HHHHHHHHHHcCCEEEEEeeCCe--eEEEEEEe
Q 001353 1049 PEGLG--LKLSRKLLIMMNGRVRYVRENSK--CYFVIDLE 1084 (1093)
Q Consensus 1049 GtGLG--L~ivr~ive~hgG~I~v~S~~gg--t~F~v~LP 1084 (1093)
.-|+| +++. .++.++.|.|...+ .++++..+
T Consensus 72 ~~G~G~k~A~~-----~~~~~~~v~S~~~~~~~~~~~~~~ 106 (137)
T PF13589_consen 72 RFGIGLKLAIF-----SLGDRVEVISKTNGESFTYTIDYD 106 (137)
T ss_dssp GGTSGCGGGGG-----GTEEEEEEEEESTTSSSEEEEEEE
T ss_pred CcceEHHHHHH-----HhcCEEEEEEEECCCCcEEEEEEe
Confidence 46777 4443 46889999988754 55666555
No 139
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.09 E-value=0.0078 Score=81.54 Aligned_cols=139 Identities=10% Similarity=-0.062 Sum_probs=79.5
Q ss_pred hhhHHHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHc-
Q 001353 607 MQGVDELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALL- 685 (1093)
Q Consensus 607 ~q~~~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~- 685 (1093)
++.+.+|+...+.++.+++++|++|+++|.+|+|+++|++++++||+......+.+.. . ..+...+.+.........
T Consensus 565 ~~~~~~l~~~~~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~ 642 (1197)
T PRK09959 565 KVIQGDLENQISFRKALSDSLPNPTYVVNWQGNVISHNSAFEHYFTADYYKNAMLPLE-N-SDSPFKDVFSNAHEVTAET 642 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHhhCCCcEEEEcCCCcEEEehHHHHHHhCcccccccccccc-c-ccCchhhhHhHHHHHHHHH
Confidence 3455678888888999999999999999999999999999999999875443333322 1 111111111111111111
Q ss_pred CCCCceEEEEEEEeeeccCCcEEEEE-EEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHH
Q 001353 686 GEEDKNVELKLRKFELQKQHSVVYIL-VNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDY 751 (1093)
Q Consensus 686 g~~~~~~e~~l~~~~~~kdG~~~~v~-v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~l 751 (1093)
............ ..+|...++. ....+.....+...+++..++|||++++.+++++....+.
T Consensus 643 ~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~~~~~ 705 (1197)
T PRK09959 643 KENRTIYTQVFE----IDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNKA 705 (1197)
T ss_pred hhccccceeeEe----eecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHHHHHH
Confidence 111111111111 1233322222 1122222234445677888899999999988876655443
No 140
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=96.95 E-value=0.011 Score=74.43 Aligned_cols=114 Identities=16% Similarity=0.238 Sum_probs=78.8
Q ss_pred HHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCC-c
Q 001353 612 ELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEED-K 690 (1093)
Q Consensus 612 eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~-~ 690 (1093)
++......+..+++++++||+++|.+|+|+++|++++++||++.++++|+++. ++++.. . .+..++..+.. .
T Consensus 197 ~~~~~~~~~~~il~~~~~gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~-~l~~~~--~----~l~~vl~~~~~~~ 269 (638)
T PRK11388 197 ESNRHLNQLNALLESMDDGVIAWDEQGNLQFLNAQAARLLRLDATASQGRAIT-ELLTLP--A----VLQQAIKQAHPLK 269 (638)
T ss_pred HHHHHHHHHHHHHhccCCcEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHH-HHhccc--h----HHHHHHhcCCcee
Confidence 33444456677999999999999999999999999999999999999999988 665421 1 12233333332 1
Q ss_pred eEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHH
Q 001353 691 NVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKV 739 (1093)
Q Consensus 691 ~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~ 739 (1093)
..+..+ ..+|..+++.+...|+.+..| .+++.+.+|++..++
T Consensus 270 ~~~~~l-----~~~g~~~~~~v~~~Pi~~~~g--~~~v~~l~~~~~~~~ 311 (638)
T PRK11388 270 HVEVTF-----ESQGQFIDAVITLKPIIEGQG--TSFILLLHPVEQMRQ 311 (638)
T ss_pred eEEEEE-----ecCCceEEEEEEEEeecccCc--eEEEEEehhhHHHHH
Confidence 122222 234666788899999865444 346666788887554
No 141
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=96.93 E-value=0.0036 Score=77.66 Aligned_cols=80 Identities=14% Similarity=0.170 Sum_probs=59.0
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-CC--------
Q 001353 977 RLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-WT-------- 1047 (1093)
Q Consensus 977 ~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-~~-------- 1047 (1093)
++..|+.+|+.||+++. + ..|.|.+... + ...++|.|||.|||++.+..+|.++++ +.
T Consensus 22 ~~~svvkElveNsiDAg-a--t~I~v~i~~~-g---------~~~i~V~DnG~Gi~~~~~~~~~~~~~tsKi~~~~dl~~ 88 (617)
T PRK00095 22 RPASVVKELVENALDAG-A--TRIDIEIEEG-G---------LKLIRVRDNGCGISKEDLALALARHATSKIASLDDLEA 88 (617)
T ss_pred CHHHHHHHHHHHHHhCC-C--CEEEEEEEeC-C---------eEEEEEEEcCCCCCHHHHHHHhhccCCCCCCChhHhhc
Confidence 46699999999999966 3 6888887432 3 578999999999999999999999766 11
Q ss_pred ----CCccchHHHHHHHHHHcCCEEEEEeeC
Q 001353 1048 ----TPEGLGLKLSRKLLIMMNGRVRYVREN 1074 (1093)
Q Consensus 1048 ----~GtGLGL~ivr~ive~hgG~I~v~S~~ 1074 (1093)
+=.|.||+.+-.+ +.+.+.|..
T Consensus 89 ~~t~GfrGeAL~sI~~v-----s~l~i~s~~ 114 (617)
T PRK00095 89 IRTLGFRGEALPSIASV-----SRLTLTSRT 114 (617)
T ss_pred cccCCcchhHHHhhhhc-----eEEEEEEec
Confidence 1256777766543 345555543
No 142
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=96.90 E-value=0.0033 Score=76.66 Aligned_cols=95 Identities=13% Similarity=0.130 Sum_probs=69.3
Q ss_pred HHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc------c---------cCCCccceeeEEE
Q 001353 744 FIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG------I---------TGQGTENFPFGFF 808 (1093)
Q Consensus 744 L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG------~---------~~~~~~~~e~~~~ 808 (1093)
+.+.+..++++++++++ ||+.+|.+|+|+++|+++++++|++.++++| . ....... .....
T Consensus 75 ~e~e~~~L~aIL~sm~e---GVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~l~~~le~~~~~~-~~~~v 150 (520)
T PRK10820 75 SEREHRALSALLEALPE---PVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAAQLINGFNFLRWLESEPQDS-HNEHV 150 (520)
T ss_pred HHHHHHHHHHHHHhCCC---cEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcchHHHHHHcCCCcc-ceEEE
Confidence 34455668999999999 9999999999999999999999999999988 1 1111101 11223
Q ss_pred ccCCcEEEEEEEEeEee--cCCCcE--EEEEEEEeecccC
Q 001353 809 NRQGQFVEVALTASRRT--DAEGKV--IGCFCFMQILVPD 844 (1093)
Q Consensus 809 ~kdG~~~~v~~~~~~i~--d~~G~v--~g~i~~~~DITe~ 844 (1093)
..+|+.++ +...|+. +.+|.. .|++.+++|+++.
T Consensus 151 ~~~g~~~~--v~~~PI~~~d~~g~~~~~GaVivlrd~~~l 188 (520)
T PRK10820 151 VINGQDFL--MEITPVYLQDENDQHVLVGAVVMLRSTARM 188 (520)
T ss_pred EECCEEEE--EEEEeeeecCCCCceeEEEEEEEeccHHHH
Confidence 44576555 4556665 667664 8999999999874
No 143
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=96.86 E-value=0.0026 Score=71.23 Aligned_cols=115 Identities=19% Similarity=0.148 Sum_probs=94.7
Q ss_pred HHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEE
Q 001353 618 CEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLR 697 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~ 697 (1093)
+++.+++++.|.-+-.+|.++++.+.|+. .++|-.++.. +|+++. ...+|.+...+...+.....|.....--| +
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 56789999999999999999999999998 8888877655 699998 88888899988888888877765533222 2
Q ss_pred EeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHH
Q 001353 698 KFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDK 743 (1093)
Q Consensus 698 ~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~ 743 (1093)
+.....+-++..+++|.+|+..|++-+.||||.-|..+-+
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 2344567788889999999999999999999998877644
No 144
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=96.83 E-value=0.0057 Score=67.71 Aligned_cols=187 Identities=20% Similarity=0.237 Sum_probs=120.2
Q ss_pred HHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHc---CCCCceEEEE--
Q 001353 621 VRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALL---GEEDKNVELK-- 695 (1093)
Q Consensus 621 ~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~---g~~~~~~e~~-- 695 (1093)
..+++...--||+++++|.|.|++..+.-.+|++.-|+.|.++. +.+|+.|.+.+...+...-. -+-++.+-++
T Consensus 82 shlLqtLDGF~fvva~dGkimYISETaSvhLGLSQVElTGNsi~-eYIH~~D~demna~L~~h~H~qeyeIErsfflrmk 160 (598)
T KOG3559|consen 82 SHLLQTLDGFIFVVAPDGKIMYISETASVHLGLSQVELTGNSIY-EYIHPQDHDEMNAVLTAHQHLQEYEIERSFFLRMK 160 (598)
T ss_pred HhHHHhhcceEEEEeCCCCEEEEecceeeeecceeeEeecchhh-hhhcccchHHHHHHHhhhhhhhhhhhhhhhhhhhh
Confidence 34677777788999999999999999999999999999999999 99999988877766533221 1111111111
Q ss_pred ----EEEeeeccCCcE-E----EEEEEEEEeecCCC----CEEEEEEEEEe-----cchhHHHHHHHHHHHHHHHHHHHh
Q 001353 696 ----LRKFELQKQHSV-V----YILVNACTSRDYKN----NVKGVCFVGQD-----ITHEKVLMDKFIRLQGDYEAIIQS 757 (1093)
Q Consensus 696 ----l~~~~~~kdG~~-~----~v~v~~~pi~d~~g----~v~gv~~v~~D-----ITerK~aEe~L~~se~~lr~i~~~ 757 (1093)
.+..+....|.. + ++.+...++.-... ..+|+++++.- ||+.|--.
T Consensus 161 Cvlakrnaglt~sg~kvihcSgylKir~y~~~m~p~dscyqn~glvAvG~slP~saiteikl~s---------------- 224 (598)
T KOG3559|consen 161 CVLAKRNAGLTCSGYKVIHCSGYLKIRQYELDMSPNDSCYQNVGLVAVGHSLPPSAITEIKLHS---------------- 224 (598)
T ss_pred hhheeccccccccCcceEeecCcceEEEEeeccCCccchhheeeeEEecCCCCcccceEEEecc----------------
Confidence 111111111211 1 12233333322222 34677776443 33333111
Q ss_pred cCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------ccCCCccceeeEEEccCCcEE
Q 001353 758 VNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------ITGQGTENFPFGFFNRQGQFV 815 (1093)
Q Consensus 758 ~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~~~~~~~~~e~~~~~kdG~~~ 815 (1093)
+. -+|....|.++++......+++||++.++++ ...+....--+++..+.|.|+
T Consensus 225 -Nm---FmfraslDlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwv 300 (598)
T KOG3559|consen 225 -NM---FMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWV 300 (598)
T ss_pred -ce---EEEEeecceEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceE
Confidence 11 3677788999999999999999999999999 122222333457889999999
Q ss_pred EEEEEEeEeecCC
Q 001353 816 EVALTASRRTDAE 828 (1093)
Q Consensus 816 ~v~~~~~~i~d~~ 828 (1093)
|+.-...-+.+.-
T Consensus 301 wvqsyat~vHnSr 313 (598)
T KOG3559|consen 301 WVQSYATFVHNSR 313 (598)
T ss_pred EEEEeeEEEeccc
Confidence 9988777766543
No 145
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=96.69 E-value=0.0045 Score=71.55 Aligned_cols=114 Identities=23% Similarity=0.204 Sum_probs=81.4
Q ss_pred HHHHHHHhcC--ccEEEEC----CCCcEEEecHHHHHhcCCCccccCCCCccccccccc-----cHHHHHHHHHHHHcCC
Q 001353 619 EMVRLIETAT--APIFGVD----SSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEE-----SQGAVENLICRALLGE 687 (1093)
Q Consensus 619 ~l~~lie~~~--~~I~~~D----~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~-----~~~~~~~~l~~~l~g~ 687 (1093)
.++.++..+. +.-|++. .|.-|+|+|+.|+.+-||.+.|++.++..-.+.+.+ ..+.+++.++. -
T Consensus 15 FLENiiRRsn~~dtsFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN----~ 90 (971)
T KOG0501|consen 15 FLENIIRRSNNADTSFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLEN----Y 90 (971)
T ss_pred HHHHHHhhccCCCcceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHh----h
Confidence 3444554443 5555543 257799999999999999999999998664555543 23333333333 3
Q ss_pred CCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHH
Q 001353 688 EDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVL 740 (1093)
Q Consensus 688 ~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~a 740 (1093)
+...+|+-+ .+|+..++|+.+...|++++.+.++-++..+.|||..|+-
T Consensus 91 ~~~qfEill----yKKN~TPvW~~vqiAPIrNe~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 91 ETNQFEILL----YKKNRTPVWLLVQIAPIRNEKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred hhcceeeEe----eecCCCceEEEEEeecccCCCceEEEEEeecccchhhcCC
Confidence 333334433 3578899999999999999999999999999999998864
No 146
>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=96.62 E-value=0.0052 Score=48.36 Aligned_cols=64 Identities=31% Similarity=0.467 Sum_probs=54.1
Q ss_pred HHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHH
Q 001353 619 EMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRA 683 (1093)
Q Consensus 619 ~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~ 683 (1093)
+++.+++.++++++.+|.++.+.++|+.+..++|+...++.|+.+. .++++.+...+...+..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 65 (67)
T smart00091 2 RLRAILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLL-ELIHPEDREEVQEALQRL 65 (67)
T ss_pred hHHHHHhhCCceEEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcHH-HhcCcccHHHHHHHHHHH
Confidence 3567899999999999999999999999999999999999998887 777777776666655443
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=96.36 E-value=0.019 Score=54.75 Aligned_cols=74 Identities=16% Similarity=0.245 Sum_probs=58.4
Q ss_pred HHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHc-CCCCceEEEEE
Q 001353 623 LIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALL-GEEDKNVELKL 696 (1093)
Q Consensus 623 lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~-g~~~~~~e~~l 696 (1093)
-++..|-|++-+|.+|+|+..|.+-..+.|++++.++|++++.++-|-.....+...+....+ |.-...+.+.+
T Consensus 21 elD~lpFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~Ld~~f~yvf 95 (124)
T TIGR02373 21 QFDALPFGAIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGTLNAMFDYVF 95 (124)
T ss_pred HhhcCCcceEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCCCceEEEEEE
Confidence 388999999999999999999999999999999999999999677666677767766666443 33333334333
No 148
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=96.31 E-value=0.0038 Score=52.88 Aligned_cols=36 Identities=19% Similarity=0.279 Sum_probs=31.9
Q ss_pred HHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCC
Q 001353 749 GDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWM 788 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~ 788 (1093)
++|+.++++++. ||+++| +++|+++|+++++++||+
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 478999999998 999999 889999999999999998
No 149
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=96.15 E-value=0.015 Score=66.97 Aligned_cols=207 Identities=15% Similarity=0.150 Sum_probs=132.0
Q ss_pred HHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCC------CCc----
Q 001353 621 VRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGE------EDK---- 690 (1093)
Q Consensus 621 ~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~------~~~---- 690 (1093)
+-++++..--++++..+|.|.|++...+..+|+...+++-++++ +++|.+|++.+++.+.-++.-. ...
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 45788888889999999999999999999999999999999999 9999999999998876654311 100
Q ss_pred -eEEEEEEEe--eeccCCc---EEEEEEEEEEeecCCCCEEEEEEEEEecchhHHH--------HHH------H------
Q 001353 691 -NVELKLRKF--ELQKQHS---VVYILVNACTSRDYKNNVKGVCFVGQDITHEKVL--------MDK------F------ 744 (1093)
Q Consensus 691 -~~e~~l~~~--~~~kdG~---~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~a--------Ee~------L------ 744 (1093)
....+.... +...+.. .+.+.++...+.|. ..|++. -|+-.+-+. ... |
T Consensus 193 ~~~~~~~~~~~d~~ppens~yleRcficR~RCLLDn---TsGFLa--mdfqGklk~LhGqkkk~~~g~~lpP~LaLf~ia 267 (712)
T KOG3560|consen 193 DDAILRAQEWGDGTPPENSAYLERCFICRFRCLLDN---TSGFLA--MDFQGKLKFLHGQKKKAPSGAMLPPRLALFCIA 267 (712)
T ss_pred cccceeeeccCccCCcccchHHhhhheeeEEEeecC---Ccceee--eecccceeeecCCcccCCCCccCCCceeEEEEe
Confidence 000010000 0011111 34455666666654 334444 354432111 000 0
Q ss_pred ------HHHHHHHH-HHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc----------------------c
Q 001353 745 ------IRLQGDYE-AIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG----------------------I 795 (1093)
Q Consensus 745 ------~~se~~lr-~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG----------------------~ 795 (1093)
..+|-+.+ .|+.+-. -.|+..+.+......++||...|+.+ +
T Consensus 268 tP~~pPS~lEi~~k~~i~rtKh---------klDfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~i 338 (712)
T KOG3560|consen 268 TPFLPPSALEIKMKSAILRTKH---------KLDFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGI 338 (712)
T ss_pred cCCCCchhhhhhhhhhhhhccc---------ccccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHh
Confidence 00000000 1111111 12566677788888899999999886 5
Q ss_pred cCCCccceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeeccc
Q 001353 796 TGQGTENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVP 843 (1093)
Q Consensus 796 ~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe 843 (1093)
..++..-+.++...|+|+|.|+.-++.-++ .+|++-.+++.-+-.++
T Consensus 339 ktgeSGmlvyR~qtk~grw~wvqssarlly-kngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 339 KTGESGMLVYREQTKAGRWAWVQSSARLLY-KNGKPDLVIDTHRGLGD 385 (712)
T ss_pred hcCCcceEEEEEeecCCcEEEeeccceeee-ecCCCCEEEecCCCccc
Confidence 667777888999999999999998776544 67777767776665555
No 150
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=96.06 E-value=0.0063 Score=70.37 Aligned_cols=76 Identities=17% Similarity=0.228 Sum_probs=67.5
Q ss_pred CCcEeechhhhHHHhCCCcchhcc------------------------ccCCCccceeeEEEccCCcEEEEEEEEeEeec
Q 001353 771 NACCSEWNAAMEKVTGWMRHEVIG------------------------ITGQGTENFPFGFFNRQGQFVEVALTASRRTD 826 (1093)
Q Consensus 771 ~g~i~~~N~a~~~l~G~~~eEliG------------------------~~~~~~~~~e~~~~~kdG~~~~v~~~~~~i~d 826 (1093)
|.-|+|+|..|+++.||.+.|++. ....+...+|.-+..|+...+|+.+.+.|+++
T Consensus 39 D~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~~~qfEillyKKN~TPvW~~vqiAPIrN 118 (971)
T KOG0501|consen 39 DWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYETNQFEILLYKKNRTPVWLLVQIAPIRN 118 (971)
T ss_pred ccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhhhcceeeEeeecCCCceEEEEEeecccC
Confidence 556999999999999999999988 33445567888899999999999999999999
Q ss_pred CCCcEEEEEEEEeecccCcH
Q 001353 827 AEGKVIGCFCFMQILVPDLQ 846 (1093)
Q Consensus 827 ~~G~v~g~i~~~~DITe~k~ 846 (1093)
+...++-++|.+.|||.-||
T Consensus 119 e~d~VVLfLctFkDIT~~KQ 138 (971)
T KOG0501|consen 119 EKDKVVLFLCTFKDITALKQ 138 (971)
T ss_pred CCceEEEEEeecccchhhcC
Confidence 99999999999999998665
No 151
>COG5385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=96.03 E-value=0.47 Score=47.07 Aligned_cols=189 Identities=12% Similarity=0.133 Sum_probs=114.8
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHH
Q 001353 865 ELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVV 944 (1093)
Q Consensus 865 ~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~ 944 (1093)
+.+.++|++-.|..+|..-++||++...+++.... |..++...+.. |.|.|+..|-.--.-..+|-.+.=....
T Consensus 18 LcsRvCHDiISPvgAInnGLeLLdeg~addDAm~L---IrsSArnas~r---LqFaR~AFGAsgSag~~iDtgeaek~A~ 91 (214)
T COG5385 18 LCSRVCHDIISPVGAINNGLELLDEGGADDDAMDL---IRSSARNASVR---LQFARLAFGASGSAGASIDTGEAEKAAQ 91 (214)
T ss_pred HHHHHHhhccCcHHHhhchhhhhccCCccHHHHHH---HHHHhhhHHHH---HHHHHHHhcccccccccccchhHHHHHH
Confidence 45678999999999999999999998777655444 44444444333 4577765543332224566555544444
Q ss_pred HHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEE
Q 001353 945 SQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRL 1024 (1093)
Q Consensus 945 ~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V 1024 (1093)
..+.. ++ -++....+.. .+.-+.. ..+.||+.-|--.-|. ||.+.+++..... .-.|+|
T Consensus 92 ~~~a~---ek-pe~~W~g~r~----~~~Kn~v---kllLNl~lia~~aiPr-GG~~~vtle~~e~---------d~rfsi 150 (214)
T COG5385 92 DFFAN---EK-PELTWNGPRA----ILPKNRV---KLLLNLFLIAYGAIPR-GGSLVVTLENPET---------DARFSI 150 (214)
T ss_pred HHHhc---cC-CcccccCChh----hcCcchH---HHHHHHHHHHcccCCC-CCeeEEEeecCCc---------CceEEE
Confidence 43332 22 3455554443 2333333 4568888888888888 8988888765443 334555
Q ss_pred ecCCC--CCChhhHhhhccCCCCCCCCccch-----HHHHHHHHHHcCCEEEEEeeCCeeEEEEEEe
Q 001353 1025 THPGE--GIPSHLIEDMYNGRNQWTTPEGLG-----LKLSRKLLIMMNGRVRYVRENSKCYFVIDLE 1084 (1093)
Q Consensus 1025 ~DnG~--GIp~e~~~~IFe~F~~~~~GtGLG-----L~ivr~ive~hgG~I~v~S~~ggt~F~v~LP 1084 (1093)
.-.|+ -+||+.++-+ ....-..++| =|..--+++.-|++|.|+...+...|+-.+|
T Consensus 151 ~akG~m~Rvppk~lel~----~G~~~eE~vdahsVQpyYt~lLa~eAgm~I~v~~~~e~iv~~A~v~ 213 (214)
T COG5385 151 IAKGRMMRVPPKFLELH----SGEPPEEAVDAHSVQPYYTLLLAEEAGMTISVHATAERIVFTAWVV 213 (214)
T ss_pred EecCccccCCHHHHhhh----cCCCccccCCCccccHHHHHHHHHHcCCeEEEEeccceEEEEEecc
Confidence 54454 3455544432 1111223444 3444457899999999999888877876654
No 152
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins.
Probab=95.99 E-value=0.079 Score=52.79 Aligned_cols=110 Identities=13% Similarity=0.018 Sum_probs=83.9
Q ss_pred HHHHHHHHhcCccEEEECC--CCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEE-E
Q 001353 618 CEMVRLIETATAPIFGVDS--SGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVE-L 694 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D~--dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e-~ 694 (1093)
..++.+++ +|++|+..|. |=.++|.|.++.++|+++.+++++.+.. .-..+..++.....+.++.+.|-...+. +
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 33455555 9999999875 4689999999999999999999999987 4556677777778888888766443322 2
Q ss_pred EEEEeeeccCCcEEEE-EEEEEEeecCCCCEEEEEEEEEec
Q 001353 695 KLRKFELQKQHSVVYI-LVNACTSRDYKNNVKGVCFVGQDI 734 (1093)
Q Consensus 695 ~l~~~~~~kdG~~~~v-~v~~~pi~d~~g~v~gv~~v~~DI 734 (1093)
+ ..+.|+.+++ ....-.+.|++|+..|..+++.+-
T Consensus 110 R-----iss~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~W 145 (148)
T PF08670_consen 110 R-----ISSTGRRFRIERATVWNLIDEDGNYCGQAAMFSNW 145 (148)
T ss_pred E-----EcCCCCeEEEeceEEEEEEcCCCCEEEEEEEEeee
Confidence 2 3457888777 456667889999999999988764
No 153
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=95.95 E-value=0.0076 Score=71.65 Aligned_cols=85 Identities=19% Similarity=0.162 Sum_probs=73.8
Q ss_pred EEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcEEEEE
Q 001353 632 FGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSVVYIL 711 (1093)
Q Consensus 632 ~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~~v~ 711 (1093)
.....|.+|.||.+++.+++||.+++++|++++ +++|..|.+.+......++..|....-.+++ ..|+|+..|+.
T Consensus 278 tRhs~DmkityCedRisdlm~y~PeeLvGrS~Y-e~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~----lak~GGyvWlQ 352 (768)
T KOG3558|consen 278 TRHSLDMKITYCEDRISDLMDYEPEELVGRSCY-EFVHALDSDRVRKSHHDLLTKGQVVTGYYRL----LAKNGGYVWLQ 352 (768)
T ss_pred EeeecceeEEEEchhHHHHhcCCHHHhhchhHH-HhhhHhhhhHHHHHHHHHHhcCccchhHHHH----HHhcCCeEEEE
Confidence 345789999999999999999999999999999 9999999999999999999887665555554 46899999999
Q ss_pred EEEEEeecCC
Q 001353 712 VNACTSRDYK 721 (1093)
Q Consensus 712 v~~~pi~d~~ 721 (1093)
..+..+.+..
T Consensus 353 TqATVi~~tk 362 (768)
T KOG3558|consen 353 TQATVIYNTK 362 (768)
T ss_pred eeeEEEecCC
Confidence 9999887643
No 154
>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=95.86 E-value=0.038 Score=52.73 Aligned_cols=79 Identities=14% Similarity=0.170 Sum_probs=62.2
Q ss_pred eEEecCCCcEeechhh-hHHHhCCCcchhcc-----------------------ccCCCccceeeEEEccCCcEEEEEEE
Q 001353 765 IFASDENACCSEWNAA-MEKVTGWMRHEVIG-----------------------ITGQGTENFPFGFFNRQGQFVEVALT 820 (1093)
Q Consensus 765 I~~~D~~g~i~~~N~a-~~~l~G~~~eEliG-----------------------~~~~~~~~~e~~~~~kdG~~~~v~~~ 820 (1093)
+...+.+|+|+++.+. ...++||.++|++| ...+......+++..++|.++|+...
T Consensus 5 ~trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~g~~vwvqt~ 84 (111)
T PF14598_consen 5 TTRHSLDGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKNGGYVWVQTK 84 (111)
T ss_dssp EEEEETTSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TTSSEEEEEEE
T ss_pred EEEECCCcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecCCcEEEEEEE
Confidence 3457889999999999 69999999999999 12333455578999999999999999
Q ss_pred EeEeec-CCCcEEEEEEEEeeccc
Q 001353 821 ASRRTD-AEGKVIGCFCFMQILVP 843 (1093)
Q Consensus 821 ~~~i~d-~~G~v~g~i~~~~DITe 843 (1093)
+....+ ..+++..++|+-.-+++
T Consensus 85 ~~~~~n~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 85 ATLFYNPWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp EEEEEETTTTCEEEEEEEEEEESC
T ss_pred EEEEECCCCCCccEEEEEEEEecc
Confidence 999987 45677777887777765
No 155
>PF10090 DUF2328: Uncharacterized protein conserved in bacteria (DUF2328); InterPro: IPR018762 Members of this family of hypothetical bacterial proteins have no known function.
Probab=95.79 E-value=0.55 Score=48.87 Aligned_cols=175 Identities=13% Similarity=0.138 Sum_probs=109.5
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHHHHhccCCeE
Q 001353 878 NGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVMVLLRDKNLH 957 (1093)
Q Consensus 878 t~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~~~~~~~~i~ 957 (1093)
.+|...+++|.+....+. +..++-|.+++.....-+. |.|+--|...- -..++..++-.-+-.. +....++
T Consensus 2 GAI~NGLELL~~~~~~~~-~~~~~LI~~Sa~~A~aRl~---F~RlAFGaag~-~~~i~~~e~~~~~~~~----~~~~r~~ 72 (182)
T PF10090_consen 2 GAINNGLELLDDEGDPEM-RPAMELIRESARNASARLR---FFRLAFGAAGS-GQQIDLGEARSVLRGY----FAGGRIT 72 (182)
T ss_pred cchhhhHHHHcCCCCccc-hHHHHHHHHHHHHHHHHHH---HHHHHcCCCCC-CCCCCHHHHHHHHHHH----HhCCceE
Confidence 467788899988654232 2267777666666555554 55655444332 3566766654433333 3344577
Q ss_pred EEeecCCC-ccceEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCC--CChh
Q 001353 958 LLHDIPEE-IKALSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEG--IPSH 1034 (1093)
Q Consensus 958 l~~~~~~~-lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~G--Ip~e 1034 (1093)
+....+.. +| ....+++.|++.-+....|. ||.|+|.+....+ ...++|.=+|.. +|++
T Consensus 73 l~W~~~~~~~~--------k~~vklllnl~l~a~~alpr-GG~i~V~~~~~~~---------~~~~~v~a~G~~~~~~~~ 134 (182)
T PF10090_consen 73 LDWQVERDLLP--------KPEVKLLLNLLLCAEDALPR-GGEITVSIEGSEG---------DGGWRVRAEGPRARLDPD 134 (182)
T ss_pred EEccCccccCC--------HHHHHHHHHHHHHHHhhcCC-CCEEEEEEeccCC---------CceEEEEEeccccCCCHH
Confidence 77777665 22 22348899999999999998 9999998766655 445555556654 4555
Q ss_pred hHhhhccCCC-CCCCCccchHHHHHHHHHHcCCEEEEEeeCCeeEE
Q 001353 1035 LIEDMYNGRN-QWTTPEGLGLKLSRKLLIMMNGRVRYVRENSKCYF 1079 (1093)
Q Consensus 1035 ~~~~IFe~F~-~~~~GtGLGL~ivr~ive~hgG~I~v~S~~ggt~F 1079 (1093)
...-+-..-. ........=-+....+++..|++|.++...+.-+|
T Consensus 135 ~~~~L~g~~~~~~l~~~~VQ~~~~~~la~~~G~~l~~~~~~~~i~l 180 (182)
T PF10090_consen 135 LWAALAGEDPEEDLDPRNVQFYLLPLLAREAGRRLSVEATEDAIVL 180 (182)
T ss_pred HHHHhcCCCCCCCCCHHhHHHHHHHHHHHHcCCeEEEEecCCEEEE
Confidence 5444322211 12334455567788899999999999986665443
No 156
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=95.74 E-value=0.015 Score=72.18 Aligned_cols=75 Identities=16% Similarity=0.311 Sum_probs=54.5
Q ss_pred cHHHHHHHHHHHHHHHHHcCCCC-CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhh--------hccCCC
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPSP-DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIED--------MYNGRN 1044 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~--------IFe~F~ 1044 (1093)
+...|..++.++|.||++...++ ...|.|.+...+ .++|.|||.|||.+..+. +|....
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 35678899999999999975541 247777765443 488999999999998887 776622
Q ss_pred C----------CCCC-ccchHHHHHHH
Q 001353 1045 Q----------WTTP-EGLGLKLSRKL 1060 (1093)
Q Consensus 1045 ~----------~~~G-tGLGL~ivr~i 1060 (1093)
. ...| .|.|++.+-.+
T Consensus 102 agsKf~~~~yk~SgGl~GvGls~vNal 128 (631)
T PRK05559 102 AGGKFSNKAYKFSGGLHGVGVSVVNAL 128 (631)
T ss_pred ccCccCCccccccCcccccchhhhhhh
Confidence 1 1223 79999988555
No 157
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=95.50 E-value=0.48 Score=60.18 Aligned_cols=151 Identities=16% Similarity=0.113 Sum_probs=90.1
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhc
Q 001353 217 VSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQ 296 (1093)
Q Consensus 217 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~ 296 (1093)
.+..++|.+ +.+.+++++.+++.+.++++++++.+|-.++++ +........ +++. .+...|. +.|- .+.+-..
T Consensus 308 l~~~~~L~~--~~~~~~l~~~~~~~l~~~l~~~~g~l~l~~~~~-~~~~~~~~~-~~~~-~~~~~~~-~~~~-~~~~~~~ 380 (679)
T TIGR02916 308 LRFTQTLSE--ARSSDDLGERVIRALAQLVESPGGVLWLKSGND-GLYRPAARW-NQPL-AQAFEPS-DSAF-CQFLQES 380 (679)
T ss_pred HHHHHHHhC--CCCCccHHHHHHHHHHHHhCCCCceEEEEcCCC-CEEeeehhc-CCCC-cccCCCC-CCHH-HHHHHhC
Confidence 456677777 568999999999999999999999999655443 444433321 1211 1112222 2221 1122233
Q ss_pred CCeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecC-CCC
Q 001353 297 NRVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHT-SPR 375 (1093)
Q Consensus 297 ~~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~-~p~ 375 (1093)
+++--+.+....|.. .. +.+..+..+..-++.+++||..+| ++.|.+++-+. .++
T Consensus 381 ~~v~~~~~~~~~~~~-------~~-------------~~~~~~~~~~~~~~~l~vPL~~~~----~~~G~l~l~~~~~~~ 436 (679)
T TIGR02916 381 GWIINLEEARSEPDH-------YS-------------GLVLPEWLREIPNAWLIVPLISGE----ELVGFVVLARPRTAG 436 (679)
T ss_pred CCcccchhhcCCccc-------cc-------------ccccchhhhcCCCceEEEEeccCC----EEEEEEEEecCCCCC
Confidence 333111111111110 00 001111222234578999999888 99999987666 477
Q ss_pred CCCchHHHHHHHHHHHHHHHHHH
Q 001353 376 YIPFPLRYACEFLVQAFSLQLYM 398 (1093)
Q Consensus 376 ~~~~~~r~~~~~l~~~~~~~l~~ 398 (1093)
.++.+++...+.++.+++..+..
T Consensus 437 ~~~~e~~~lL~~l~~q~a~~l~~ 459 (679)
T TIGR02916 437 EFNWEVRDLLKTAGRQAASYLAQ 459 (679)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHH
Confidence 88999999999999999988754
No 158
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=95.14 E-value=0.034 Score=68.86 Aligned_cols=75 Identities=13% Similarity=0.267 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHcCCC-CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhh--------Hhhhc-cCCCC
Q 001353 976 IRLQLVLSDFLHCVVRHAPS-PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHL--------IEDMY-NGRNQ 1045 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~--------~~~IF-e~F~~ 1045 (1093)
....+++.++|.||++-.-+ ....|.|.+... + .++|.|||.|||.+. .+-+| .+..+
T Consensus 29 ~~~~~lv~ElvdNsiDE~~ag~a~~I~V~i~~d-~-----------~I~V~DnGrGIp~~~h~~~g~~~~e~v~t~lhag 96 (625)
T TIGR01055 29 TRPNHLVQEVIDNSVDEALAGFASIIMVILHQD-Q-----------SIEVFDNGRGMPVDIHPKEGVSAVEVILTTLHAG 96 (625)
T ss_pred CCcceeehhhhhcccchhhcCCCCEEEEEEeCC-C-----------eEEEEecCCccCcccccccCCcHHHHhhhccccc
Confidence 34578999999999983222 136788887554 2 388899999999887 67677 33211
Q ss_pred ---------CCCC-ccchHHHHHHHHH
Q 001353 1046 ---------WTTP-EGLGLKLSRKLLI 1062 (1093)
Q Consensus 1046 ---------~~~G-tGLGL~ivr~ive 1062 (1093)
...| .|.||+.+-.+-+
T Consensus 97 sK~~~~~~~~SgG~~GvGls~vnalS~ 123 (625)
T TIGR01055 97 GKFSNKNYHFSGGLHGVGISVVNALSK 123 (625)
T ss_pred CCCCCCcceecCCCcchhHHHHHHhcC
Confidence 2223 7999999876655
No 159
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=95.07 E-value=0.075 Score=59.21 Aligned_cols=57 Identities=18% Similarity=0.276 Sum_probs=50.8
Q ss_pred HHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHH
Q 001353 617 ACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQG 674 (1093)
Q Consensus 617 ~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~ 674 (1093)
+.++.+++++.|++++.+|.+|.+..+|++++++||.+.+++.|++.. .++...+..
T Consensus 79 hl~L~aLL~al~~pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~~-~l~~~~nf~ 135 (511)
T COG3283 79 HLALSALLEALPEPVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTAA-QLINGFNFL 135 (511)
T ss_pred hHHHHHHHHhCCCceEEecccCceeecCHHHHHHhCCChhhhcCccHH-HhcCcCCHH
Confidence 355788999999999999999999999999999999999999999988 777765543
No 160
>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=94.86 E-value=0.19 Score=44.31 Aligned_cols=73 Identities=19% Similarity=0.185 Sum_probs=60.3
Q ss_pred HHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHH
Q 001353 869 IRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVM 948 (1093)
Q Consensus 869 isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~ 948 (1093)
+.|.+||.|+.|.+++.+......+++.++.+..+......|..+-+.|.-+ -....+++.+++++++..+.
T Consensus 2 ~~HRVkNnLq~i~sll~lq~~~~~~~e~~~~L~~~~~RI~aia~vh~~L~~~--------~~~~~v~l~~yl~~L~~~l~ 73 (76)
T PF07568_consen 2 LHHRVKNNLQIISSLLRLQARRSEDPEAREALEDAQNRIQAIALVHEQLYQS--------EDLSEVDLREYLEELCEDLR 73 (76)
T ss_pred hHHhHHhHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHhcC--------CCCCeecHHHHHHHHHHHHH
Confidence 6899999999999999999888888888999999988888888887766211 13467999999999998775
Q ss_pred H
Q 001353 949 V 949 (1093)
Q Consensus 949 ~ 949 (1093)
.
T Consensus 74 ~ 74 (76)
T PF07568_consen 74 Q 74 (76)
T ss_pred H
Confidence 4
No 161
>TIGR01059 gyrB DNA gyrase, B subunit. This model describes the common type II DNA topoisomerase (DNA gyrase). Two apparently independently arising families, one in the Proteobacteria and one in Gram-positive lineages, are both designated toposisomerase IV. Proteins scoring above the noise cutoff for this model and below the trusted cutoff for topoisomerase IV models probably should be designated GyrB.
Probab=94.63 E-value=0.082 Score=66.19 Aligned_cols=77 Identities=12% Similarity=0.173 Sum_probs=50.7
Q ss_pred cHHHHHHHHHHHHHHHHHcCCCC-CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHh--------hhccC--
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPSP-DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIE--------DMYNG-- 1042 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~--------~IFe~-- 1042 (1093)
++.-|.+++.++|.||++-..++ ...|.|.+... + .++|.|||.|||.+... .+|..
T Consensus 27 ~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~~~-g-----------~I~V~DnG~GIp~~~h~~~ki~~~e~i~~~l~ 94 (654)
T TIGR01059 27 GETGLHHLVYEVVDNSIDEAMAGYCDTINVTINDD-G-----------SVTVEDNGRGIPVDIHPEEGISAVEVVLTVLH 94 (654)
T ss_pred CcchHHhhhHHhhhccccccccCCCCEEEEEEeCC-C-----------cEEEEEeCCCcCccccCcCCCCchHHheeeec
Confidence 34568899999999999844331 36788887643 2 28999999999986432 23332
Q ss_pred ----CCC-----CCCCccchHHHHHHHHH
Q 001353 1043 ----RNQ-----WTTPEGLGLKLSRKLLI 1062 (1093)
Q Consensus 1043 ----F~~-----~~~GtGLGL~ivr~ive 1062 (1093)
|.. ..+-.|.||+.+-.+-+
T Consensus 95 ag~kf~~~~~k~s~G~~G~gl~~inalS~ 123 (654)
T TIGR01059 95 AGGKFDKDSYKVSGGLHGVGVSVVNALSE 123 (654)
T ss_pred ccCccCCCcceecCCccchhHHHHHHhcC
Confidence 111 12237999998865544
No 162
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.49 E-value=0.95 Score=59.47 Aligned_cols=118 Identities=13% Similarity=0.090 Sum_probs=72.5
Q ss_pred hhHHHHHHHHHHHHHHHHhcCccEEEEC-CCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcC
Q 001353 608 QGVDELSSVACEMVRLIETATAPIFGVD-SSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLG 686 (1093)
Q Consensus 608 q~~~eL~~~~~~l~~lie~~~~~I~~~D-~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g 686 (1093)
+..++|++.++.++.+++++|.++++++ .+|+++.+|+.+..++|+...+. ...+. .....
T Consensus 324 ~~~~~L~e~e~~~r~iv~~~p~gi~i~~~~~g~~~~~N~~a~~~~~l~~~~~--------------~~~~~----~~~~~ 385 (924)
T PRK10841 324 SNALRLEEHEQFNRKIVASAPVGICILRTSDGTNILSNELAHNYLNMLTHED--------------RQRLT----QIICG 385 (924)
T ss_pred HHHHHHHHHHHHHHHHHHhCCccEEEEEcCCCcEEEehHHHHHHhccCChhH--------------HHHHH----HHHhc
Confidence 3446788888899999999999999996 78999999999999998643321 11111 11111
Q ss_pred CCCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHH
Q 001353 687 EEDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEA 753 (1093)
Q Consensus 687 ~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~ 753 (1093)
..... .... ..++.... +.....+- .+.. ..+.++.|||+++++++++++..+..+.
T Consensus 386 ~~~~~--~~~~----~~~~~~~~--i~~~~~~~-~~~~-~~i~~~~Dit~r~~~e~~L~~~~~~~e~ 442 (924)
T PRK10841 386 QQVNF--VDVL----TSNNTNLQ--ISFVHSRY-RNEN-VAICVLVDVSARVKMEESLQEMAQAAEQ 442 (924)
T ss_pred cccce--eeEE----cCCCcEEE--EEEEeeee-cCce-EEEEEEEEhhHHHHHHHHHHHHHHHHHH
Confidence 11101 1111 12333333 33333222 2222 3566789999999999998877665554
No 163
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=94.48 E-value=0.35 Score=53.15 Aligned_cols=112 Identities=15% Similarity=0.112 Sum_probs=80.8
Q ss_pred HHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCC-ceEEEEEEEe
Q 001353 621 VRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEED-KNVELKLRKF 699 (1093)
Q Consensus 621 ~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~-~~~e~~l~~~ 699 (1093)
..++++.+.+++++|.+|.|.|+|++++.+||.+...+.|.++. .+++.... ....+.+..+.+.. ...+..+.
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 36899999999999999999999999999999999999999998 77765432 33455555544433 22333332
Q ss_pred eeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHH
Q 001353 700 ELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDK 743 (1093)
Q Consensus 700 ~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~ 743 (1093)
.+|....+.....|+....|- ++..++-+....+...+
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 468899999999998765553 45556666555544444
No 164
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=94.44 E-value=0.084 Score=65.65 Aligned_cols=77 Identities=14% Similarity=0.211 Sum_probs=51.5
Q ss_pred cHHHHHHHHHHHHHHHHHcCCCC-CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhh--------hccCCC
Q 001353 974 DRIRLQLVLSDFLHCVVRHAPSP-DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIED--------MYNGRN 1044 (1093)
Q Consensus 974 D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~--------IFe~F~ 1044 (1093)
+..-|.+++.+||.||++-..++ ...|.|.+...+ .|+|.|||.|||.+..+. +|....
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 35568899999999999844331 257888875432 489999999999874332 443311
Q ss_pred C-----------CCCCccchHHHHHHHHH
Q 001353 1045 Q-----------WTTPEGLGLKLSRKLLI 1062 (1093)
Q Consensus 1045 ~-----------~~~GtGLGL~ivr~ive 1062 (1093)
+ ..+-.|.||+.+-.+-+
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 12236999998865544
No 165
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=94.29 E-value=0.051 Score=67.47 Aligned_cols=55 Identities=15% Similarity=0.149 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC
Q 001353 978 LQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ 1045 (1093)
Q Consensus 978 L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~ 1045 (1093)
-..|+.+|+.||+++.. .+|.|.+...+- -.|+|+|||.||++++++-.+.++.|
T Consensus 24 PaSVVKELVENSlDAGA---t~I~I~ve~gG~----------~~I~V~DNG~Gi~~~Dl~la~~rHaT 78 (638)
T COG0323 24 PASVVKELVENSLDAGA---TRIDIEVEGGGL----------KLIRVRDNGSGIDKEDLPLALLRHAT 78 (638)
T ss_pred HHHHHHHHHhcccccCC---CEEEEEEccCCc----------cEEEEEECCCCCCHHHHHHHHhhhcc
Confidence 45899999999999886 477777644432 34899999999999999999999877
No 166
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=93.87 E-value=0.22 Score=59.28 Aligned_cols=99 Identities=13% Similarity=0.237 Sum_probs=66.9
Q ss_pred HHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc------------------ccCCCcccee
Q 001353 743 KFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG------------------ITGQGTENFP 804 (1093)
Q Consensus 743 ~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG------------------~~~~~~~~~e 804 (1093)
++.+....++.+++.++. |++.+|.+|++.-+|+++++++|.+.++++| .........+
T Consensus 364 ~~e~rr~f~E~VLsgvta---GVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap~~~~vf~~~~a~~~~~~~~e 440 (712)
T COG5000 364 ALEQRRRFLEAVLSGLTA---GVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLSAIAPELEEVFAEAGAAARTDKRVE 440 (712)
T ss_pred HHHHHHHHHHHHHhcCce---eEEEEcCCCeeEeecchHHHHhcCChhHhhcchhhhhhhHHHHHHHHhhhhcCCCccce
Confidence 344445556667777776 9999999999999999999999999999999 2222333334
Q ss_pred eEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHH
Q 001353 805 FGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQP 847 (1093)
Q Consensus 805 ~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~ 847 (1093)
..+. +.|+.+.+.+..+.... + .--|++.++.|||+-..+
T Consensus 441 v~~~-r~g~~rtl~Vq~t~~~~-d-~~~gyVvt~DDITdLV~A 480 (712)
T COG5000 441 VKLA-REGEERTLNVQATREPE-D-NGNGYVVTFDDITDLVIA 480 (712)
T ss_pred eecc-cCCCceeeeeeeeeccc-c-cCCceEEEecchHHHHHH
Confidence 4433 34555555555543322 2 233578899999984433
No 167
>PRK05218 heat shock protein 90; Provisional
Probab=93.48 E-value=0.21 Score=61.96 Aligned_cols=57 Identities=11% Similarity=0.149 Sum_probs=38.9
Q ss_pred EEecHHHHHHHHHHHHHHHHHcC---------------CCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhh
Q 001353 971 LNGDRIRLQLVLSDFLHCVVRHA---------------PSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHL 1035 (1093)
Q Consensus 971 v~~D~~~L~qVl~nLl~NAik~t---------------~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~ 1035 (1093)
+|+|+. -.|.+||.||.++. +...+.|.|.+...+ -.|+|.|||.||+.+.
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 566654 46899999998772 121345555543332 2489999999999999
Q ss_pred Hhhhcc
Q 001353 1036 IEDMYN 1041 (1093)
Q Consensus 1036 ~~~IFe 1041 (1093)
+..-|.
T Consensus 89 l~~~l~ 94 (613)
T PRK05218 89 VIENLG 94 (613)
T ss_pred HHHHHH
Confidence 887663
No 168
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=93.29 E-value=1.4 Score=57.40 Aligned_cols=45 Identities=13% Similarity=-0.018 Sum_probs=40.6
Q ss_pred hHHHHHHHHHHHHHHHHhcCccEEEEC-CCCcEEEecHHHHHhcCC
Q 001353 609 GVDELSSVACEMVRLIETATAPIFGVD-SSGTINGWNAKVAELTGL 653 (1093)
Q Consensus 609 ~~~eL~~~~~~l~~lie~~~~~I~~~D-~dG~I~~~N~~~~~llG~ 653 (1093)
..++|+..++.++.+++++|+|++++| .+|+|+.+|+.+++++|.
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 346788888899999999999999999 679999999999999985
No 169
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=92.82 E-value=0.083 Score=65.30 Aligned_cols=71 Identities=13% Similarity=0.222 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHHHcCCCC-CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHh--------hhccCCCC---
Q 001353 978 LQLVLSDFLHCVVRHAPSP-DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIE--------DMYNGRNQ--- 1045 (1093)
Q Consensus 978 L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~--------~IFe~F~~--- 1045 (1093)
|.+++.+||.||++..-++ ...|.|.+...+ .++|.|||.|||.+..+ .+|....+
T Consensus 2 L~~~v~ElvdNAiD~~~~g~at~I~V~i~~~g------------~I~V~DnG~GIp~~~h~~~~~~~~e~v~~~lhag~k 69 (594)
T smart00433 2 LHHLVDEIVDNAADEALAGYMDTIKVTIDKDN------------SISVEDNGRGIPVEIHPKEKKYAPEVIFTVLHAGGK 69 (594)
T ss_pred ceEEEeeehhcccchhccCCCCEEEEEEeCCC------------eEEEEEeCCceeCCccCcCCCCcHHHhhhhhcccCC
Confidence 3467789999999986331 247777765432 48999999999975533 22332111
Q ss_pred --------CCCCccchHHHHHHH
Q 001353 1046 --------WTTPEGLGLKLSRKL 1060 (1093)
Q Consensus 1046 --------~~~GtGLGL~ivr~i 1060 (1093)
..+-.|.||+.+-.+
T Consensus 70 fd~~~~k~s~G~~G~Gls~vnal 92 (594)
T smart00433 70 FDDDAYKVSGGLHGVGASVVNAL 92 (594)
T ss_pred CCCCCccccCCcccchHHHHHHh
Confidence 122379999988544
No 170
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=92.82 E-value=0.079 Score=59.60 Aligned_cols=113 Identities=9% Similarity=0.070 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCcccccccc-ccHHHHHHHHHHHHcCCCC
Q 001353 611 DELSSVACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHE-ESQGAVENLICRALLGEED 689 (1093)
Q Consensus 611 ~eL~~~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~-~~~~~~~~~l~~~l~g~~~ 689 (1093)
-.+++... +-+.++....+|-+.|.+..|.|+|+++++++|+-..|++|+... ++-.. ..+..+...+...+..|..
T Consensus 151 fkiRAcna-lFaaLD~c~eAiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~a-dlpkkdknradlldtintcikkgke 228 (775)
T KOG1229|consen 151 FKIRACNA-LFAALDECDEAIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEA-DLPKKDKNRADLLDTINTCIKKGKE 228 (775)
T ss_pred HHHhhhHH-HHHHHhhhhhhheeccchhHHHHhcHHHHhhhcchhhhhcCCchh-hccccccchhhhhhhhhHhhhcCcc
Confidence 33444433 345678888999999999999999999999999999999999988 55332 3344455556666655443
Q ss_pred ceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEE
Q 001353 690 KNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCF 729 (1093)
Q Consensus 690 ~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~ 729 (1093)
. +-....++|.|...-..+...|+....|++..++.
T Consensus 229 ~----qG~~~aRRksgdS~dqh~~itP~~gqggkirhfvs 264 (775)
T KOG1229|consen 229 A----QGEEEARRKSGDSCDQHFIITPFAGQGGKIRHFVS 264 (775)
T ss_pred c----cchHHHhhccCCcccceEEEeeecCCCCceeeehh
Confidence 2 22222356778777777778888887887766543
No 171
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=92.60 E-value=0.39 Score=61.57 Aligned_cols=218 Identities=18% Similarity=0.166 Sum_probs=159.2
Q ss_pred HhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH-HHhcCCCCHHHHHHHHHHHHHHHHHHHHHhc-ccccccccCcccc
Q 001353 852 QGLEDMDIYAKIKELAYIRQEVKNPLNGIRFVHK-LLESSSISENQRQYLETSDACERQIMTIIDG-MDLRCIEEGNMEL 929 (1093)
Q Consensus 852 q~~~e~~~~~k~~~la~isHELrnPLt~I~g~~~-LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~d-Ldlsrie~g~~~l 929 (1093)
++++.....++..++....|..++|.+.+.+... ++....+.++..-.++........+..+++. .+.++...|....
T Consensus 376 ~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~~gt~~~ 455 (786)
T KOG0519|consen 376 KEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLYGGTGLG 455 (786)
T ss_pred hhhhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhccccccccccCCCccc
Confidence 3334444445556666677999999999987777 4455555666665666776767788888888 7888877777677
Q ss_pred ceeeeeHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHH--cCCCCCCeEEEEEEeC
Q 001353 930 KSEEFLLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVR--HAPSPDGWVEIKVLPG 1007 (1093)
Q Consensus 930 ~~~~v~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik--~t~~~~g~I~I~v~~~ 1007 (1093)
....+.|..++...+.........+...+.+.+..+.|. .+.+|..++.|++.++..++.. ++.. +....+.+...
T Consensus 456 ~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~G~~~~~~~~~~-~~~~~~~~~~~ 533 (786)
T KOG0519|consen 456 ESIVFSLVELMSGEISDISCISLGKTFSFTLDLLTNLPK-SVVGDEKRLFQIILDFNGMLALLIDTKL-GREQIFQVLAE 533 (786)
T ss_pred chhhccHHHHHHHHhhhhhhhccCceeeEEEEeccCCCc-cchhhhhhhhhhhhhhcchhhhhhcccc-CcceeEEEEec
Confidence 788899999999999999988888888899888888775 7888888899999999999988 6665 33222222222
Q ss_pred --CccccC-------------CCceeEEEEEEecCCCCCChhhHhhhccCCCC------C-CCCccchHHHHHHHHHHcC
Q 001353 1008 --LKLIKD-------------ADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ------W-TTPEGLGLKLSRKLLIMMN 1065 (1093)
Q Consensus 1008 --~~~~~~-------------~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~------~-~~GtGLGL~ivr~ive~hg 1065 (1093)
...... ......+.+.+.++..|+.......+|.-|.+ + ..+.+++++.|.+..+.++
T Consensus 534 ~~~~~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 613 (786)
T KOG0519|consen 534 LLGISVDVSLSLSLAFWFLDLSLSDLEVCKQIEDNEEGSNNGDISSSNPLHKSLRDLTSKLSSGSGLSLALCPENSQLME 613 (786)
T ss_pred ccCccccccccchhhhhhcccccccchheEEeeeccccccCCCcchhhhhhhccccchhhcccccccccccchhhHHhhh
Confidence 111000 01112678889999999998877777666543 2 3568999999999999999
Q ss_pred CEEEEE
Q 001353 1066 GRVRYV 1071 (1093)
Q Consensus 1066 G~I~v~ 1071 (1093)
|..++.
T Consensus 614 ~~~~~~ 619 (786)
T KOG0519|consen 614 GNIGLV 619 (786)
T ss_pred cccccc
Confidence 998886
No 172
>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=92.29 E-value=0.77 Score=31.67 Aligned_cols=40 Identities=20% Similarity=0.390 Sum_probs=35.5
Q ss_pred eeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeeccc
Q 001353 804 PFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVP 843 (1093)
Q Consensus 804 e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe 843 (1093)
++.+...+|...|+.....++.+.+|.+.+++++..|+|+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~ 42 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITE 42 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccC
Confidence 4567788999999999999999999999999999999986
No 173
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=92.03 E-value=0.23 Score=62.43 Aligned_cols=48 Identities=13% Similarity=0.260 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHHHHcCCCC-CCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhh
Q 001353 976 IRLQLVLSDFLHCVVRHAPSP-DGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHL 1035 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~~-~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~ 1035 (1093)
.-|.+++.+++.||++-.-++ ...|.|.+...+ .++|.|||.|||.+.
T Consensus 36 ~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dg------------sIsV~DnGrGIPvd~ 84 (756)
T PRK14939 36 TGLHHMVYEVVDNAIDEALAGHCDDITVTIHADG------------SVSVSDNGRGIPTDI 84 (756)
T ss_pred cchhhhhhHhhcccccccccCCCCEEEEEEcCCC------------eEEEEEcCCcccCCc
Confidence 458899999999999844331 267887775432 489999999999874
No 174
>TIGR02851 spore_V_T stage V sporulation protein T. Members of this protein family are the stage V sporulation protein T (SpoVT), a protein of the sporulation/germination program in Bacillus subtilis and related species. The amino-terminal 50 amino acids are nearly perfectly conserved across all endospore-forming bacteria. SpoVT is a DNA-binding transcriptional regulator related to AbrB (See PFAM model pfam04014).
Probab=91.53 E-value=6.8 Score=40.76 Aligned_cols=125 Identities=14% Similarity=0.208 Sum_probs=87.7
Q ss_pred CHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecCCCCC
Q 001353 230 DIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDCHAIP 309 (1093)
Q Consensus 230 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~~~~~ 309 (1093)
++...++.+++-+.+.|++ -|+|- +.-.|+|=+-.+ -..+ -|.+ +.+..++.+..+++.+..+-+...
T Consensus 53 ~~~~~A~~~aeII~~~t~~-aVaIT-----Dr~~ILA~~G~g-~d~~----~~~~-is~~t~~~i~~gk~~~~~~~~~~~ 120 (180)
T TIGR02851 53 ELGDFAKEYAESLYQSLGH-IVLIT-----DRDTVIAVAGVS-KKEY----LNKP-ISDELEDTMEERKTVILSDTKDGP 120 (180)
T ss_pred chHHHHHHHHHHHHHHhCC-EEEEE-----CCCcEEEEECCC-hhhc----CCCc-cCHHHHHHHHcCCEEEecCCccce
Confidence 4566677777778888999 88885 344566544222 2223 3444 999999999999999888644222
Q ss_pred cccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCC--CCCchHHHHHHH
Q 001353 310 VMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPR--YIPFPLRYACEF 387 (1093)
Q Consensus 310 ~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~--~~~~~~r~~~~~ 387 (1093)
++.... ..| ...+.+++||+.+| +.=|.|.-- ...+ .++..++.+++-
T Consensus 121 i~c~~~-----------------~~~--------~l~s~ii~Pl~~~g----~viGtLkly-~k~~~~~~~~~e~~la~g 170 (180)
T TIGR02851 121 IEIIDG-----------------QEF--------EYTSQVIAPIIAEG----DPIGAVIIF-SKEPGEKLGEVEQKAAET 170 (180)
T ss_pred eccccC-----------------CCC--------CcceEEEEEEEECC----eEEEEEEEE-ECCccCCCCHHHHHHHHH
Confidence 332100 011 13789999999988 899966544 5566 889999999999
Q ss_pred HHHHHHHHH
Q 001353 388 LVQAFSLQL 396 (1093)
Q Consensus 388 l~~~~~~~l 396 (1093)
||+.||.||
T Consensus 171 lA~lLS~QL 179 (180)
T TIGR02851 171 AAAFLGKQM 179 (180)
T ss_pred HHHHHHHhh
Confidence 999999987
No 175
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=90.97 E-value=0.13 Score=58.05 Aligned_cols=73 Identities=18% Similarity=0.173 Sum_probs=63.0
Q ss_pred ceEEecCCCcEeechhhhHHHhCCCcchhcc-----------------------ccCCCccceeeEEEccCCcEEEEEEE
Q 001353 764 PIFASDENACCSEWNAAMEKVTGWMRHEVIG-----------------------ITGQGTENFPFGFFNRQGQFVEVALT 820 (1093)
Q Consensus 764 ~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG-----------------------~~~~~~~~~e~~~~~kdG~~~~v~~~ 820 (1093)
+|-+.|.+..|.|+|++++.++||-+.|++| +..+..+..++.-++|.|......+.
T Consensus 169 AiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~~~aRRksgdS~dqh~~ 248 (775)
T KOG1229|consen 169 AIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGEEEARRKSGDSCDQHFI 248 (775)
T ss_pred hheeccchhHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccchHHHhhccCCcccceEE
Confidence 7888999999999999999999999999999 34455666777778899998888888
Q ss_pred EeEeecCCCcEEEEEE
Q 001353 821 ASRRTDAEGKVIGCFC 836 (1093)
Q Consensus 821 ~~~i~d~~G~v~g~i~ 836 (1093)
..|+....|++-.++.
T Consensus 249 itP~~gqggkirhfvs 264 (775)
T KOG1229|consen 249 ITPFAGQGGKIRHFVS 264 (775)
T ss_pred EeeecCCCCceeeehh
Confidence 9999999999887654
No 176
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=90.95 E-value=1.6 Score=52.90 Aligned_cols=175 Identities=15% Similarity=0.150 Sum_probs=89.5
Q ss_pred hhHHHHHHHHHHHHHH---HHhcCccEEEECCCCcEEEecHHHHHhcCCCcccc-CCCCccccccccccHHHHHHHHHHH
Q 001353 608 QGVDELSSVACEMVRL---IETATAPIFGVDSSGTINGWNAKVAELTGLPASEA-MGKSLIDEVVHEESQGAVENLICRA 683 (1093)
Q Consensus 608 q~~~eL~~~~~~l~~l---ie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eel-iG~~~~~~lv~~~~~~~~~~~l~~~ 683 (1093)
+...=|......|..+ +-..+..+++.|.+|.++..+-.......++.--+ .|-.+.+.... ...+-.+
T Consensus 64 ~~~~LL~iA~~~L~~L~~~v~~~~~~vLLtD~~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~G-------TNgIGTc 136 (606)
T COG3284 64 RAEALLTIAQPELDRLFQAVAGSGCCVLLTDADGVILERRGDPRDDEDFRKAGLWLGAVWSEPREG-------TNGIGTC 136 (606)
T ss_pred HHHHHHHHhHHHHHHHHHHhcCCCeEEEEEcCceeEEEeecChhhhhhhhhhcccccccccccccc-------ccchhhh
Confidence 3333344444444444 45577889999999999987543222222111100 12222211100 0122233
Q ss_pred HcCCCCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEE---EecchhHH------HHHHHHHHHHH----
Q 001353 684 LLGEEDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVG---QDITHEKV------LMDKFIRLQGD---- 750 (1093)
Q Consensus 684 l~g~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~---~DITerK~------aEe~L~~se~~---- 750 (1093)
+..+++ + .+... .|-......+.+++.|++|+.|++.|++-+. .|+++.-. +...-+.+|..
T Consensus 137 Lve~~a--V--tI~~~-qHF~~~~~~lsCsAaPI~D~qG~L~gVLDISs~r~~~~~~s~~~~~~iV~~~ar~IE~~~~~~ 211 (606)
T COG3284 137 LVEGEA--V--TIHGD-QHFIQAHHGLSCSAAPIFDEQGELVGVLDISSCRSDLSEASQPLTLAIVTDAARRIEAELFLA 211 (606)
T ss_pred hccCcc--e--EEehh-hhHhhcccCceeeeeccccCCCcEEEEEEeccCCcchhhhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 322222 1 11110 1112344567899999999999999987665 23333221 11111222221
Q ss_pred -----HHHHHHhcC----CCCCceEEecCCCcEeechhhhHHHhCCC-cchhcc
Q 001353 751 -----YEAIIQSVN----PLIPPIFASDENACCSEWNAAMEKVTGWM-RHEVIG 794 (1093)
Q Consensus 751 -----lr~i~~~~~----~li~~I~~~D~~g~i~~~N~a~~~l~G~~-~eEliG 794 (1093)
+...+...+ ....+.+..|.+|+++..|+++..+++.+ ..-++|
T Consensus 212 ~~~~~~~lr~~~~p~~~d~~~~~~lavd~~grvl~at~aA~~~La~~~~~~l~g 265 (606)
T COG3284 212 AFEGHWLLRIALAPDYLDSQSEALLAVDQDGRVLGATRAARQLLALTDRQRLIG 265 (606)
T ss_pred hcCcchHHHHhcCccccCcccceeeeecCcchhhhccHHHHHhhccchhhHhhc
Confidence 111222222 12347889999999999999999999887 334444
No 177
>PRK14083 HSP90 family protein; Provisional
Probab=90.50 E-value=0.27 Score=60.59 Aligned_cols=77 Identities=13% Similarity=0.208 Sum_probs=50.4
Q ss_pred EEecHHHHHHHHHHHHHHHHHcCCC-------CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCC
Q 001353 971 LNGDRIRLQLVLSDFLHCVVRHAPS-------PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGR 1043 (1093)
Q Consensus 971 v~~D~~~L~qVl~nLl~NAik~t~~-------~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F 1043 (1093)
+|.|+. -.+.||+.||.++... ..+.|.|.+. ..+ .-.|+|.|||+||+.+.+.+.|-..
T Consensus 20 LYs~~~---iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-d~~---------~~~l~I~DnGiGmt~eel~~~l~~i 86 (601)
T PRK14083 20 LYSSPR---VYVRELLQNAVDAITARRALDPTAPGRIRIELT-DAG---------GGTLIVEDNGIGLTEEEVHEFLATI 86 (601)
T ss_pred hcCCcH---HHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc-cCC---------CcEEEEEeCCCCCCHHHHHHHHhhh
Confidence 555643 6789999999887321 1246777653 222 3468999999999999988875321
Q ss_pred CC--------------CCCCccchHHHHHHH
Q 001353 1044 NQ--------------WTTPEGLGLKLSRKL 1060 (1093)
Q Consensus 1044 ~~--------------~~~GtGLGL~ivr~i 1060 (1093)
.. ..+.-|+|.+.|-.+
T Consensus 87 g~S~k~~~~~~~~~~~~IG~FGIGf~S~F~v 117 (601)
T PRK14083 87 GRSSKRDENLGFARNDFLGQFGIGLLSCFLV 117 (601)
T ss_pred ccchhhhhhhcccccccccccccceEEEEEe
Confidence 00 124678888766443
No 178
>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=88.71 E-value=2.1 Score=29.26 Aligned_cols=35 Identities=37% Similarity=0.515 Sum_probs=31.0
Q ss_pred ccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecch
Q 001353 702 QKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITH 736 (1093)
Q Consensus 702 ~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITe 736 (1093)
..+|...|+.....++.+.++.+.+++++.+|||+
T Consensus 8 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~ 42 (43)
T smart00086 8 RKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITE 42 (43)
T ss_pred ecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccC
Confidence 45788899999999999888999999999999986
No 179
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=88.45 E-value=17 Score=36.65 Aligned_cols=123 Identities=20% Similarity=0.226 Sum_probs=88.8
Q ss_pred HHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHH---HHHhHhcCCeEEEecCCC
Q 001353 231 IGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQA---ARFLFKQNRVRMICDCHA 307 (1093)
Q Consensus 231 ~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~---~r~l~~~~~~r~i~d~~~ 307 (1093)
+..+-++++---..+..+|=|=.|.++ +++.| +.||-|. -+-.+||-- -..-..++++-.|.||++
T Consensus 34 ianlan~sall~~~l~~~nW~GFYl~~---~~~Lv-------LgPFqG~-~acv~I~~GkGVCg~A~~~~~t~~V~DV~~ 102 (163)
T COG1956 34 IANLANASALLKERLPDVNWVGFYLLE---GDELV-------LGPFQGK-VACVRIPFGKGVCGTAAATGETVRVDDVHA 102 (163)
T ss_pred HHHHHHHHHHHHhhccCCceEEEEEec---CCeEE-------EecccCC-cceEEeccCcchhHHHHhcCCeEEeccccc
Confidence 344444443333344558888888888 66666 4677776 445577743 245667899999999998
Q ss_pred CCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHHHHH
Q 001353 308 IPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYACEF 387 (1093)
Q Consensus 308 ~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~~~~ 387 (1093)
-|--|-=++ -++|-++|||+.+| ++-|.|=.-...|-+++...+..++.
T Consensus 103 ~~ghiaCD~---------------------------as~SEIVvPi~~~g----~~iGvlDiDS~~~~~Fd~~D~~~Le~ 151 (163)
T COG1956 103 FPGHIACDA---------------------------ASNSEIVVPIFKDG----KLIGVLDIDSPTPGRFDEEDEAGLEK 151 (163)
T ss_pred CCCcccccc---------------------------ccCceEEEEEEECC----EEEEEEecCCCCcccCCHHHHHHHHH
Confidence 877542122 34889999999998 99999999988999999988888888
Q ss_pred HHHHHHHH
Q 001353 388 LVQAFSLQ 395 (1093)
Q Consensus 388 l~~~~~~~ 395 (1093)
++..+...
T Consensus 152 ~~~~l~~~ 159 (163)
T COG1956 152 LAALLEKS 159 (163)
T ss_pred HHHHHHHH
Confidence 87776543
No 180
>COG5381 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=87.90 E-value=1.3 Score=43.09 Aligned_cols=44 Identities=9% Similarity=0.135 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCC
Q 001353 976 IRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEG 1030 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~G 1030 (1093)
+.+.-+..+||.||+||... |.|.|....... ...+.|.+.-.+
T Consensus 62 hsvgYl~NELiENAVKfra~--geIvieasl~s~---------~f~~kvsN~vd~ 105 (184)
T COG5381 62 HSVGYLANELIENAVKFRAT--GEIVIEASLYSH---------KFIFKVSNIVDL 105 (184)
T ss_pred hhHHHHHHHHHHhhhcccCC--CcEEEEEEeccc---------eEEEEecccCCC
Confidence 44667889999999999885 899999888877 778887765444
No 181
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=87.55 E-value=0.73 Score=57.60 Aligned_cols=58 Identities=10% Similarity=0.230 Sum_probs=39.3
Q ss_pred EEecHHHHHHHHHHHHHHHHHcCC-------------CCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHh
Q 001353 971 LNGDRIRLQLVLSDFLHCVVRHAP-------------SPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIE 1037 (1093)
Q Consensus 971 v~~D~~~L~qVl~nLl~NAik~t~-------------~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~ 1037 (1093)
+|.++. -.|.+||+||.++.. ..++.+.|++....+ ...|.|.|||+||+.+.+.
T Consensus 22 lYs~~~---iflRELIsNA~DA~~k~r~~~l~~~~~~~~~~~~~I~i~~d~~---------~~~L~I~DnGiGMt~edl~ 89 (701)
T PTZ00272 22 FYSNKE---IFLRELISNASDACDKIRYQSLTDPSVLGESPRLCIRVVPDKE---------NKTLTVEDNGIGMTKADLV 89 (701)
T ss_pred ccCCcc---HhHHHHHhhHHHHHHHHHHHhcCCchhcCCCCceEEEEEEcCC---------CCEEEEEECCCCCCHHHHH
Confidence 455543 337899999987621 113467777766555 4578999999999988765
Q ss_pred hhc
Q 001353 1038 DMY 1040 (1093)
Q Consensus 1038 ~IF 1040 (1093)
+-+
T Consensus 90 ~~L 92 (701)
T PTZ00272 90 NNL 92 (701)
T ss_pred HHh
Confidence 544
No 182
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=85.68 E-value=0.96 Score=54.89 Aligned_cols=79 Identities=11% Similarity=0.161 Sum_probs=48.0
Q ss_pred EEecHHHHHHHHHHHHHHHHHc---------C-CC---CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHh
Q 001353 971 LNGDRIRLQLVLSDFLHCVVRH---------A-PS---PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIE 1037 (1093)
Q Consensus 971 v~~D~~~L~qVl~nLl~NAik~---------t-~~---~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~ 1037 (1093)
+|.++. --|.+||+||.++ + |. ..+.+.|++....+ .-+++|+|||+||..+++.
T Consensus 24 lYSnKe---IFLRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~---------~kTLtI~DNGIGMT~~Ev~ 91 (623)
T COG0326 24 LYSNKE---IFLRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKD---------NKTLTISDNGIGMTKDEVI 91 (623)
T ss_pred ccCCcH---HHHHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEccc---------CCEEEEEeCCCCCCHHHHH
Confidence 444543 3468999999754 1 11 12356666666665 5578999999999987654
Q ss_pred hhccC--------CCC----C------CCCccchHHHHHHHH
Q 001353 1038 DMYNG--------RNQ----W------TTPEGLGLKLSRKLL 1061 (1093)
Q Consensus 1038 ~IFe~--------F~~----~------~~GtGLGL~ivr~iv 1061 (1093)
.--.- |.. + .+.-|+|++.|--++
T Consensus 92 ~~LgTIAkSgT~~F~~~l~~~~~~~~lIGQFGVGFYSaFmVA 133 (623)
T COG0326 92 ENLGTIAKSGTKEFLESLSEDQKDSDLIGQFGVGFYSAFMVA 133 (623)
T ss_pred HHHHHhhhccHHHHHHHhccccccccccccccchhhheeeee
Confidence 32111 111 1 345799999875443
No 183
>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=85.36 E-value=1.3 Score=33.95 Aligned_cols=41 Identities=32% Similarity=0.407 Sum_probs=34.5
Q ss_pred HHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc
Q 001353 751 YEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG 794 (1093)
Q Consensus 751 lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG 794 (1093)
++.+++..+. +++..|.++.+..+|+.+.+++|++..++.+
T Consensus 3 ~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 43 (67)
T smart00091 3 LRAILESLPD---GIFVLDLDGRILYANPAAEELLGYSPEELIG 43 (67)
T ss_pred HHHHHhhCCc---eEEEEcCCCeEEEECHHHHHHhCCCHHHHcC
Confidence 4567777776 7999999999999999999999998776554
No 184
>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=84.95 E-value=2.8 Score=40.30 Aligned_cols=35 Identities=29% Similarity=0.295 Sum_probs=32.3
Q ss_pred CCCCceEEecCCCcEeechhhhHHHhCCCcchhcc
Q 001353 760 PLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG 794 (1093)
Q Consensus 760 ~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG 794 (1093)
.+.-|++-+|.+|.|+..|.+-.++.|++++.++|
T Consensus 24 ~lpFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlG 58 (124)
T TIGR02373 24 ALPFGAIQLDGSGVILRYNAAEGRITGRDPERVIG 58 (124)
T ss_pred cCCcceEEECCCCEEEEEecchhhhcCCChhhhhc
Confidence 33449999999999999999999999999999999
No 185
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=84.75 E-value=0.42 Score=59.65 Aligned_cols=59 Identities=24% Similarity=0.374 Sum_probs=49.6
Q ss_pred HHH-HHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHH
Q 001353 619 EMV-RLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVEN 678 (1093)
Q Consensus 619 ~l~-~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~ 678 (1093)
+|. .+++++.-.+|++..+|+|+|+++....+|||..+|++|++++ +++|+.+.+...+
T Consensus 95 eL~~LmLeAlDGF~fvV~cdG~IvyVSeSVT~~L~y~QsDL~~qSly-~ilhp~d~~~~~~ 154 (803)
T KOG3561|consen 95 ELTHLILEALDGFLFVVNCDGRIVYVSESVTSVLGYLQSDLMGQSLY-DILHPLDNDKPRE 154 (803)
T ss_pred HHHHHHHHHhcCeEEEEecCceEEEEecchHHhhCcCHHHHhcchHH-HhcCccccCcccc
Confidence 444 4667777777888999999999999999999999999999999 8999877665543
No 186
>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=84.36 E-value=1.5 Score=54.53 Aligned_cols=49 Identities=12% Similarity=0.220 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHHHcCCC-CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhh
Q 001353 975 RIRLQLVLSDFLHCVVRHAPS-PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHL 1035 (1093)
Q Consensus 975 ~~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~ 1035 (1093)
..-|.+++.++|.||++-.-+ ....|.|.+...+ .++|.|||.|||-+.
T Consensus 32 ~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dg------------sitV~DnGrGIPv~~ 81 (637)
T TIGR01058 32 SKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDN------------SITVQDDGRGIPTGI 81 (637)
T ss_pred cchhheehhhhhcchhhhhhcCCCcEEEEEEcCCC------------eEEEEECCCcccCcc
Confidence 456889999999999975332 1357777766332 488999999999653
No 187
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=83.80 E-value=1.9 Score=57.55 Aligned_cols=49 Identities=14% Similarity=0.287 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHcCC-----CCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhH
Q 001353 977 RLQLVLSDFLHCVVRHAP-----SPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLI 1036 (1093)
Q Consensus 977 ~L~qVl~nLl~NAik~t~-----~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~ 1036 (1093)
-|..+|.++|.||++..- .....|.|.+....+ .++|.|||.|||-+..
T Consensus 57 GL~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~d~g-----------~IsV~dnGrGIPv~~h 110 (1388)
T PTZ00108 57 GLYKIFDEILVNAADNKARDKGGHRMTYIKVTIDEENG-----------EISVYNDGEGIPVQIH 110 (1388)
T ss_pred hhhhhHHHHhhhhhhhhcccCCCCCccEEEEEEeccCC-----------eEEEEecCCcccCCCC
Confidence 367888888888887532 113578877766533 4889999999997644
No 188
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=82.37 E-value=0.91 Score=56.09 Aligned_cols=46 Identities=17% Similarity=0.367 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHcCCC----CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhH
Q 001353 978 LQLVLSDFLHCVVRHAPS----PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLI 1036 (1093)
Q Consensus 978 L~qVl~nLl~NAik~t~~----~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~ 1036 (1093)
|..++.++|.||++..-+ ....|.|.+. ++ .++|.|||.|||-+..
T Consensus 46 L~hi~~EIldNavDe~~~~~~g~~~~I~V~i~--dg-----------sisV~dnGrGIPv~~h 95 (602)
T PHA02569 46 LVKIIDEIIDNSVDEAIRTNFKFANKIDVTIK--NN-----------QVTVSDNGRGIPQAMV 95 (602)
T ss_pred ceeeeehhhhhhhhhhhccCCCCCcEEEEEEc--CC-----------EEEEEECCCcccCCcc
Confidence 556677777777764211 1347777776 33 3889999999997654
No 189
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=82.27 E-value=7.1 Score=32.94 Aligned_cols=47 Identities=19% Similarity=0.163 Sum_probs=36.4
Q ss_pred HHHHHHHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHH
Q 001353 864 KELAYIRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTII 914 (1093)
Q Consensus 864 ~~la~isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI 914 (1093)
+.+..-.||+.|-|++|.|++++- ..++..+|+..+....+..+.++
T Consensus 14 ~~lR~~RHD~~NhLqvI~gllqlg----~~~~a~eYi~~~~~~~~~~s~l~ 60 (62)
T PF14689_consen 14 DSLRAQRHDFLNHLQVIYGLLQLG----KYEEAKEYIKELSKDLQQESELL 60 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHhHHHHHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHHHHHH
Confidence 446677999999999999999973 34667788888877777776654
No 190
>PLN03237 DNA topoisomerase 2; Provisional
Probab=82.09 E-value=2.8 Score=55.97 Aligned_cols=74 Identities=14% Similarity=0.260 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHHcC---CCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHh--h------hccC----
Q 001353 978 LQLVLSDFLHCVVRHA---PSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIE--D------MYNG---- 1042 (1093)
Q Consensus 978 L~qVl~nLl~NAik~t---~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~--~------IFe~---- 1042 (1093)
|..+|.++|.||++.. +. ...|.|.+...++ .|+|.|||.|||-+... . ||..
T Consensus 78 L~kifdEIldNAvDe~~r~g~-~~~I~V~I~~~~g-----------sIsV~DnGRGIPV~iH~~eg~~~pElIft~LhAG 145 (1465)
T PLN03237 78 LYKIFDEILVNAADNKQRDPK-MDSLRVVIDVEQN-----------LISVYNNGDGVPVEIHQEEGVYVPEMIFGHLLTS 145 (1465)
T ss_pred hhhhHHHHhhhhHhHHhhcCC-CCEEEEEEEcCCC-----------EEEEEecCccccCCCCCCCCCccceEEEEeeecc
Confidence 6678888888888754 22 4678888776655 48899999999976443 2 3322
Q ss_pred --CCC-----CCCCccchHHHHHHHHHH
Q 001353 1043 --RNQ-----WTTPEGLGLKLSRKLLIM 1063 (1093)
Q Consensus 1043 --F~~-----~~~GtGLGL~ivr~ive~ 1063 (1093)
|-. .++-.|.|.++|.-+-+.
T Consensus 146 gkFdd~~yKvSGGlhGVGasvvNaLS~~ 173 (1465)
T PLN03237 146 SNYDDNEKKTTGGRNGYGAKLTNIFSTE 173 (1465)
T ss_pred ccCCCCcceeeccccccCccccccccCe
Confidence 211 122369999888554443
No 191
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=82.03 E-value=12 Score=45.05 Aligned_cols=101 Identities=13% Similarity=0.168 Sum_probs=61.9
Q ss_pred HHHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEE
Q 001353 616 VACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELK 695 (1093)
Q Consensus 616 ~~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~ 695 (1093)
.+.-+..++.++|.||+++|.++.+.|+|+-+..+|+- +.+|+... +...+.+.....+.+.. .+.
T Consensus 73 ~~~~~~~al~nmPiGii~~~e~~~veW~Npf~~~if~~---~~~~~~~~---------~~~~~il~~~~~~~~~~--~~~ 138 (655)
T COG3887 73 AEKSLEEALTNMPIGIILFNETNKVEWVNPFASKIFNK---NEIGESLS---------ELIPEILKQLARNDEKQ--YIK 138 (655)
T ss_pred HHHHHHHHHHhCCceEEEEcCCCceEEecHHHHHhcCh---hhhhhhHH---------HHhHHHHHHHhcCCcce--EEE
Confidence 34557889999999999999999999999999999983 23343333 22333444443322221 122
Q ss_pred EEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHH
Q 001353 696 LRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRL 747 (1093)
Q Consensus 696 l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~s 747 (1093)
+ ++..+. + ..+.+.+ +..+-|+|++.+.+++++.+
T Consensus 139 i--------~e~~y~-~----~~~~~~~----liYf~DvT~~~~~~~~~~~~ 173 (655)
T COG3887 139 I--------NEKKYD-V----YFDSDKR----LIYFFDVTEEEAIEEEYENS 173 (655)
T ss_pred E--------cceEEE-E----EEecCCC----EEEEEeccHHHHHHHHHhcc
Confidence 2 222221 1 1333443 45568999999888776443
No 192
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=81.03 E-value=64 Score=42.16 Aligned_cols=129 Identities=13% Similarity=0.075 Sum_probs=79.8
Q ss_pred CHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhc---C-CeEEEecC
Q 001353 230 DIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQ---N-RVRMICDC 305 (1093)
Q Consensus 230 ~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~---~-~~r~i~d~ 305 (1093)
..+..++.+...+.++++.+++.++-|+.++...+.... |.. |..+.+...+.+-.. . .-.+..+
T Consensus 293 ~~~~~~~~~l~~i~~~~~~~~~~~~l~~~~~~~~~~~~~---------~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~- 361 (828)
T PRK13837 293 ELEASIEAALGILAKFFDADSAALALVDVGGRARIWTFP---------GLT-PDPVWPDRLRALASTVKAAERDVVFVD- 361 (828)
T ss_pred hhHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCeeeccCC---------ccC-CCCCchHHHHHHHHHHhccCCceEEee-
Confidence 456899999999999999999999999887654332211 111 233344333332111 0 0001100
Q ss_pred CCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCC-CCCCchHHHH
Q 001353 306 HAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSP-RYIPFPLRYA 384 (1093)
Q Consensus 306 ~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p-~~~~~~~r~~ 384 (1093)
+..++....++...+..+.+++|+..++ +++|++.+....+ ..+...+...
T Consensus 362 ------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~g~l~~~~~~~~~~~~~~~~~~ 413 (828)
T PRK13837 362 ------------------------RNGPVRKRSCLTRRGPALWACLAFKSGD----RIVALLGLGRQRYGLRPPAGELQL 413 (828)
T ss_pred ------------------------cccchhhhcccccCCcceEEEEEeccCC----ceEEEEEecccccCCCCChhHHHH
Confidence 1111223334446678899999998887 9999999877753 3344677778
Q ss_pred HHHHHHHHHHHHH
Q 001353 385 CEFLVQAFSLQLY 397 (1093)
Q Consensus 385 ~~~l~~~~~~~l~ 397 (1093)
++.++..++..+.
T Consensus 414 l~~~~~~~~~~~~ 426 (828)
T PRK13837 414 LELALDCLAHAIE 426 (828)
T ss_pred HHHHHHHHHHHHH
Confidence 8888887777664
No 193
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=79.59 E-value=0.68 Score=58.47 Aligned_cols=49 Identities=18% Similarity=0.256 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHHcCCC-CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHh
Q 001353 977 RLQLVLSDFLHCVVRHAPS-PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIE 1037 (1093)
Q Consensus 977 ~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~ 1037 (1093)
-|.+++.++|.||++-.-+ ....|.|.+...+ .++|.|||.|||-+..+
T Consensus 129 GLhhLv~EIlDNSVDE~laG~~~~I~V~i~~Dg------------sItV~DnGRGIPvd~h~ 178 (903)
T PTZ00109 129 GLHQLLFEILDNSVDEYLAGECNKITVVLHKDG------------SVEISDNGRGIPCDVSE 178 (903)
T ss_pred cceEEEEEEeeccchhhccCCCcEEEEEEcCCC------------eEEEEeCCccccccccc
Confidence 4667778888888875333 1347777765433 38888999999975443
No 194
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=79.40 E-value=2.7 Score=47.90 Aligned_cols=93 Identities=14% Similarity=0.116 Sum_probs=68.1
Q ss_pred HHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc--------------------ccCCCccceeeEEE
Q 001353 749 GDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG--------------------ITGQGTENFPFGFF 808 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG--------------------~~~~~~~~~e~~~~ 808 (1093)
+.+.+++..+|- -|-..|.++++.++|+. .++|-+++..+-. ...+.....+|+ .
T Consensus 290 ~e~naif~~lP~---Ditfvdk~diV~ffs~~-~rif~rt~sviGr~v~~chpPksv~iv~ki~~~fksG~kd~~efw-~ 364 (409)
T COG2461 290 EELNAIFKHLPV---DITFVDKNDIVRFFSGG-ERIFPRTPSVIGRRVQLCHPPKSVHIVEKILKDFKSGEKDFAEFW-I 364 (409)
T ss_pred HHHHHHHhhCCC---ceEEecccceEEecCCc-ceecccChHhhCCcccCCCCCchHHHHHHHHHHhhcCCcchHHHh-c
Confidence 457788988883 37888999999999998 8888776654322 344455555666 3
Q ss_pred ccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHH
Q 001353 809 NRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPA 848 (1093)
Q Consensus 809 ~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e 848 (1093)
+..+. .+.+++.++.|++|+..|++-+.+|||+-++.+
T Consensus 365 ~~~~~--~i~i~Y~av~de~ge~~g~le~~qdi~~i~~l~ 402 (409)
T COG2461 365 NMGDK--FIHIRYFAVKDEEGEYLGTLEVVQDITRIKELE 402 (409)
T ss_pred cCCCc--eEEEEEEEEEcCCCceeeeehhhhhhHHHHhcc
Confidence 33343 455677889999999999999999999865443
No 195
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=78.90 E-value=2.5 Score=52.20 Aligned_cols=51 Identities=10% Similarity=0.048 Sum_probs=44.1
Q ss_pred ccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHH
Q 001353 629 APIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLI 680 (1093)
Q Consensus 629 ~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l 680 (1093)
..+++-+.+|+|+|+...+..++|+.++-+.|..+. +++++.|...+...+
T Consensus 193 F~~~vS~~dG~iLyis~q~a~ilg~krDv~s~a~Fv-dflapqD~~vF~sft 243 (1114)
T KOG3753|consen 193 FVVAVSFLDGRILYISEQAALILGCKRDVLSSAKFV-DFLAPQDVGVFYSFT 243 (1114)
T ss_pred eEEEEeccCCcEEEeechhhhhccCchhhhccchhh-hhcchhhhhhhhhcc
Confidence 345566899999999999999999999999999999 999998887776544
No 196
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=78.27 E-value=6.7 Score=46.16 Aligned_cols=95 Identities=14% Similarity=0.038 Sum_probs=75.3
Q ss_pred CCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcEEEEEEEEE
Q 001353 636 SSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSVVYILVNAC 715 (1093)
Q Consensus 636 ~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~~v~v~~~ 715 (1093)
.|+..+.+..+...++||...|+.|.+-+ +++|-+|..+..+...+.+..++.--+-++. .+|+|++.|+..++.
T Consensus 291 lDfa~vs~Dak~k~~lgy~eaEL~~m~gY-~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~----qtk~grw~wvqssar 365 (712)
T KOG3560|consen 291 LDFALVSMDAKVKATLGYCEAELHGMPGY-NLVHVEDKVYMAEAHSEGIKTGESGMLVYRE----QTKAGRWAWVQSSAR 365 (712)
T ss_pred cccceeccchhhhhhhccchhhccCCCcc-ceeehhhhhhhhHHHHHHhhcCCcceEEEEE----eecCCcEEEeeccce
Confidence 45667777888889999999999999999 9999999988888888888877765554543 468999999988887
Q ss_pred EeecCCCCEEEEEEEEEecch
Q 001353 716 TSRDYKNNVKGVCFVGQDITH 736 (1093)
Q Consensus 716 pi~d~~g~v~gv~~v~~DITe 736 (1093)
.++ .+|++..++..-+-.++
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 766 46777777776666665
No 197
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=78.20 E-value=12 Score=37.07 Aligned_cols=86 Identities=12% Similarity=-0.018 Sum_probs=69.1
Q ss_pred CcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcEEEEEEEEEEe
Q 001353 638 GTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSVVYILVNACTS 717 (1093)
Q Consensus 638 G~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi 717 (1093)
-++..+-...++++|. |+.|+++. +++.++....+...+..+.....+....... ...+|....++.-..|+
T Consensus 51 ~r~RLaGt~i~~~~G~---d~tG~~~~-el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~----~~~~g~~~~~e~l~LPL 122 (137)
T PF07310_consen 51 FRYRLAGTRIVELFGR---DLTGRRLS-ELFPPEDRERVRRAYRAVVERPAPVRARGRA----EDADGRYLEYERLLLPL 122 (137)
T ss_pred eEEEEecHHHHHHhCC---CCCCCCHH-HhcChHhHHHHHHHHHHHHcCCceEEEEEEE----ecCCCCeeEEEEEEccc
Confidence 4566788999999997 56699999 8999999999999999998777664444333 34578889999999999
Q ss_pred ecCCCCEEEEEEEE
Q 001353 718 RDYKNNVKGVCFVG 731 (1093)
Q Consensus 718 ~d~~g~v~gv~~v~ 731 (1093)
.+.+|.+..++++.
T Consensus 123 ~~~~~~v~rilG~~ 136 (137)
T PF07310_consen 123 RSDGGTVDRILGAL 136 (137)
T ss_pred CCCCCCccEEEEec
Confidence 99999888888764
No 198
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=77.25 E-value=5.8 Score=44.84 Aligned_cols=42 Identities=17% Similarity=0.277 Sum_probs=39.3
Q ss_pred HHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCCCcchhcc
Q 001353 750 DYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGWMRHEVIG 794 (1093)
Q Consensus 750 ~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~~~eEliG 794 (1093)
.+.++++++++ +++.+|..|.+...|+|++++||.+.+++.|
T Consensus 81 ~L~aLL~al~~---pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g 122 (511)
T COG3283 81 ALSALLEALPE---PVLSVDMKGKVDMANPAACQLFGRKEDRLRG 122 (511)
T ss_pred HHHHHHHhCCC---ceEEecccCceeecCHHHHHHhCCChhhhcC
Confidence 46788899988 9999999999999999999999999999999
No 199
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=76.88 E-value=5.3 Score=45.13 Aligned_cols=88 Identities=16% Similarity=0.127 Sum_probs=66.6
Q ss_pred CccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcE
Q 001353 628 TAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSV 707 (1093)
Q Consensus 628 ~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~ 707 (1093)
..-+|....|..+++...++.+++||++.+++|++++ ..++..|...++.+-...+..|....--+++ ..+.|++
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 3456677889999999999999999999999999999 8889888888887766666555432222222 3467889
Q ss_pred EEEEEEEEEeecC
Q 001353 708 VYILVNACTSRDY 720 (1093)
Q Consensus 708 ~~v~v~~~pi~d~ 720 (1093)
.|+.-.+..+.+.
T Consensus 300 vwvqsyat~vHnS 312 (598)
T KOG3559|consen 300 VWVQSYATFVHNS 312 (598)
T ss_pred EEEEEeeEEEecc
Confidence 9988777665543
No 200
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=76.75 E-value=37 Score=36.71 Aligned_cols=136 Identities=15% Similarity=0.043 Sum_probs=73.3
Q ss_pred HHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcC
Q 001353 218 SAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQN 297 (1093)
Q Consensus 218 ~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~ 297 (1093)
++..+|-+ +.++.+++++..+.+++..+.|-|-+--|++++.- +++.. .++..+ ..........
T Consensus 82 ~l~l~LL~--a~sl~~l~~~L~~~l~~~f~~~~v~L~L~~~~~~~---~~~~~--------~~~~~~---~~~~~~~~~~ 145 (225)
T PF04340_consen 82 RLVLALLA--ARSLQELLQALDDGLREDFDVDAVRLRLFDDDAAP---GPSLT--------DHVWLS---RDAFAQVFID 145 (225)
T ss_dssp HHHHHHHC----SHHHHHHHHHHHHHHTS--SEEEEEEE-SS------SEE--------------E----HHHHHHHHCC
T ss_pred HHHHHHhc--CCCHHHHHHHHHHHHHHhcCCCeEEEEeecccccc---ccchh--------hccccc---HHHHHHHHHH
Confidence 44445555 56999999999999999999999999999977662 11111 112111 1111111111
Q ss_pred CeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHh---cCceeEEEEEEEEcCCCCcceeEEEEeecCCC
Q 001353 298 RVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTN---MGSIASLVMAVIINSKDSMKLWGLVVCHHTSP 374 (1093)
Q Consensus 298 ~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n---~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p 374 (1093)
.+ ...-| .+--++..-...|=. -+|+|...+|+. .+ +.+|+|+-=+..|
T Consensus 146 ~l-------~~~~p----------------~~G~~~~~~~~~lF~~~~~~v~S~AlipL~-~~----~~~G~LalGS~D~ 197 (225)
T PF04340_consen 146 LL-------GLQQP----------------YCGRLSEEEAALLFGDEAAQVGSVALIPLG-SG----RPIGLLALGSRDP 197 (225)
T ss_dssp CH-------TT-------------------CCCS--HHHHHHHHHHCHCC-SEEEEEEEE-SS----SEEEEEEEEESST
T ss_pred Hh-------CCCCc----------------eeCCCCcchhHHhcCCCCccccchheeecc-CC----CceEEEEecCCCh
Confidence 10 00001 111111222222222 458899999998 66 8999999766665
Q ss_pred -CCCCchHHHHHHHHHHHHHHHHH
Q 001353 375 -RYIPFPLRYACEFLVQAFSLQLY 397 (1093)
Q Consensus 375 -~~~~~~~r~~~~~l~~~~~~~l~ 397 (1093)
|+-|----.+.++||.+++..|.
T Consensus 198 ~rF~p~mgT~fL~~La~vv~~~L~ 221 (225)
T PF04340_consen 198 DRFQPDMGTDFLEQLAEVVSAALE 221 (225)
T ss_dssp TCCCSTTTTHHHHHHHHHHHHHGG
T ss_pred hhCCCCccHHHHHHHHHHHHHHHh
Confidence 55555677899999999887763
No 201
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=76.29 E-value=3.7 Score=49.67 Aligned_cols=56 Identities=13% Similarity=0.218 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC
Q 001353 976 IRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ 1045 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~ 1045 (1093)
..|.|++.+|+.|++++... .|.|.+ .-. ...+.|.|+|.|+..+++..+=++|||
T Consensus 20 ~sla~~VeElv~NSiDA~At---~V~v~V--~~~---------t~sv~ViDdG~G~~rdDl~~lg~ry~T 75 (1142)
T KOG1977|consen 20 SSLAQCVEELVLNSIDAEAT---CVAVRV--NME---------TFSVQVIDDGFGMGRDDLEKLGNRYFT 75 (1142)
T ss_pred HHHHHHHHHHHhhccccCce---EEEEEe--cCc---------eeEEEEEecCCCccHHHHHHHHhhhhh
Confidence 34889999999999988653 555554 333 678999999999999999999998776
No 202
>PRK10490 sensor protein KdpD; Provisional
Probab=76.03 E-value=1.1e+02 Score=40.40 Aligned_cols=48 Identities=10% Similarity=0.056 Sum_probs=38.3
Q ss_pred eEEEEEEEEcCCCCcceeEEEEeecCCC-CCCCchHHHHHHHHHHHHHHHHHH
Q 001353 347 ASLVMAVIINSKDSMKLWGLVVCHHTSP-RYIPFPLRYACEFLVQAFSLQLYM 398 (1093)
Q Consensus 347 asl~~~i~~~~~~~~~LWGl~~~h~~~p-~~~~~~~r~~~~~l~~~~~~~l~~ 398 (1093)
+.+.+|+..++ +++|.+....+.+ +.+..+.+.+.+.++.+++..+..
T Consensus 596 ~~~~lPl~~~~----~~~Gvl~l~~~~~~~~~~~~~~~ll~~la~~~a~aler 644 (895)
T PRK10490 596 PYQILPLKSAQ----KTYGLLAVEPGNLRQLMIPEQQRLLETFTLLIANALER 644 (895)
T ss_pred ceEEEEEEECC----EEEEEEEEecCcccccCCHHHHHHHHHHHHHHHHHHHH
Confidence 45689999888 9999999877664 456778888888888888887753
No 203
>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=73.88 E-value=31 Score=34.65 Aligned_cols=88 Identities=14% Similarity=0.086 Sum_probs=59.6
Q ss_pred HHHHHHHHhcCCCCCceEEecC--CCcEeechhhhHHHhCCCcchhccc----------------------cCCCcccee
Q 001353 749 GDYEAIIQSVNPLIPPIFASDE--NACCSEWNAAMEKVTGWMRHEVIGI----------------------TGQGTENFP 804 (1093)
Q Consensus 749 ~~lr~i~~~~~~li~~I~~~D~--~g~i~~~N~a~~~l~G~~~eEliG~----------------------~~~~~~~~e 804 (1093)
..++.+++ .+. +|+..|. +-.++|.|.++.++|+++-+|+.++ ..+-.....
T Consensus 32 ~~~~~L~~-ap~---ailsh~~~~dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG~~~~y~ 107 (148)
T PF08670_consen 32 ELAKALWH-APF---AILSHGTKADPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQGYIDNYS 107 (148)
T ss_pred HHHHHHHc-CCC---EEEEcCCCCCCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhCCccCCC
Confidence 34556666 444 6777654 4589999999999999999999991 111111112
Q ss_pred eEEEccCCcEEEEE-EEEeEeecCCCcEEEEEEEEee
Q 001353 805 FGFFNRQGQFVEVA-LTASRRTDAEGKVIGCFCFMQI 840 (1093)
Q Consensus 805 ~~~~~kdG~~~~v~-~~~~~i~d~~G~v~g~i~~~~D 840 (1093)
-.-..+.|+.++++ .++=.+.|++|...|.-.++.+
T Consensus 108 GiRiss~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~ 144 (148)
T PF08670_consen 108 GIRISSTGRRFRIERATVWNLIDEDGNYCGQAAMFSN 144 (148)
T ss_pred eEEEcCCCCeEEEeceEEEEEEcCCCCEEEEEEEEee
Confidence 23356778877665 3455788999999988777654
No 204
>PTZ00130 heat shock protein 90; Provisional
Probab=73.59 E-value=2.6 Score=53.13 Aligned_cols=48 Identities=13% Similarity=0.235 Sum_probs=30.1
Q ss_pred HHHHHHHHHHcCC-------------CCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhh
Q 001353 982 LSDFLHCVVRHAP-------------SPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIED 1038 (1093)
Q Consensus 982 l~nLl~NAik~t~-------------~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~ 1038 (1093)
|.+||+||.++.. ..+..+.|++....+ .-.|+|.|||+||..+.+..
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 5788889876521 011244555544433 23678889999999887654
No 205
>PLN03128 DNA topoisomerase 2; Provisional
Probab=73.32 E-value=4.8 Score=53.22 Aligned_cols=49 Identities=12% Similarity=0.227 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHHHHHcCC--CCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhH
Q 001353 977 RLQLVLSDFLHCVVRHAP--SPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLI 1036 (1093)
Q Consensus 977 ~L~qVl~nLl~NAik~t~--~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~ 1036 (1093)
-|..+|.++|.||++... .....|.|.+...++ .++|.|||.|||-+..
T Consensus 52 GL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~~dg-----------sIsV~DnGrGIPv~ih 102 (1135)
T PLN03128 52 GLYKIFDEILVNAADNKQRDPSMDSLKVDIDVEQN-----------TISVYNNGKGIPVEIH 102 (1135)
T ss_pred hHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEcCCC-----------eEEEEecCccccCCCC
Confidence 377888888888887541 124578888776444 4889999999997643
No 206
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=72.86 E-value=21 Score=46.04 Aligned_cols=44 Identities=16% Similarity=0.059 Sum_probs=37.9
Q ss_pred HHHHHHHHhcCccEEEEC-CCCcEEEecHHHHHhcCCCccccCCCCcc
Q 001353 618 CEMVRLIETATAPIFGVD-SSGTINGWNAKVAELTGLPASEAMGKSLI 664 (1093)
Q Consensus 618 ~~l~~lie~~~~~I~~~D-~dG~I~~~N~~~~~llG~~~eeliG~~~~ 664 (1093)
+--..++...|.|++++| .+|+|.|.|+.+.+++| .+ ++|+++.
T Consensus 102 ~~~~~~l~~~p~gi~~~~~~~~~i~W~N~~~~~~~~--~~-~~g~~i~ 146 (838)
T PRK14538 102 QIGEEVLNELPIGIVLIDISSKEIQWLNPYANFILK--NP-EINTPLA 146 (838)
T ss_pred HHHHHHHHhCCceEEEEeCCCCEEEEECHHHHHHhC--cc-ccCCcHH
Confidence 445678999999999999 78999999999999988 23 7899988
No 207
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=72.13 E-value=3.3 Score=50.44 Aligned_cols=55 Identities=15% Similarity=0.172 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC
Q 001353 978 LQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ 1045 (1093)
Q Consensus 978 L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~ 1045 (1093)
+.-++.+|+.|++++.. .+|.|.+...+ .=.|.|.|||.||++...+-|-.+++|
T Consensus 21 l~sAVKELvENSiDAGA---T~I~I~~kdyG----------~d~IEV~DNG~GI~~~n~~~l~lkh~T 75 (672)
T KOG1978|consen 21 LVSAVKELVENSIDAGA---TAIDIKVKDYG----------SDSIEVSDNGSGISATDFEGLALKHTT 75 (672)
T ss_pred HHHHHHHHHhcCcccCC---ceeeEecCCCC----------cceEEEecCCCCCCccchhhhhhhhhh
Confidence 55889999999999876 47887765432 224788899999999888777666555
No 208
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=71.19 E-value=4.7 Score=48.05 Aligned_cols=77 Identities=12% Similarity=0.085 Sum_probs=53.5
Q ss_pred HHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhhhccCCCC-------------C
Q 001353 980 LVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIEDMYNGRNQ-------------W 1046 (1093)
Q Consensus 980 qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe~F~~-------------~ 1046 (1093)
-++.+|+.|++++.. ..|.|.+...+ --.+.|+|||-||-.++++-+-++|.| .
T Consensus 30 NAlKEliENSLDA~S---T~I~V~vk~GG----------LKLlQisDnG~GI~reDl~ilCeRftTSKL~kFEDL~~lsT 96 (694)
T KOG1979|consen 30 NALKELIENSLDANS---TSIDVLVKDGG----------LKLLQISDNGSGIRREDLPILCERFTTSKLTKFEDLFSLST 96 (694)
T ss_pred HHHHHHHhccccCCC---ceEEEEEecCC----------eEEEEEecCCCccchhhhHHHHHHhhhhhcchhHHHHhhhh
Confidence 678999999998875 46666653332 345778899999999999999999976 1
Q ss_pred CCCccchHHHHHHHHHHcCCEEEEEeeC
Q 001353 1047 TTPEGLGLKLSRKLLIMMNGRVRYVREN 1074 (1093)
Q Consensus 1047 ~~GtGLGL~ivr~ive~hgG~I~v~S~~ 1074 (1093)
.+=.|=-|+.+ .|=.+|.|.+..
T Consensus 97 yGFRGEALASi-----ShVA~VtV~TK~ 119 (694)
T KOG1979|consen 97 YGFRGEALASI-----SHVAHVTVTTKT 119 (694)
T ss_pred cCccHHHHhhh-----hheeEEEEEEee
Confidence 22234445544 455677776543
No 209
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=70.41 E-value=3.1 Score=52.31 Aligned_cols=98 Identities=14% Similarity=0.128 Sum_probs=69.5
Q ss_pred ECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCcEEEEEEE
Q 001353 634 VDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHSVVYILVN 713 (1093)
Q Consensus 634 ~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~~~~v~v~ 713 (1093)
...+|.++++-.++..+.||...++.|++.+ .+.|+++.......++.+....+. -.....+.+.++|...|....
T Consensus 378 ~~~~g~~~~~dqr~~~i~~~~~~~~~g~ss~-~s~h~~d~~~~~~s~~~~~~~s~~---~~~~~yr~~~~n~~~~~~~~~ 453 (803)
T KOG3561|consen 378 SSSDGSFTFVDQRASAILGYQPQELLGRSSY-ESSHPADSSPLSESLKQVQALSEQ---RSTLLYRFRSKNGSSIPNKSS 453 (803)
T ss_pred cCcCCceeccccccccccccCchhhcCcccc-cccCccccchhhchHHHHHHhccc---ccccccccccCCCCccccccc
Confidence 3567888888899999999999999999998 999999999888888777665544 112222335678888888777
Q ss_pred EEEeecC-CCCEEEEEEEEEecc
Q 001353 714 ACTSRDY-KNNVKGVCFVGQDIT 735 (1093)
Q Consensus 714 ~~pi~d~-~g~v~gv~~v~~DIT 735 (1093)
+....+. .+.+.+++.+-.-+.
T Consensus 454 ~~~~~n~~s~~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 454 AYLFSNPGSDEVEYIVCTNSNVP 476 (803)
T ss_pred cccccCCCccccceeeecccccc
Confidence 6655443 334445555444333
No 210
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=66.10 E-value=2.2 Score=51.65 Aligned_cols=51 Identities=12% Similarity=0.219 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHHHHHHcCCC-CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhh
Q 001353 976 IRLQLVLSDFLHCVVRHAPS-PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIED 1038 (1093)
Q Consensus 976 ~~L~qVl~nLl~NAik~t~~-~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~ 1038 (1093)
.-|..++.+.+.||++-+-+ -...|.|.+...+. ++|.|||.|||-+..++
T Consensus 35 ~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~~d~s------------isV~DnGRGIPvdiH~~ 86 (635)
T COG0187 35 RGLHHLVWEVVDNSIDEALAGYADRIDVTLHEDGS------------ISVEDNGRGIPVDIHPK 86 (635)
T ss_pred CcceeeEeEeeechHhHHhhCcCcEEEEEEcCCCe------------EEEEECCCCCccccCCC
Confidence 45667777788888865322 13578887764443 88999999999777444
No 211
>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=61.46 E-value=7.4 Score=36.96 Aligned_cols=48 Identities=27% Similarity=0.454 Sum_probs=38.2
Q ss_pred EEEECC-CCcEEEecHHHHHhcCCC---ccccCCCCccccccccccHHHHHHH
Q 001353 631 IFGVDS-SGTINGWNAKVAELTGLP---ASEAMGKSLIDEVVHEESQGAVENL 679 (1093)
Q Consensus 631 I~~~D~-dG~I~~~N~~~~~llG~~---~eeliG~~~~~~lv~~~~~~~~~~~ 679 (1093)
++++|. +++|+.++..+.+++|.+ .++++|+++. +++.+.....+...
T Consensus 18 LLa~d~~~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~-~ll~~~~~~~l~~~ 69 (110)
T PF08446_consen 18 LLALDPDDLRIVQASENIAELLGIPPELPEELLGRPLS-ELLGAESAERLREA 69 (110)
T ss_dssp EEEEETTTTBEEEEETTHHHHHSS----HHHHTTCBHH-HHSCCCCHHHHHHH
T ss_pred EEEEECCCCEEEEEcCCHHHHhCCccccchhhcccCHH-HHhCHHHHHHHHHh
Confidence 455665 699999999999999999 8999999999 88877766544433
No 212
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=54.34 E-value=4.7e+02 Score=32.37 Aligned_cols=121 Identities=17% Similarity=0.155 Sum_probs=74.6
Q ss_pred HHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCceE-EEEecCCCCCCccCCccCCCCchHHHHHhHhcC
Q 001353 219 AISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEV-VSEIRRSDLEPYLGIHFPANDIPQAARFLFKQN 297 (1093)
Q Consensus 219 ~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~v-vaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~ 297 (1093)
+-.++.+ +....+.|+.+.+++.++++.+.+.+.-+++++.... .-.+. + +. +.|+
T Consensus 225 ~~~~l~~--~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~-~--~~----~~~~-------------- 281 (569)
T PRK10600 225 ANRRLHS--RAPLCERLSPVLNGLQNLTLLRDIELRVYETDDEENHQEFTCQ-S--DM----TCDD-------------- 281 (569)
T ss_pred HHHHHhc--CcchHHHHHHHHHHHHHhcCCCceEEEEeccccccceeeccCC-C--cc----Cccc--------------
Confidence 3455555 4578888999999999999999999988776554322 11111 0 00 0000
Q ss_pred CeEEEecCCCCCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCC
Q 001353 298 RVRMICDCHAIPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYI 377 (1093)
Q Consensus 298 ~~r~i~d~~~~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~ 377 (1093)
..|..-+... +|... + ...+.+||..++ +.-|.+...-..++.+
T Consensus 282 -----~~~~~~~~~~--------------------~~~~~------~-~~~~~~~l~~~~----~~~G~~~~~~~~~~~l 325 (569)
T PRK10600 282 -----KGCQLCPRGV--------------------LPVGD------R-GTTLKWRLSDKH----GQYGILLATLPQGRHL 325 (569)
T ss_pred -----cccccccccC--------------------CCcCC------C-CceEEEEeecCC----cceEEEEEEcCCCCCC
Confidence 0011011000 00000 0 256789998776 8889887654446778
Q ss_pred CchHHHHHHHHHHHHHHHHHH
Q 001353 378 PFPLRYACEFLVQAFSLQLYM 398 (1093)
Q Consensus 378 ~~~~r~~~~~l~~~~~~~l~~ 398 (1093)
+.+.+.+++.++.+++..+..
T Consensus 326 ~~~~~~ll~~l~~~l~~~l~~ 346 (569)
T PRK10600 326 SHDQQQLVDTLVEQLTATLAL 346 (569)
T ss_pred CHHHHHHHHHHHHHHHHHHHH
Confidence 899999999999998877643
No 213
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=51.05 E-value=1e+02 Score=37.57 Aligned_cols=145 Identities=14% Similarity=0.164 Sum_probs=96.5
Q ss_pred HHHHHHhhcCCCCCHHHHHHHHHHHHHhhhCCCeEEEEeecCCCCc-eEEEEecCCCCCCccCCccCCCCchHHHHHhHh
Q 001353 217 VSAISRLQALPGGDIGLLCDTVVEDVQKLTGYDRVMLYNFHDDDHG-EVVSEIRRSDLEPYLGIHFPANDIPQAARFLFK 295 (1093)
Q Consensus 217 ~~~~~~~~~~~~~~~~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G-~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~ 295 (1093)
.++.....+ .+++.+-++..|++|..-....=.-||=-+.|++- +.-| ..++.+.-+
T Consensus 6 r~i~E~va~--~~~~qe~Ld~iVr~i~~aM~tEVCSvYl~~~d~~~leL~A---TeGLnk~av----------------- 63 (756)
T COG3605 6 RRIVEKVAS--ALELQEALDIIVRDIALAMVTEVCSVYLLRADRRVLELMA---TEGLNKPAV----------------- 63 (756)
T ss_pred HHHHHHHhc--ccCHHHHHHHHHHHHHHHhhhhheeEEEEcCCCcEEEEEe---ccccCcccc-----------------
Confidence 455566666 56899999999999999888888889988888742 2221 122221111
Q ss_pred cCCeEEEecCCCCCccccc-ccccCCCccccCccccCCChhHHHHHHhcC---ceeEEEEEEEEcCCCCcceeEEEEeec
Q 001353 296 QNRVRMICDCHAIPVMVIQ-SKELKQPLCLVNSTLRSPHGCHLQYMTNMG---SIASLVMAVIINSKDSMKLWGLVVCHH 371 (1093)
Q Consensus 296 ~~~~r~i~d~~~~~~~l~~-~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~---v~asl~~~i~~~~~~~~~LWGl~~~h~ 371 (1093)
..+++-.|- -|+. -....+||+|+.+.- ||- -.|+..-| -.|-|-+||+..+ ++-|.|+.++
T Consensus 64 -~~~~l~~~e-----GLVG~v~~~aePlNLsdAqs---HPs-F~Y~petgEE~Y~sFLGvPIi~~~----r~lGVLVVQq 129 (756)
T COG3605 64 -HLVQLAFGE-----GLVGLVGRSAEPLNLADAQS---HPS-FKYLPETGEERYHSFLGVPIIRRG----RLLGVLVVQQ 129 (756)
T ss_pred -ceEEecCCC-----chhhhhhhccCCCChhhhhh---CCc-cccccccchHHHHHhhccceeecC----ceeEEEEEec
Confidence 111111111 1122 133467888876642 222 34665555 3577889999888 9999999999
Q ss_pred CCCCCCCchHHHHHHHHHHHHHHHHH
Q 001353 372 TSPRYIPFPLRYACEFLVQAFSLQLY 397 (1093)
Q Consensus 372 ~~p~~~~~~~r~~~~~l~~~~~~~l~ 397 (1093)
.++|.+...+-.+++.++.+++--+.
T Consensus 130 k~~R~y~E~Eve~L~T~A~~lA~iva 155 (756)
T COG3605 130 RELRQYDEDEVEFLVTLAMQLAEIVA 155 (756)
T ss_pred ccccccchHHHHHHHHHHHHHHHHHH
Confidence 99999999999999998887765553
No 214
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=50.53 E-value=5e+02 Score=33.87 Aligned_cols=218 Identities=10% Similarity=0.005 Sum_probs=106.7
Q ss_pred hHHHHHHHHHH-------HHHHHHHHHhcCCCCCceEEec-CCCcEeechhhhHHHhCCCcchhccc--c---CCC--cc
Q 001353 737 EKVLMDKFIRL-------QGDYEAIIQSVNPLIPPIFASD-ENACCSEWNAAMEKVTGWMRHEVIGI--T---GQG--TE 801 (1093)
Q Consensus 737 rK~aEe~L~~s-------e~~lr~i~~~~~~li~~I~~~D-~~g~i~~~N~a~~~l~G~~~eEliG~--~---~~~--~~ 801 (1093)
-|+.+.+|..- ....+.++..+|- |+.++| .+|.|.+.|+.|.+++|- + ++|. . ... .+
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~p~---gi~~~~~~~~~i~W~N~~~~~~~~~--~-~~g~~i~~~~~~~~~~~ 156 (838)
T PRK14538 83 IKRLQNKLSLWSKLSFHVSQIGEEVLNELPI---GIVLIDISSKEIQWLNPYANFILKN--P-EINTPLAQINESMAQLL 156 (838)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHhCCc---eEEEEeCCCCEEEEECHHHHHHhCc--c-ccCCcHHHhchHhhhcc
Confidence 45566665332 2223445555554 899999 799999999999999872 2 5551 0 000 00
Q ss_pred ---ce-eeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcHHHHHHHhHHHHHHHHHHHHHHHHHHhhhhHH
Q 001353 802 ---NF-PFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQPALEAQGLEDMDIYAKIKELAYIRQEVKNPL 877 (1093)
Q Consensus 802 ---~~-e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~~e~elq~~~e~~~~~k~~~la~isHELrnPL 877 (1093)
.. +.....-+++++.+.... . . .+..+.|+|+..+...+... ..|.
T Consensus 157 ~~~~~~~~~~~~~~~~~y~~~~~~------~---~-~~ly~~D~T~~~~~~~~~~~--------------------~~~v 206 (838)
T PRK14538 157 LTSDKIPKTIITLKNQKFECFYKK------D---L-NVFYLFNATEKEQIKHLFLQ--------------------KTLA 206 (838)
T ss_pred cccccccceEEEECCEEEEEEEec------c---c-eEEEEEeccHHHHHHHHHHh--------------------cCcE
Confidence 00 011222244444433322 1 2 23345999985443322110 1111
Q ss_pred HH---HHHHHHHHhcCCCCHHHH-HHHHHHHHHHHHHHHHHhc--ccccccccCccccceeeeeHHHHHHH---HHHHHH
Q 001353 878 NG---IRFVHKLLESSSISENQR-QYLETSDACERQIMTIIDG--MDLRCIEEGNMELKSEEFLLGNILDA---VVSQVM 948 (1093)
Q Consensus 878 t~---I~g~~~LL~~~~l~~~~~-~~l~~i~~~~~rl~~lI~d--Ldlsrie~g~~~l~~~~v~L~~ll~~---v~~~~~ 948 (1093)
-+ |..|-+.+.... +..+ .....+ .+.+.+..+. .-+.+++.+++-+-...-.|..+.++ +++.++
T Consensus 207 ~g~i~iDNyde~~~~~~--~~~~s~l~~~i---~~~l~~~~~~~~~~~r~~~~dry~~~~~~~~l~~~~~~kF~iLd~ir 281 (838)
T PRK14538 207 LAMITFDNLEESLIRYD--LSEQSQIQGEY---LSALSDFIEPYEGYLKQLIDDRFLLLINRQNLDKMIENKFSILDTIR 281 (838)
T ss_pred EEEEEeeCHHHHhcccc--hHHHHHHHHHH---HHHHHHHHHhCCEEEEEecCCcEEEEEEHHHHHHHHHhCCcHHHHHH
Confidence 11 113334333322 2222 222223 2235555555 24577777777766666667777766 666666
Q ss_pred HHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHcCCCC-CCeEEEE
Q 001353 949 VLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRHAPSP-DGWVEIK 1003 (1093)
Q Consensus 949 ~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~t~~~-~g~I~I~ 1003 (1093)
......++.+.+.+.-. ++.. .+.+. .++..+|+.-+-.. |.++.|.
T Consensus 282 ~~~~~~~~~vTLSiGig------~g~~-~~~e~-~~~A~~aldlAlgRGGDQvvvk 329 (838)
T PRK14538 282 NISHKYQLKVTLSMGIA------CWNL-SYDKL-ATYSQNAIELAQKRGGDQAVVN 329 (838)
T ss_pred HhhcCCCCceEEEEEEe------CCCC-CHHHH-HHHHHHHHHHHhccCCCEEEEE
Confidence 66555555555544321 1111 12222 45556666654332 3477665
No 215
>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=49.85 E-value=52 Score=31.73 Aligned_cols=41 Identities=15% Similarity=0.126 Sum_probs=34.7
Q ss_pred ccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHH
Q 001353 702 QKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKF 744 (1093)
Q Consensus 702 ~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L 744 (1093)
.++| +.+..+...++|++|+++|++.+-.|+|.-..+.+.|
T Consensus 76 ~~~G--k~lrSsT~~Ird~~g~~iG~LCIN~D~s~~~~~~~~L 116 (118)
T PF08348_consen 76 TKDG--KILRSSTFFIRDENGKLIGALCINFDISALEQAQNFL 116 (118)
T ss_pred CCCC--CEEEEEEEEEECCCCCEEEEEEEEeccHHHHHHHHHH
Confidence 4566 5677888899999999999999999999988876655
No 216
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=49.30 E-value=2.3e+02 Score=30.32 Aligned_cols=40 Identities=13% Similarity=0.009 Sum_probs=35.8
Q ss_pred HHHHHHHHHhcCccEEEECCCCcEEEecHHHHHhcCCCcc
Q 001353 617 ACEMVRLIETATAPIFGVDSSGTINGWNAKVAELTGLPAS 656 (1093)
Q Consensus 617 ~~~l~~lie~~~~~I~~~D~dG~I~~~N~~~~~llG~~~e 656 (1093)
.+.+..+++..|.|+++-+.+|.+++.|..|.++|.-...
T Consensus 18 ~~~~~~~i~~~~~P~CiR~~~g~fi~~N~~F~~~f~~~~~ 57 (217)
T PRK13719 18 PESLTAFIDDYSYPACIRNESGKFIFYNTLFLKEFLGQLQ 57 (217)
T ss_pred HHHHHHHHHcCCCCeEEECCCCCeeecchHHHHHHHhcCC
Confidence 3578889999999999999999999999999999986543
No 217
>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=48.86 E-value=91 Score=27.98 Aligned_cols=70 Identities=16% Similarity=0.160 Sum_probs=43.5
Q ss_pred HHHhhhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHhcccccccccCccccceeeeeHHHHHHHHHHHHH
Q 001353 869 IRQEVKNPLNGIRFVHKLLESSSISENQRQYLETSDACERQIMTIIDGMDLRCIEEGNMELKSEEFLLGNILDAVVSQVM 948 (1093)
Q Consensus 869 isHELrnPLt~I~g~~~LL~~~~l~~~~~~~l~~i~~~~~rl~~lI~dLdlsrie~g~~~l~~~~v~L~~ll~~v~~~~~ 948 (1093)
+.|.+||-|+.+.+....-.+...+. .++.+.+......|.+..+-| . .-....++|.++++..+..+.
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--S-------RSDWEGVSLRDLVEAELAPYG 70 (83)
T ss_pred chhHHHHHHHHHHHHHHHHcccCCCH--HHHHHHHHHHHHHHHHHHHHH--h-------cCCCCCccHHHHHHHHHHhcc
Confidence 68999999999999988876543332 334444433333333332222 1 112468899999999988765
Q ss_pred H
Q 001353 949 V 949 (1093)
Q Consensus 949 ~ 949 (1093)
.
T Consensus 71 ~ 71 (83)
T PF07536_consen 71 S 71 (83)
T ss_pred C
Confidence 4
No 218
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=46.07 E-value=42 Score=32.00 Aligned_cols=76 Identities=22% Similarity=0.215 Sum_probs=44.4
Q ss_pred cCccEEEECCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEEeeeccCCc
Q 001353 627 ATAPIFGVDSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRKFELQKQHS 706 (1093)
Q Consensus 627 ~~~~I~~~D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~~~~~kdG~ 706 (1093)
--+-+++.|.+|++++-+ ..+.+|+++. + .+ ...+++|+.. .... .|.
T Consensus 38 ~~~~i~v~D~~g~~l~~s----------~~~~iG~~~~-~----~~-------~~~aL~G~~~-----~~~~-----~~~ 85 (116)
T PF14827_consen 38 DIDYIVVTDRDGIVLAHS----------DPERIGDRYS-D----ED-------VRKALQGKSY-----TSVS-----QGT 85 (116)
T ss_dssp T-SEEEEECTTSBECE-S----------SCCCTTSB-S-S----CC-------HCHHCCT--E-----EEEE-----ECT
T ss_pred CCeEEEEEcCCCCEEEcC----------ChHHcCCccc-C----CC-------hhhhhcCCce-----EEee-----ecC
Confidence 345578889999988754 3456788766 2 11 2245555321 1111 133
Q ss_pred EEEEEEEEEEeecCCCCEEEEEEEEEec
Q 001353 707 VVYILVNACTSRDYKNNVKGVCFVGQDI 734 (1093)
Q Consensus 707 ~~~v~v~~~pi~d~~g~v~gv~~v~~DI 734 (1093)
.-+......|++|.+|+++|++.+...+
T Consensus 86 ~~~~~~~~~PV~d~~g~viG~V~VG~~~ 113 (116)
T PF14827_consen 86 GGPSLRAFAPVYDSDGKVIGVVSVGVSL 113 (116)
T ss_dssp TCEEEEEEEEEE-TTS-EEEEEEEEEEH
T ss_pred CceEEEEEEeeECCCCcEEEEEEEEEEc
Confidence 3556677889999999999999987654
No 219
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=45.90 E-value=1.1e+02 Score=37.56 Aligned_cols=100 Identities=14% Similarity=0.078 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHH-----HhCC-----CcchhccccCCCccc--eeeE
Q 001353 739 VLMDKFIRLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEK-----VTGW-----MRHEVIGITGQGTEN--FPFG 806 (1093)
Q Consensus 739 ~aEe~L~~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~-----l~G~-----~~eEliG~~~~~~~~--~e~~ 806 (1093)
+.+.-|+..+..+..+++.+......+++.|.+|.++..+-.-.. -+|+ -.|...|..+-.+-- -+.-
T Consensus 64 ~~~~LL~iA~~~L~~L~~~v~~~~~~vLLtD~~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~GTNgIGTcLve~~aV 143 (606)
T COG3284 64 RAEALLTIAQPELDRLFQAVAGSGCCVLLTDADGVILERRGDPRDDEDFRKAGLWLGAVWSEPREGTNGIGTCLVEGEAV 143 (606)
T ss_pred HHHHHHHHhHHHHHHHHHHhcCCCeEEEEEcCceeEEEeecChhhhhhhhhhccccccccccccccccchhhhhccCcce
Confidence 334445666777888888887776789999999999987554221 1221 133444422211111 1111
Q ss_pred EEcc----CCcEEEEEEEEeEeecCCCcEEEEEEEE
Q 001353 807 FFNR----QGQFVEVALTASRRTDAEGKVIGCFCFM 838 (1093)
Q Consensus 807 ~~~k----dG~~~~v~~~~~~i~d~~G~v~g~i~~~ 838 (1093)
...+ .-....+..++.|++|.+|+++|++-+.
T Consensus 144 tI~~~qHF~~~~~~lsCsAaPI~D~qG~L~gVLDIS 179 (606)
T COG3284 144 TIHGDQHFIQAHHGLSCSAAPIFDEQGELVGVLDIS 179 (606)
T ss_pred EEehhhhHhhcccCceeeeeccccCCCcEEEEEEec
Confidence 1111 1223456778999999999999887665
No 220
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=44.36 E-value=1.7e+02 Score=35.24 Aligned_cols=128 Identities=16% Similarity=0.171 Sum_probs=71.2
Q ss_pred eHHHHHHHHHHHHHHHhccCCeEEEeecCCCccceEEEecHHHHHHHHHHHHHHHHHc---CCCCCCeEEEEEEeCCccc
Q 001353 935 LLGNILDAVVSQVMVLLRDKNLHLLHDIPEEIKALSLNGDRIRLQLVLSDFLHCVVRH---APSPDGWVEIKVLPGLKLI 1011 (1093)
Q Consensus 935 ~L~~ll~~v~~~~~~~~~~~~i~l~~~~~~~lp~~~v~~D~~~L~qVl~nLl~NAik~---t~~~~g~I~I~v~~~~~~~ 1011 (1093)
.+...++++++.++..... ...++- +-...++--|. .++.+++.||+-| +.. ++.|.|.+...
T Consensus 237 ~l~~~v~~~i~fikrn~~~---~~~v~~---l~r~~v~dyP~---~alREai~NAv~HRDYs~~-~~~v~I~iydD---- 302 (467)
T COG2865 237 NLPEQVERAISFIKRNLNV---PYVVEG---LRRVEVWDYPL---EALREAIINAVIHRDYSIR-GRNVHIEIYDD---- 302 (467)
T ss_pred CHHHHHHHHHHHHHHhcCC---ceeecc---eeEeecccCCH---HHHHHHHHHHHHhhccccC-CCceEEEEECC----
Confidence 4566677777777665422 222221 00011211222 7899999999965 555 44788876544
Q ss_pred cCCCceeEEEEEEecCCCCCChhhHhhhcc--CCCC------------CCCCccchHHHHHHHHHHcCCE-EEEEeeCCe
Q 001353 1012 KDADQFVHVQFRLTHPGEGIPSHLIEDMYN--GRNQ------------WTTPEGLGLKLSRKLLIMMNGR-VRYVRENSK 1076 (1093)
Q Consensus 1012 ~~~~~~~~v~l~V~DnG~GIp~e~~~~IFe--~F~~------------~~~GtGLGL~ivr~ive~hgG~-I~v~S~~gg 1076 (1093)
. +.|+.+|.=.+.=....+.. ++-+ -...-|-|+.-++..++.||.. ..+.- +.
T Consensus 303 -------R--ieI~NPGgl~~gi~~~~l~~~~s~~RNp~LA~~l~~~~liE~~GSGi~rm~~~~~~~gl~~p~f~~--~~ 371 (467)
T COG2865 303 -------R--IEITNPGGLPPGITPEDLLKGRSKSRNPVLAKVLRDMGLIEERGSGIRRMFDLMEENGLPKPEFEE--DN 371 (467)
T ss_pred -------e--EEEECCCCCCCCCChhHcccCCCcccCHHHHHHHHHhhhHHHhCccHHHHHHHHHHcCCCCceeec--cC
Confidence 3 55667775443333333333 2322 1235688889999999988875 33333 33
Q ss_pred eEEEEEEeecC
Q 001353 1077 CYFVIDLELKT 1087 (1093)
Q Consensus 1077 t~F~v~LPlp~ 1087 (1093)
..|++.++.+.
T Consensus 372 ~~~~~~~~~~~ 382 (467)
T COG2865 372 DYVTVILHGKG 382 (467)
T ss_pred CeEEEEEeccc
Confidence 45566555543
No 221
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=43.70 E-value=42 Score=42.13 Aligned_cols=81 Identities=12% Similarity=0.166 Sum_probs=60.7
Q ss_pred CCCCcEEEecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCc---eEEEEEEEeeeccCCcEEEEE
Q 001353 635 DSSGTINGWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDK---NVELKLRKFELQKQHSVVYIL 711 (1093)
Q Consensus 635 D~dG~I~~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~---~~e~~l~~~~~~kdG~~~~v~ 711 (1093)
...+.+..+..++..++||-+.++||+++. .++|++|+..+.+..+.+++.+... .-.+++. ..+|.++.+.
T Consensus 338 TptClf~hVDeaAVp~LGyLPqDLIG~sil-~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~----aqNG~yv~ld 412 (1114)
T KOG3753|consen 338 TPTCLFQHVDEAAVPLLGYLPQDLIGTSIL-AFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFC----AQNGSYVRLD 412 (1114)
T ss_pred CCcceeeecchhhhhhhccCchhhhccchh-hhhcCCchHHHHHHHHHHHHhCCCCcccccceeee----ecCCcEEEEe
Confidence 456788899999999999999999999999 9999999999888888877644221 1223443 3478887776
Q ss_pred EEEEEeecC
Q 001353 712 VNACTSRDY 720 (1093)
Q Consensus 712 v~~~pi~d~ 720 (1093)
.......+.
T Consensus 413 TeWSsFVNP 421 (1114)
T KOG3753|consen 413 TEWSSFVNP 421 (1114)
T ss_pred chhhhccCh
Confidence 665554443
No 222
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=43.39 E-value=24 Score=44.18 Aligned_cols=49 Identities=12% Similarity=0.234 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHH-cCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhH
Q 001353 977 RLQLVLSDFLHCVVR-HAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLI 1036 (1093)
Q Consensus 977 ~L~qVl~nLl~NAik-~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~ 1036 (1093)
-|.+|+.+.+.||.. -..+.-..|.+.+..+.+ +++|.+||.|||-+..
T Consensus 53 Gl~ki~dEilvNaadk~rd~~m~~i~v~i~~e~~-----------~isv~nnGkGIPv~~H 102 (842)
T KOG0355|consen 53 GLYKIFDEILVNAADKQRDPKMNTIKVTIDKEKN-----------EISVYNNGKGIPVTIH 102 (842)
T ss_pred cHHHHHHHHhhcccccccCCCcceeEEEEccCCC-----------EEEEEeCCCcceeeec
Confidence 378999999999998 223323467777666655 7899999999996543
No 223
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=42.66 E-value=4.9e+02 Score=32.11 Aligned_cols=39 Identities=13% Similarity=0.038 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhcCCCCCceEEecCCCcEeechhhhHHHhCC
Q 001353 746 RLQGDYEAIIQSVNPLIPPIFASDENACCSEWNAAMEKVTGW 787 (1093)
Q Consensus 746 ~se~~lr~i~~~~~~li~~I~~~D~~g~i~~~N~a~~~l~G~ 787 (1093)
+.+..++.++.++|- ||+.+|.++.+.|+||-+..+|+-
T Consensus 72 ~~~~~~~~al~nmPi---Gii~~~e~~~veW~Npf~~~if~~ 110 (655)
T COG3887 72 QAEKSLEEALTNMPI---GIILFNETNKVEWVNPFASKIFNK 110 (655)
T ss_pred HHHHHHHHHHHhCCc---eEEEEcCCCceEEecHHHHHhcCh
Confidence 344556777888876 999999999999999999999964
No 224
>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=39.00 E-value=67 Score=30.96 Aligned_cols=44 Identities=18% Similarity=0.237 Sum_probs=33.5
Q ss_pred cceeeEEEccCCcEEEEEEEEeEeecCCCcEEEEEEEEeecccCcH
Q 001353 801 ENFPFGFFNRQGQFVEVALTASRRTDAEGKVIGCFCFMQILVPDLQ 846 (1093)
Q Consensus 801 ~~~e~~~~~kdG~~~~v~~~~~~i~d~~G~v~g~i~~~~DITe~k~ 846 (1093)
....+.-..++|+.. .-+...++|++|+++|++|+-.|+|.-.+
T Consensus 68 ~~~nY~~~~~~Gk~l--rSsT~~Ird~~g~~iG~LCIN~D~s~~~~ 111 (118)
T PF08348_consen 68 YIINYKTKTKDGKIL--RSSTFFIRDENGKLIGALCINFDISALEQ 111 (118)
T ss_pred ccccccccCCCCCEE--EEEEEEEECCCCCEEEEEEEEeccHHHHH
Confidence 444566678888654 44556789999999999999999997443
No 225
>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=38.80 E-value=35 Score=29.79 Aligned_cols=25 Identities=32% Similarity=0.549 Sum_probs=19.7
Q ss_pred EEEECCeEEEecCCCCHHHHHHHHH
Q 001353 447 ALYYGGRCWLVGVTPTESQLKDIAW 471 (1093)
Q Consensus 447 al~~~~~~~~~G~~p~~~~~~~l~~ 471 (1093)
+++.||++...|..|+.+++..+++
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 5688999999999999999887753
No 226
>PRK04158 transcriptional repressor CodY; Validated
Probab=36.26 E-value=6.2e+02 Score=27.87 Aligned_cols=48 Identities=8% Similarity=0.128 Sum_probs=37.6
Q ss_pred eEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHHHHHHHHHHHHHHHHH
Q 001353 347 ASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYACEFLVQAFSLQLYME 399 (1093)
Q Consensus 347 asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~~~~l~~~~~~~l~~~ 399 (1093)
=.+++||..+| ..-|-|+.-.+. ..+..+...++|..|.+.+++|..+
T Consensus 111 ~~tIvPI~ggG----eRLGTLvl~r~~-~~f~~dDliL~EyaATVVgLEIlR~ 158 (256)
T PRK04158 111 LTTIVPIIGGG----ERLGTLILARFD-KEFTDDDLILAEYAATVVGMEILRE 158 (256)
T ss_pred eEEEEEEecCC----eEEEEEEEEecC-CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 36789999888 777887777665 4455567889999999999998644
No 227
>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=34.18 E-value=23 Score=31.12 Aligned_cols=58 Identities=14% Similarity=0.106 Sum_probs=37.1
Q ss_pred cEEEEEEEEEEeecCCCCEEEEEEEEEecchhHHHHHHHHHHHHHHHHHHHhcCCCCC-ceEEecCCCcEeec
Q 001353 706 SVVYILVNACTSRDYKNNVKGVCFVGQDITHEKVLMDKFIRLQGDYEAIIQSVNPLIP-PIFASDENACCSEW 777 (1093)
Q Consensus 706 ~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~aEe~L~~se~~lr~i~~~~~~li~-~I~~~D~~g~i~~~ 777 (1093)
...++..-+.|+++.+|+++|++++-.++.. +..++......-. -+|++|.+|.++.-
T Consensus 10 ~~~~vi~~s~pi~~~~g~~~Gvv~~di~l~~--------------l~~~i~~~~~~~~g~~~ivd~~G~ii~h 68 (81)
T PF02743_consen 10 TGQPVITISVPIYDDDGKIIGVVGIDISLDQ--------------LSEIISNIKFGNNGYAFIVDKNGTIIAH 68 (81)
T ss_dssp TTEEEEEEEEEEEETTTEEEEEEEEEEEHHH--------------HHHHHTTSBBTTTBEEEEEETTSBBCE-
T ss_pred CCcEEEEEEEEEECCCCCEEEEEEEEeccce--------------eeeEEEeeEECCCEEEEEEECCCCEEEe
Confidence 4456777889999999999999987444332 2222333222111 37889999988764
No 228
>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]
Probab=27.54 E-value=33 Score=42.88 Aligned_cols=16 Identities=44% Similarity=0.723 Sum_probs=14.2
Q ss_pred hhhCCCeEEEEeecCCCC
Q 001353 244 KLTGYDRVMLYNFHDDDH 261 (1093)
Q Consensus 244 ~~~~~dRv~iy~f~~d~~ 261 (1093)
.|||++||+| ||||||
T Consensus 614 NLTgAnRVII--fDPdWN 629 (923)
T KOG0387|consen 614 NLTGANRVII--FDPDWN 629 (923)
T ss_pred ccccCceEEE--ECCCCC
Confidence 5899999999 589997
No 229
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=25.88 E-value=87 Score=36.92 Aligned_cols=18 Identities=17% Similarity=0.331 Sum_probs=13.9
Q ss_pred EEEEEEecCCCCCChhhH
Q 001353 1019 HVQFRLTHPGEGIPSHLI 1036 (1093)
Q Consensus 1019 ~v~l~V~DnG~GIp~e~~ 1036 (1093)
.-.+.|.|+|+||..+.+
T Consensus 141 ~klLhi~DtGiGMT~edL 158 (785)
T KOG0020|consen 141 KKLLHITDTGIGMTREDL 158 (785)
T ss_pred hCeeeEecccCCccHHHH
Confidence 446888899999986543
No 230
>COG0813 DeoD Purine-nucleoside phosphorylase [Nucleotide transport and metabolism]
Probab=25.52 E-value=67 Score=34.18 Aligned_cols=53 Identities=25% Similarity=0.331 Sum_probs=39.3
Q ss_pred eEEEecHHHHHHHHHHHHHHHHHcCCCCCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCCh
Q 001353 969 LSLNGDRIRLQLVLSDFLHCVVRHAPSPDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPS 1033 (1093)
Q Consensus 969 ~~v~~D~~~L~qVl~nLl~NAik~t~~~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~ 1033 (1093)
+.+.|||.|-.-+-.+++.|++.+... .|-.-.+-...+. .++|.-.|.|||.
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 567899999999999999999999865 3443333333333 5777788999985
No 231
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=24.15 E-value=2.2e+02 Score=34.06 Aligned_cols=119 Identities=22% Similarity=0.232 Sum_probs=82.7
Q ss_pred HHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccC----CccCCCCchHHH-HHhHhcCCeEEEecCCC
Q 001353 233 LLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLG----IHFPANDIPQAA-RFLFKQNRVRMICDCHA 307 (1093)
Q Consensus 233 ~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg----~~~p~~dip~~~-r~l~~~~~~r~i~d~~~ 307 (1093)
+=|..+++-|++.+|.|=|.| .-+..+-.+.| .|.|.++|-..+ |.--..|.+- ..|-.+
T Consensus 225 es~~~va~Ii~~~~~~~AVai--------------Td~e~ilA~vg~g~dhhi~g~~i~s~~t~~ai~~g~vv-~~~~~e 289 (557)
T COG3275 225 ESLMKVAEIIYEELGAGAVAI--------------TDREKLLAFVGIGDDHHIPGKPIISSLTRKAIKTGEVV-YADGNE 289 (557)
T ss_pred hhHHHHHHHHHHHhCCCeEEe--------------cCHHHHHHhhcccccccCCCCeeccHHHHHHHhhCCEE-EEccch
Confidence 445667777888899887654 33444444544 477888875444 6666667663 333322
Q ss_pred CCcccccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEeecCCCCCCCchHHHHHHH
Q 001353 308 IPVMVIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVCHHTSPRYIPFPLRYACEF 387 (1093)
Q Consensus 308 ~~~~l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~h~~~p~~~~~~~r~~~~~ 387 (1093)
. .. |. -.-||+ .|.+++|+--+| +.=|-|=---+.|+.++.-.|.+.+-
T Consensus 290 ~-~~---------------cs---h~~c~l--------~s~lViPL~~~g----~ViGTiK~y~~~~~lis~~~r~la~G 338 (557)
T COG3275 290 V-YE---------------CS---HPTCKL--------GSALVIPLRGKG----RVIGTIKLYEAKARLISSINRELAEG 338 (557)
T ss_pred h-hc---------------cC---CCCCCc--------CCceEeecccCC----ceeeeEEEEeccHhHhhHHHHHHHHH
Confidence 2 10 00 013454 889999997555 88898888888999999999999999
Q ss_pred HHHHHHHHHH
Q 001353 388 LVQAFSLQLY 397 (1093)
Q Consensus 388 l~~~~~~~l~ 397 (1093)
+++.+|.|+.
T Consensus 339 ia~l~SaQie 348 (557)
T COG3275 339 IAQLLSAQIE 348 (557)
T ss_pred HHHHHHHHHH
Confidence 9999999985
No 232
>KOG0019 consensus Molecular chaperone (HSP90 family) [Posttranslational modification, protein turnover, chaperones]
Probab=24.08 E-value=68 Score=39.02 Aligned_cols=74 Identities=11% Similarity=0.166 Sum_probs=44.7
Q ss_pred HHHHHHHHHHH------HcC----CC-CCCeEEEEEEeCCccccCCCceeEEEEEEecCCCCCChhhHhh----hccCCC
Q 001353 980 LVLSDFLHCVV------RHA----PS-PDGWVEIKVLPGLKLIKDADQFVHVQFRLTHPGEGIPSHLIED----MYNGRN 1044 (1093)
Q Consensus 980 qVl~nLl~NAi------k~t----~~-~~g~I~I~v~~~~~~~~~~~~~~~v~l~V~DnG~GIp~e~~~~----IFe~F~ 1044 (1093)
.-+.+|++||- +|. |. .+....|++.+..+ .-.++|.|+|+||..+++-. |-....
T Consensus 60 vFlRELISNaSDAldKiRy~~lt~~~~~~~~l~I~i~~nk~---------~~tlti~DtGIGMTk~dLvnnLGTIAkSGt 130 (656)
T KOG0019|consen 60 VFLRELISNASDALEKLRYLELKGDEKALPELEIRIITNKD---------KRTITIQDTGIGMTKEDLVNNLGTIAKSGS 130 (656)
T ss_pred HHHHhhhccccchHHHHHHHhhcCccccccceeEEeccCCC---------cceEEEEecCCCcCHHHHHhhhhhhhhccc
Confidence 44567777773 331 11 13467777777766 66789999999999765532 111110
Q ss_pred C--------------CCCCccchHHHHHHHHH
Q 001353 1045 Q--------------WTTPEGLGLKLSRKLLI 1062 (1093)
Q Consensus 1045 ~--------------~~~GtGLGL~ivr~ive 1062 (1093)
. -.+.-|+|.+.+.-.++
T Consensus 131 K~Fmealkea~ad~~~IGQFGvGFYSaylVAd 162 (656)
T KOG0019|consen 131 KAFLEALKEAEAESNLIGQFGVGFYSAFMVAD 162 (656)
T ss_pred HHHHHHHHhcccchhhhhhcccchhhhhhhhh
Confidence 0 12357899987766544
No 233
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.20 E-value=2.1e+02 Score=29.80 Aligned_cols=104 Identities=9% Similarity=-0.012 Sum_probs=74.5
Q ss_pred HHHHhcCccEEEE-CCCCcEE--EecHHHHHhcCCCccccCCCCccccccccccHHHHHHHHHHHHcCCCCceEEEEEEE
Q 001353 622 RLIETATAPIFGV-DSSGTIN--GWNAKVAELTGLPASEAMGKSLIDEVVHEESQGAVENLICRALLGEEDKNVELKLRK 698 (1093)
Q Consensus 622 ~lie~~~~~I~~~-D~dG~I~--~~N~~~~~llG~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g~~~~~~e~~l~~ 698 (1093)
.+-...++-+++- |.+|.+. -+-...|.+|| .|+.|+++. .++.+.+.....+++..+.+...+.-+....
T Consensus 52 ~l~slL~d~FiL~~~~~G~~~FRLAGTriC~LfG---RELr~~~F~-sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg-- 125 (209)
T COG5388 52 KLKSLLPDVFILERDGRGKLPFRLAGTRICDLFG---RELRGRDFL-SLWAEADRLELKRAADGVRKRRTPVLVTADG-- 125 (209)
T ss_pred HHHhhcCceEEEeccCCCCceEEecccchhhhhc---hhhcCCchh-HhccccchHHHHHHHHHHhhccCceEEecch--
Confidence 3445566666554 4446654 45677788888 578899998 9999999999999998888776664443333
Q ss_pred eeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEe
Q 001353 699 FELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQD 733 (1093)
Q Consensus 699 ~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~D 733 (1093)
....|...-+++-..|.....|+...+++.+.-
T Consensus 126 --~s~~G~sl~fEmLl~PL~~~~g~~~R~LGais~ 158 (209)
T COG5388 126 --RSHGGRSLGFEMLLAPLQGASGETDRFLGAISP 158 (209)
T ss_pred --hhccCcccceeeeeecccCCCCCccchhhhccc
Confidence 344677788899999999888886666666443
No 234
>PF05651 Diacid_rec: Putative sugar diacid recognition; InterPro: IPR008599 This region is found in several proteins characterised as carbohydrate diacid regulators (e.g. P36047 from SWISSPROT). An HTH DNA-binding motif is found at the C terminus of these proteins suggesting that this region includes the sugar recognition region.
Probab=21.46 E-value=8e+02 Score=24.25 Aligned_cols=87 Identities=16% Similarity=0.409 Sum_probs=58.3
Q ss_pred HHHHHHHHHHHHhhhCCCeEEEEeecCCCCceEEEEecCCCCCCccCCccCCCCchHHHHHhHhcCCeEEEecCCCCCcc
Q 001353 232 GLLCDTVVEDVQKLTGYDRVMLYNFHDDDHGEVVSEIRRSDLEPYLGIHFPANDIPQAARFLFKQNRVRMICDCHAIPVM 311 (1093)
Q Consensus 232 ~~~~~~~~~~vr~~~~~dRv~iy~f~~d~~G~vvaE~~~~~~~~~lg~~~p~~dip~~~r~l~~~~~~r~i~d~~~~~~~ 311 (1093)
.++.+..|+++.+.+||+ |-|. |.+|.+||-+-... +| .+=+.|++.-..++...|..
T Consensus 3 ~~~Aq~Iv~~~~~~i~~~-inim----d~~G~IIAStd~~R----IG------~~HegA~~~i~~~~~~~i~~------- 60 (135)
T PF05651_consen 3 KELAQKIVDEIMEIIGYN-INIM----DENGIIIASTDPER----IG------TFHEGAKEVIRTNKEIEITE------- 60 (135)
T ss_pred HHHHHHHHHHHHHHcCCC-EEEE----CCCcEEEecCChhh----cC------ccCHHHHHHHHcCCcccccH-------
Confidence 468899999999999998 4443 78999999765554 34 22345565555554322211
Q ss_pred cccccccCCCccccCccccCCChhHHHHHHhcCceeEEEEEEEEcCCCCcceeEEEEe
Q 001353 312 VIQSKELKQPLCLVNSTLRSPHGCHLQYMTNMGSIASLVMAVIINSKDSMKLWGLVVC 369 (1093)
Q Consensus 312 l~~~~~~~~~ldl~~s~lRs~s~~h~~yl~n~~v~asl~~~i~~~~~~~~~LWGl~~~ 369 (1093)
...+-+. |++.-..+||.++| +.=|.|.-
T Consensus 61 -----------------------~~~~~~~--g~k~GinlPI~~~g----~~iGviGI 89 (135)
T PF05651_consen 61 -----------------------EDAEQYP--GVKPGINLPIIFNG----EVIGVIGI 89 (135)
T ss_pred -----------------------hHHhhcc--CCCcceeeeEEECC----EEEEEEEE
Confidence 1111122 88888999999999 99997764
No 235
>PF12282 H_kinase_N: Signal transduction histidine kinase; InterPro: IPR022066 This domain is found in bacteria. This domain is about 150 amino acids in length. This domain is found associated with PF07568 from PFAM, PF08448 from PFAM, PF02518 from PFAM. This domain has a single completely conserved residue P that may be functionally important. This family is mostly annotated as a histidine kinase involved in signal transduction but there is little published evidence to support this. ; PDB: 2YKH_B 2YKF_A.
Probab=21.34 E-value=5.5e+02 Score=25.64 Aligned_cols=111 Identities=15% Similarity=0.098 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHHH--hcCccEEEECCCCcEEEecHHHHHhcC--CCccccCCCCccccccccccHHHHHHHHHHHHcC
Q 001353 611 DELSSVACEMVRLIE--TATAPIFGVDSSGTINGWNAKVAELTG--LPASEAMGKSLIDEVVHEESQGAVENLICRALLG 686 (1093)
Q Consensus 611 ~eL~~~~~~l~~lie--~~~~~I~~~D~dG~I~~~N~~~~~llG--~~~eeliG~~~~~~lv~~~~~~~~~~~l~~~l~g 686 (1093)
+.|......+..+-+ .+...+|+.+.+|..+-+ ..+.--++ .-.++++|+... ....+ .+.+++++
T Consensus 18 ~~L~~l~~~wql~ADLs~aDl~l~v~~~~~~~vvv-A~~rP~t~~t~y~~dvVG~~~~-----~~~ep----~v~~a~~t 87 (145)
T PF12282_consen 18 EWLQRLVADWQLLADLSFADLFLWVPTKDGNAVVV-AQARPSTAPTLYPDDVVGKVAL-----RENEP----AVDRALET 87 (145)
T ss_dssp HHHHHHHHHTHHHHHHHTSEEEEEEE-TTS-EEEE-EEE--SSS--S--S--TT-EE------GGGSH----HHHHHHH-
T ss_pred HHHHHHHHHHHHHHHhhcCCEEEEEEcCCCCEEEE-EEeCCCCCCCCCCCCCCCCccC-----ccccH----HHHHHHHh
Confidence 345555555555444 344455556777753322 12222233 234566677654 22223 34444544
Q ss_pred CCCceEEEEEEEeeeccCCcEEEEEEEEEEeecCCCCEEEEEEEEEecchhHH
Q 001353 687 EEDKNVELKLRKFELQKQHSVVYILVNACTSRDYKNNVKGVCFVGQDITHEKV 739 (1093)
Q Consensus 687 ~~~~~~e~~l~~~~~~kdG~~~~v~v~~~pi~d~~g~v~gv~~v~~DITerK~ 739 (1093)
+......- ....+...+..+..|+++.+ +++|++..-.|+...+.
T Consensus 88 g~~~~~~~-------~~~~~~~~v~~~~~PI~~~~-~vIaVl~~~~~~~~~~~ 132 (145)
T PF12282_consen 88 GRPVRGGR-------AVWQGGVPVRQEVVPIRRNG-RVIAVLIRETNLSASRT 132 (145)
T ss_dssp ------------------------EEEEEEEEETT-EEEEEEEEE--GGGS--
T ss_pred CCceecCC-------ccccCCceeEEEEEEEEECC-EEEEEEEEEcccccccC
Confidence 43311110 11233447788999999865 89898886666665443
Done!