Query 005591
Match_columns 689
No_of_seqs 510 out of 4066
Neff 8.9
Searched_HMMs 46136
Date Fri Mar 29 01:52:11 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005591.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/005591hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2205 KdpD Osmosensitive K+ 100.0 1.2E-43 2.6E-48 384.5 48.5 392 177-644 488-884 (890)
2 PRK11091 aerobic respiration c 100.0 1.8E-38 4E-43 375.0 46.3 265 393-685 277-543 (779)
3 PRK10618 phosphotransfer inter 100.0 1E-38 2.2E-43 372.2 36.2 275 382-685 433-707 (894)
4 PRK10490 sensor protein KdpD; 100.0 1.6E-36 3.6E-41 357.4 51.7 387 180-641 494-884 (895)
5 PRK13837 two-component VirA-li 100.0 2.1E-35 4.5E-40 349.2 54.6 446 185-684 263-714 (828)
6 PRK10841 hybrid sensory kinase 100.0 6.3E-36 1.4E-40 354.0 36.1 238 383-641 431-669 (924)
7 TIGR02956 TMAO_torS TMAO reduc 100.0 2.1E-35 4.5E-40 357.9 39.1 272 385-686 450-721 (968)
8 PRK15347 two component system 100.0 6.6E-35 1.4E-39 351.8 36.9 242 377-642 376-617 (921)
9 PRK11107 hybrid sensory histid 100.0 2.1E-34 4.5E-39 347.5 40.6 283 377-685 271-554 (919)
10 PRK11466 hybrid sensory histid 100.0 1.3E-34 2.9E-39 348.5 36.8 277 376-685 421-699 (914)
11 TIGR02916 PEP_his_kin putative 100.0 2.9E-32 6.3E-37 316.0 50.3 366 201-638 307-679 (679)
12 COG5002 VicK Signal transducti 100.0 1.1E-35 2.4E-40 291.8 18.3 226 396-643 222-452 (459)
13 PRK09303 adaptive-response sen 100.0 2.8E-33 6E-38 302.3 31.7 241 378-640 130-378 (380)
14 PRK09959 hybrid sensory histid 100.0 5.1E-32 1.1E-36 334.6 34.0 278 384-684 697-975 (1197)
15 COG4251 Bacteriophytochrome (l 100.0 6.9E-31 1.5E-35 276.4 33.9 261 340-643 481-745 (750)
16 PRK11006 phoR phosphate regulo 100.0 5.5E-29 1.2E-33 274.1 38.3 220 398-641 203-425 (430)
17 COG3275 LytS Putative regulato 100.0 2.4E-28 5.2E-33 250.0 38.1 500 16-643 23-555 (557)
18 KOG0519 Sensory transduction h 100.0 7.2E-33 1.6E-37 319.2 1.0 631 53-684 27-683 (786)
19 COG4191 Signal transduction hi 100.0 8.9E-29 1.9E-33 261.6 30.6 214 397-639 382-601 (603)
20 TIGR02938 nifL_nitrog nitrogen 100.0 1E-28 2.3E-33 276.5 29.8 219 396-639 273-494 (494)
21 PRK10364 sensor protein ZraS; 100.0 1.7E-26 3.7E-31 256.4 46.5 215 396-641 234-450 (457)
22 PRK10604 sensor protein RstB; 100.0 3.4E-28 7.4E-33 267.7 30.2 231 381-641 194-425 (433)
23 COG3852 NtrB Signal transducti 100.0 2.4E-28 5.2E-33 237.4 22.8 222 397-641 130-356 (363)
24 PRK10815 sensor protein PhoQ; 100.0 1.1E-27 2.3E-32 266.3 30.2 229 383-640 250-479 (485)
25 PRK10755 sensor protein BasS/P 100.0 1.4E-26 3E-31 248.7 28.8 212 399-640 137-351 (356)
26 PRK10549 signal transduction h 100.0 1.4E-26 3E-31 257.9 29.8 241 377-641 218-460 (466)
27 TIGR03785 marine_sort_HK prote 100.0 2.4E-26 5.2E-31 265.4 30.7 239 377-638 463-703 (703)
28 TIGR01386 cztS_silS_copS heavy 99.9 1.4E-25 2.9E-30 249.2 29.1 237 376-638 218-457 (457)
29 PRK09835 sensor kinase CusS; P 99.9 2.8E-25 6E-30 248.6 31.5 238 377-639 240-480 (482)
30 PRK13557 histidine kinase; Pro 99.9 2.5E-25 5.5E-30 252.3 31.6 265 398-684 162-432 (540)
31 TIGR02966 phoR_proteo phosphat 99.9 1.2E-25 2.7E-30 238.2 26.8 216 399-637 114-333 (333)
32 PRK09470 cpxA two-component se 99.9 3.2E-25 6.9E-30 246.6 30.9 238 376-640 220-458 (461)
33 PRK11100 sensory histidine kin 99.9 4.2E-25 9E-30 246.5 30.2 219 398-640 255-474 (475)
34 PRK11073 glnL nitrogen regulat 99.9 3.4E-25 7.3E-30 237.1 28.0 217 398-639 129-347 (348)
35 PRK10337 sensor protein QseC; 99.9 7.5E-25 1.6E-29 242.8 30.3 232 378-637 216-449 (449)
36 PRK09467 envZ osmolarity senso 99.9 6E-25 1.3E-29 242.6 28.8 228 377-640 207-434 (435)
37 COG5000 NtrY Signal transducti 99.9 4.1E-23 9E-28 217.6 34.3 212 398-639 485-708 (712)
38 PRK10600 nitrate/nitrite senso 99.9 2.4E-21 5.3E-26 220.8 52.1 350 184-641 205-558 (569)
39 PRK11360 sensory histidine kin 99.9 4.7E-24 1E-28 245.0 29.5 214 398-641 389-603 (607)
40 PRK11644 sensory histidine kin 99.9 9.1E-23 2E-27 226.8 32.6 249 342-639 244-494 (495)
41 COG0642 BaeS Signal transducti 99.9 1.8E-22 3.8E-27 212.7 30.3 218 398-642 114-332 (336)
42 PRK13560 hypothetical protein; 99.9 1.1E-22 2.5E-27 242.0 25.2 209 386-640 592-804 (807)
43 COG3850 NarQ Signal transducti 99.9 1.1E-19 2.3E-24 190.1 41.8 339 178-639 225-568 (574)
44 COG4192 Signal transduction hi 99.9 5.8E-21 1.2E-25 194.2 26.6 212 398-639 450-666 (673)
45 PRK11086 sensory histidine kin 99.9 1.3E-20 2.9E-25 214.0 22.4 193 401-641 341-537 (542)
46 COG3290 CitA Signal transducti 99.9 1.5E-17 3.2E-22 176.0 41.3 195 401-642 335-534 (537)
47 PRK15053 dpiB sensor histidine 99.8 1E-19 2.2E-24 206.8 24.8 193 403-640 342-540 (545)
48 PRK10935 nitrate/nitrite senso 99.8 1.3E-16 2.9E-21 182.2 45.9 188 406-640 367-560 (565)
49 PRK13559 hypothetical protein; 99.8 4.2E-18 9.2E-23 183.2 21.2 185 399-640 170-360 (361)
50 COG3851 UhpB Signal transducti 99.8 2.3E-16 4.9E-21 156.7 28.9 245 345-638 248-493 (497)
51 PF02518 HATPase_c: Histidine 99.8 1.1E-18 2.4E-23 154.1 9.9 109 510-639 1-110 (111)
52 COG4585 Signal transduction hi 99.7 1.8E-15 3.9E-20 162.7 28.0 195 397-639 169-365 (365)
53 PRK10547 chemotaxis protein Ch 99.7 5E-15 1.1E-19 166.7 23.1 147 472-642 343-526 (670)
54 COG4564 Signal transduction hi 99.6 3.6E-11 7.9E-16 118.6 36.3 202 396-641 248-449 (459)
55 COG0643 CheA Chemotaxis protei 99.5 5.8E-13 1.3E-17 150.7 19.8 148 471-642 389-576 (716)
56 COG3920 Signal transduction hi 99.5 2.6E-11 5.5E-16 119.5 26.7 195 398-641 18-217 (221)
57 smart00387 HATPase_c Histidine 99.4 2.7E-12 5.8E-17 111.9 13.0 110 510-640 1-111 (111)
58 PRK04184 DNA topoisomerase VI 99.4 2.2E-12 4.9E-17 140.4 14.3 147 508-678 30-185 (535)
59 COG2972 Predicted signal trans 99.4 6.6E-11 1.4E-15 130.7 24.6 181 406-641 266-454 (456)
60 KOG0519 Sensory transduction h 99.3 1.3E-12 2.8E-17 151.7 3.6 240 402-644 224-493 (786)
61 cd00075 HATPase_c Histidine ki 99.2 1.4E-10 3E-15 99.4 10.8 101 515-637 1-103 (103)
62 PRK15429 formate hydrogenlyase 99.2 4.7E-09 1E-13 121.9 24.4 187 186-386 172-365 (686)
63 PRK14868 DNA topoisomerase VI 99.1 4.1E-10 8.8E-15 125.2 14.0 131 491-642 22-162 (795)
64 TIGR01925 spIIAB anti-sigma F 99.1 6.2E-10 1.4E-14 102.0 12.4 97 511-637 36-136 (137)
65 TIGR01052 top6b DNA topoisomer 99.1 4.2E-10 9.1E-15 121.5 11.9 105 508-633 22-134 (488)
66 PRK03660 anti-sigma F factor; 99.1 1.5E-09 3.1E-14 100.7 13.1 103 511-643 36-142 (146)
67 PF00512 HisKA: His Kinase A ( 99.1 1.1E-09 2.5E-14 86.9 9.7 65 399-463 2-68 (68)
68 PRK11061 fused phosphoenolpyru 99.0 2.4E-08 5.2E-13 115.5 23.8 160 199-372 3-164 (748)
69 PRK14867 DNA topoisomerase VI 99.0 1.5E-09 3.1E-14 120.8 12.2 111 512-642 34-152 (659)
70 PRK04069 serine-protein kinase 98.9 1.2E-08 2.7E-13 95.9 12.9 107 511-645 39-149 (161)
71 KOG0787 Dehydrogenase kinase [ 98.9 3.9E-07 8.6E-12 92.5 21.8 189 433-643 173-384 (414)
72 TIGR01817 nifA Nif-specific re 98.8 2.9E-07 6.3E-12 104.0 20.3 158 198-369 4-163 (534)
73 PF13492 GAF_3: GAF domain; PD 98.7 1.9E-07 4E-12 84.0 13.0 129 213-364 1-129 (129)
74 TIGR01924 rsbW_low_gc serine-p 98.7 2.5E-07 5.4E-12 86.8 12.1 104 512-643 40-147 (159)
75 PF01590 GAF: GAF domain; Int 98.6 3E-07 6.6E-12 85.4 10.5 136 213-362 1-154 (154)
76 COG3605 PtsP Signal transducti 98.5 3.4E-06 7.4E-11 90.1 17.5 154 201-368 5-160 (756)
77 PF14501 HATPase_c_5: GHKL dom 98.5 2.8E-06 6E-11 73.1 12.6 95 511-638 2-100 (100)
78 PRK05022 anaerobic nitric oxid 98.4 1.2E-05 2.5E-10 90.3 19.3 165 199-378 4-172 (509)
79 PRK15429 formate hydrogenlyase 98.4 8.4E-06 1.8E-10 95.0 18.5 171 198-383 8-182 (686)
80 smart00065 GAF Domain present 98.3 1.7E-05 3.6E-10 71.6 14.0 142 213-369 1-146 (149)
81 smart00388 HisKA His Kinase A 98.2 6.4E-06 1.4E-10 64.0 8.8 63 399-461 2-64 (66)
82 PF13581 HATPase_c_2: Histidin 98.2 1E-05 2.3E-10 72.6 10.3 93 511-636 28-124 (125)
83 PF13185 GAF_2: GAF domain; PD 98.2 1.5E-05 3.3E-10 73.3 11.5 134 213-363 3-148 (148)
84 COG1389 DNA topoisomerase VI, 98.1 1.6E-05 3.5E-10 82.9 10.3 115 511-644 33-155 (538)
85 TIGR00585 mutl DNA mismatch re 97.9 7.9E-05 1.7E-09 78.2 11.2 97 513-636 21-125 (312)
86 COG2172 RsbW Anti-sigma regula 97.8 0.0002 4.2E-09 65.7 11.4 89 511-629 37-130 (146)
87 cd00082 HisKA Histidine Kinase 97.8 0.00011 2.5E-09 56.4 8.6 62 398-459 3-65 (65)
88 COG3604 FhlA Transcriptional r 97.6 0.0018 3.9E-08 69.3 16.0 176 198-387 33-213 (550)
89 COG2203 FhlA FOG: GAF domain [ 97.3 0.00034 7.3E-09 65.2 5.3 158 199-370 4-170 (175)
90 PRK00095 mutL DNA mismatch rep 97.3 0.0012 2.5E-08 75.7 10.3 86 513-625 21-113 (617)
91 PRK13558 bacterio-opsin activa 97.3 0.01 2.3E-07 69.4 18.5 144 200-363 289-436 (665)
92 PF13589 HATPase_c_3: Histidin 97.1 0.00012 2.7E-09 66.7 0.5 100 516-640 4-108 (137)
93 COG0323 MutL DNA mismatch repa 95.8 0.0082 1.8E-07 68.7 4.2 60 514-595 23-82 (638)
94 PRK05559 DNA topoisomerase IV 95.7 0.022 4.7E-07 65.3 7.2 83 511-614 34-130 (631)
95 PRK05644 gyrB DNA gyrase subun 95.4 0.04 8.6E-07 63.2 7.8 81 511-614 34-130 (638)
96 TIGR02851 spore_V_T stage V sp 94.9 0.47 1E-05 45.2 12.2 125 212-362 52-179 (180)
97 PF07568 HisKA_2: Histidine ki 94.7 0.39 8.4E-06 38.7 9.5 72 406-486 2-73 (76)
98 COG5385 Uncharacterized protei 94.6 3.6 7.8E-05 37.7 17.6 192 402-637 18-212 (214)
99 PRK05218 heat shock protein 90 94.5 0.099 2.1E-06 59.9 7.9 55 567-625 74-141 (613)
100 PF11849 DUF3369: Domain of un 94.5 2.3 4.9E-05 40.4 16.1 150 187-372 10-172 (174)
101 TIGR01055 parE_Gneg DNA topois 94.1 0.13 2.8E-06 58.9 7.8 79 514-615 30-124 (625)
102 TIGR01059 gyrB DNA gyrase, B s 94.0 0.16 3.5E-06 58.7 8.3 81 511-614 27-123 (654)
103 PTZ00272 heat shock protein 83 93.8 0.049 1.1E-06 62.6 3.5 20 566-585 72-91 (701)
104 COG1956 GAF domain-containing 93.7 2.5 5.5E-05 38.7 13.5 123 216-360 35-158 (163)
105 COG0326 HtpG Molecular chapero 93.3 0.11 2.3E-06 58.0 5.1 45 519-583 32-91 (623)
106 PRK14083 HSP90 family protein; 93.1 0.048 1E-06 61.8 2.0 49 517-586 26-83 (601)
107 COG5381 Uncharacterized protei 91.5 0.31 6.6E-06 43.4 4.6 31 515-545 64-94 (184)
108 smart00433 TOP2c Topoisomerase 91.0 0.3 6.5E-06 55.8 5.2 76 515-613 2-93 (594)
109 PF04340 DUF484: Protein of un 90.9 2.1 4.6E-05 42.5 10.7 162 176-363 51-221 (225)
110 PTZ00130 heat shock protein 90 90.8 0.24 5.2E-06 57.4 4.2 18 567-584 136-153 (814)
111 PF10090 DUF2328: Uncharacteri 90.2 18 0.00038 34.6 17.9 169 416-625 3-174 (182)
112 PRK14939 gyrB DNA gyrase subun 88.3 0.43 9.3E-06 55.5 3.9 46 513-581 36-84 (756)
113 KOG1979 DNA mismatch repair pr 87.9 0.68 1.5E-05 50.7 4.7 60 514-595 27-86 (694)
114 KOG1978 DNA mismatch repair pr 86.8 0.68 1.5E-05 51.8 4.1 57 515-593 21-77 (672)
115 PRK10963 hypothetical protein; 86.2 37 0.0008 33.6 16.5 65 176-241 48-116 (223)
116 TIGR01058 parE_Gpos DNA topois 84.4 0.97 2.1E-05 51.9 4.0 48 511-581 31-81 (637)
117 PF14689 SPOB_a: Sensor_kinase 83.7 5.3 0.00011 30.7 6.6 44 403-450 16-59 (62)
118 COG4251 Bacteriophytochrome (l 83.6 32 0.00069 38.8 14.8 48 207-254 141-188 (750)
119 PTZ00108 DNA topoisomerase 2-l 79.2 2.5 5.4E-05 52.4 5.1 101 514-638 57-175 (1388)
120 KOG1977 DNA mismatch repair pr 78.2 2.5 5.4E-05 47.4 4.2 58 513-593 20-77 (1142)
121 PLN03237 DNA topoisomerase 2; 76.0 4.7 0.0001 50.0 6.1 82 513-616 76-174 (1465)
122 PHA02569 39 DNA topoisomerase 73.5 2.4 5.2E-05 48.4 2.8 50 567-616 80-144 (602)
123 PLN03128 DNA topoisomerase 2; 71.1 6.2 0.00013 48.3 5.5 102 513-638 51-167 (1135)
124 PF07694 5TM-5TMR_LYT: 5TMR of 70.5 35 0.00075 31.9 9.6 75 83-162 85-161 (169)
125 PF07730 HisKA_3: Histidine ki 68.9 42 0.0009 25.8 8.2 56 399-454 2-59 (68)
126 COG5393 Predicted membrane pro 68.0 69 0.0015 27.7 9.4 51 107-163 54-104 (131)
127 PTZ00109 DNA gyrase subunit b; 63.9 1.5 3.3E-05 51.4 -1.4 49 511-582 126-177 (903)
128 PF06018 CodY: CodY GAF-like d 63.8 1.4E+02 0.0029 28.4 12.2 40 325-365 117-156 (177)
129 PRK10263 DNA translocase FtsK; 62.7 3.4E+02 0.0073 34.1 17.4 16 81-96 77-92 (1355)
130 COG0187 GyrB Type IIA topoisom 58.3 2 4.3E-05 48.0 -1.6 79 513-614 35-129 (635)
131 COG1620 LldP L-lactate permeas 57.9 39 0.00085 37.4 8.0 76 80-166 183-259 (522)
132 PF07851 TMPIT: TMPIT-like pro 57.8 2.4E+02 0.0052 29.6 13.4 68 390-459 25-92 (330)
133 PF10066 DUF2304: Uncharacteri 54.7 1.5E+02 0.0032 25.9 10.8 9 94-102 19-27 (115)
134 PF14248 DUF4345: Domain of un 53.8 95 0.0021 27.4 8.7 65 83-150 50-114 (124)
135 PF02652 Lactate_perm: L-lacta 53.7 57 0.0012 36.7 8.8 79 74-163 175-253 (522)
136 PF07536 HWE_HK: HWE histidine 52.9 50 0.0011 27.0 6.2 69 406-486 2-70 (83)
137 PRK05415 hypothetical protein; 51.9 2.6E+02 0.0057 29.5 12.6 83 144-227 102-196 (341)
138 COG3462 Predicted membrane pro 51.3 1.2E+02 0.0027 25.9 8.1 62 105-166 7-73 (117)
139 COG4587 ABC-type uncharacteriz 48.4 1.2E+02 0.0026 30.3 8.9 80 72-152 103-188 (268)
140 COG3159 Uncharacterized protei 48.0 2E+02 0.0044 28.0 10.1 64 177-240 50-117 (218)
141 PF06103 DUF948: Bacterial pro 45.5 1.7E+02 0.0037 24.0 9.5 53 158-210 12-65 (90)
142 PF10011 DUF2254: Predicted me 45.0 3.1E+02 0.0068 29.4 12.5 106 75-186 51-168 (371)
143 PF10131 PTPS_related: 6-pyruv 43.8 1.8E+02 0.0038 33.7 11.0 56 73-129 69-124 (616)
144 PF07495 Y_Y_Y: Y_Y_Y domain; 42.9 33 0.00071 26.2 3.5 44 297-340 2-53 (66)
145 PF14965 BRI3BP: Negative regu 42.7 1.5E+02 0.0032 27.9 8.0 35 162-196 142-176 (177)
146 TIGR00799 mtp Golgi 4-transmem 42.1 2E+02 0.0044 28.2 9.1 88 73-168 56-158 (258)
147 PF15449 Retinal: Retinal prot 41.3 5.6E+02 0.012 31.3 14.0 46 511-585 323-368 (1287)
148 KOG0355 DNA topoisomerase type 41.3 41 0.0009 39.1 5.2 63 511-593 50-121 (842)
149 PF03591 AzlC: AzlC protein; 40.9 2.8E+02 0.0061 25.2 10.0 48 83-133 3-50 (143)
150 PF06305 DUF1049: Protein of u 39.9 1.3E+02 0.0029 23.0 6.6 15 181-195 50-64 (68)
151 PF06580 His_kinase: Histidine 39.5 1.7E+02 0.0036 23.7 7.3 60 407-488 11-70 (82)
152 PF11177 DUF2964: Protein of u 38.0 1.2E+02 0.0025 23.3 5.4 29 105-133 5-33 (62)
153 PF10966 DUF2768: Protein of u 34.5 72 0.0016 24.1 3.8 36 81-117 5-41 (58)
154 TIGR02787 codY_Gpos GTP-sensin 33.3 5.1E+02 0.011 25.9 17.5 37 328-365 119-155 (251)
155 PF10086 DUF2324: Putative mem 32.5 1.8E+02 0.0039 28.8 7.6 37 87-123 2-38 (223)
156 COG1480 Predicted membrane-ass 32.4 3.4E+02 0.0073 31.4 10.4 22 80-101 376-397 (700)
157 PRK09695 glycolate transporter 31.0 1.5E+02 0.0033 33.7 7.6 72 80-162 196-267 (560)
158 PF06211 BAMBI: BMP and activi 30.8 44 0.00095 28.3 2.5 28 33-62 3-30 (107)
159 PTZ00271 hypoxanthine-guanine 30.4 1.1E+02 0.0024 29.9 5.7 20 509-528 27-46 (211)
160 PRK15423 hypoxanthine phosphor 30.3 1.2E+02 0.0026 28.9 5.7 19 510-528 9-27 (178)
161 COG4377 Predicted membrane pro 30.1 95 0.0021 29.7 4.8 37 84-120 15-51 (258)
162 PF11694 DUF3290: Protein of u 29.5 3.4E+02 0.0075 24.9 8.3 44 82-125 22-65 (149)
163 PF06785 UPF0242: Uncharacteri 29.2 6.8E+02 0.015 26.1 17.4 82 378-459 139-225 (401)
164 PF11152 DUF2930: Protein of u 29.2 1.6E+02 0.0035 28.4 6.3 73 265-357 120-193 (195)
165 PF10856 DUF2678: Protein of u 29.0 96 0.0021 26.9 4.2 28 85-112 68-97 (118)
166 PTZ00127 cytochrome c oxidase 28.4 6.9E+02 0.015 27.2 11.9 34 125-161 365-398 (403)
167 COG4097 Predicted ferric reduc 28.2 3.7E+02 0.0079 28.8 9.1 50 82-132 130-180 (438)
168 COG4420 Predicted membrane pro 28.0 5.4E+02 0.012 24.6 11.5 21 124-144 75-95 (191)
169 TIGR00346 azlC 4-azaleucine re 28.0 4.7E+02 0.01 25.8 9.6 49 81-132 10-58 (221)
170 PF05884 ZYG-11_interact: Inte 27.7 3.3E+02 0.0071 28.1 8.5 63 81-146 139-203 (299)
171 PF05449 DUF754: Protein of un 27.6 2.6E+02 0.0056 22.9 6.4 45 84-130 4-48 (83)
172 PRK02975 putative common antig 26.8 1.9E+02 0.0042 30.4 6.7 39 82-124 158-196 (450)
173 PRK13922 rod shape-determining 26.0 7.1E+02 0.015 25.3 11.5 25 177-201 74-98 (276)
174 TIGR00795 lctP L-lactate trans 25.8 2.3E+02 0.0049 32.2 7.8 69 84-163 191-259 (530)
175 PF03729 DUF308: Short repeat 25.3 2.9E+02 0.0064 20.9 6.4 29 102-130 17-45 (72)
176 PF10754 DUF2569: Protein of u 25.1 5.3E+02 0.012 23.5 9.6 43 75-117 54-97 (149)
177 PRK09162 hypoxanthine-guanine 23.8 1.9E+02 0.0041 27.5 5.9 14 664-677 94-107 (181)
178 PRK04158 transcriptional repre 23.1 7.9E+02 0.017 24.8 18.1 42 323-365 117-158 (256)
179 PF03596 Cad: Cadmium resistan 22.4 2.5E+02 0.0054 27.0 6.3 26 105-130 25-50 (191)
180 PF06210 DUF1003: Protein of u 22.1 5.2E+02 0.011 22.3 10.2 13 147-159 37-49 (108)
181 PF04973 NMN_transporter: Nico 22.1 6.7E+02 0.015 23.6 9.8 81 74-162 42-132 (181)
182 COG1612 CtaA Uncharacterized p 22.0 5.2E+02 0.011 27.2 9.1 48 71-121 76-124 (323)
183 PF14150 YesK: YesK-like prote 22.0 4.4E+02 0.0095 21.5 9.3 48 82-131 3-51 (81)
184 PF13748 ABC_membrane_3: ABC t 21.9 8E+02 0.017 24.5 11.4 52 172-224 161-215 (237)
185 KOG1853 LIS1-interacting prote 21.9 8.1E+02 0.018 24.5 10.1 45 373-417 105-149 (333)
186 KOG3088 Secretory carrier memb 21.6 5.8E+02 0.013 26.1 8.7 90 80-170 164-269 (313)
187 KOG0020 Endoplasmic reticulum 21.1 86 0.0019 34.2 3.1 16 567-582 143-158 (785)
188 PF07213 DAP10: DAP10 membrane 20.9 2.8E+02 0.006 22.4 5.1 39 57-102 24-62 (79)
189 TIGR02921 PEP_integral PEP-CTE 20.8 3.7E+02 0.008 30.4 7.8 87 85-187 159-245 (952)
190 PF13813 MBOAT_2: Membrane bou 20.8 2E+02 0.0043 23.3 4.6 57 64-133 16-72 (83)
191 COG2865 Predicted transcriptio 20.4 4.9E+02 0.011 28.9 8.8 133 473-641 237-382 (467)
192 PF12725 DUF3810: Protein of u 20.4 1.6E+02 0.0034 31.0 4.9 24 78-101 25-48 (318)
193 KOG0249 LAR-interacting protei 20.3 9.1E+02 0.02 28.1 10.7 52 346-397 140-191 (916)
194 PF05297 Herpes_LMP1: Herpesvi 20.2 34 0.00075 34.4 0.0 19 85-103 58-76 (381)
No 1
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=1.2e-43 Score=384.51 Aligned_cols=392 Identities=22% Similarity=0.334 Sum_probs=312.3
Q ss_pred HHHHHHHHHHHHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccccc
Q 005591 177 LKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI 256 (689)
Q Consensus 177 ~~~~a~~l~~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~ 256 (689)
..+++.+++++....++++.+.++++++++.+..+...++++.++..++.++++. ++.+++++.++....+ .....
T Consensus 488 t~~Lt~~vr~Qa~~ar~r~~rT~~Lye~s~~L~~a~t~~~vl~~~~~qi~~~~~~-~v~i~l~~~~~~~~~~--~~~~~- 563 (890)
T COG2205 488 TGNLTARVREQARAARRREQRTELLYEFSKKLAGARTREDILAAAGQQIASLLNQ-RVVILLPDDNGKLQPL--GNPDG- 563 (890)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhCC-ceEEEEecCCcccccc--cCCcc-
Confidence 4556777888888889999999999999999999999999999999999999987 6677788765544111 11100
Q ss_pred ccCcccccC-CchhHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEe
Q 005591 257 QIGSSVPIN-LPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLML 335 (689)
Q Consensus 257 ~~~~~~~~~-~~~v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~ 335 (689)
+... ......++.++++ - ..+....|....+..| +..++...||+.+
T Consensus 564 -----l~~~d~aaa~W~~~~~~~--------A-----G~gTdTlpg~~~~~lP--------------l~~~~~~~gvlgv 611 (890)
T COG2205 564 -----LSADDRAAAQWAFENGKP--------A-----GAGTDTLPGAKYLYLP--------------LKSGGKVLGVLGV 611 (890)
T ss_pred -----ccHHHHHHhhchhhCCCc--------c-----ccCCCCCCCCceeEee--------------cccCCceEEEEEe
Confidence 1111 1111222222221 0 0122223333444445 5556677899998
Q ss_pred ecCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHH
Q 005591 336 PTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMH 415 (689)
Q Consensus 336 ~~~~~~~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~ 415 (689)
.........+++..++..+++|+|.|+++..+.++..+.+- ..+..+.+++|++++||||||||+
T Consensus 612 ~~~~~~ll~p~~~rlL~a~~~q~AlAler~~L~~~~~~a~l---------------~~e~E~lRsaLL~sISHDLRTPLt 676 (890)
T COG2205 612 EPGLSPLLAPEQRRLLDAVLTQIALALERVTLAEEAEQARL---------------AAERERLRSALLASISHDLRTPLT 676 (890)
T ss_pred cCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHhhccccCcHH
Confidence 88866678999999999999999999988877765543321 122345688999999999999999
Q ss_pred HHHHHHHHHhcC--CCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcC
Q 005591 416 AIIALSSLLLET--DLTPE-QRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCK 492 (689)
Q Consensus 416 ~I~~~~~~L~~~--~~~~e-~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~ 492 (689)
+|.|.++.|... .++++ ..+.+..|.+.++++..++.+++|+.|+++|.+.++.++..+.+++.+++..++....
T Consensus 677 ~i~Gaa~tL~~~~~~l~~~~~aeLl~~I~ees~~L~rlV~NLLdmTRi~sG~~~l~~~~~~veEvVg~Al~r~~k~~~-- 754 (890)
T COG2205 677 AIMGAAETLLLDGEALSPEDRAELLSSIREESERLTRLVTNLLDMTRLQSGGVNLKLDWVLVEEVVGEALQRLRKRFT-- 754 (890)
T ss_pred HHhhhHHHhhhcccccCcHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcCCcccccchhhHHHHHHHHHHHhhhhcC--
Confidence 999999999864 45555 6789999999999999999999999999999999999999999999999998886653
Q ss_pred CceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCc-EEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEE
Q 005591 493 KLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGY-VSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVN 571 (689)
Q Consensus 493 ~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~-i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~ 571 (689)
+..+.++++.+++. +..|...+.||+.||++||+||++++. |.+.+..+.++ +.|+|.
T Consensus 755 ~~~i~v~~~~dl~l-i~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~~~~~~~--------------------v~~~V~ 813 (890)
T COG2205 755 GHKIVVSVPVDLPL-IHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVEREN--------------------VVFSVI 813 (890)
T ss_pred CceEEEecCCCCce-EecCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEEEecce--------------------EEEEEE
Confidence 44577777888775 788999999999999999999999865 77877776654 999999
Q ss_pred ecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCCC
Q 005591 572 DSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICNN 644 (689)
Q Consensus 572 D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~ 644 (689)
|+|+|||+++.++||++|++..+... ..|+||||+||+.|++.|||+|++++. +++|++|+|.||....+.
T Consensus 814 DeGpGIP~~~~~~IFD~F~r~~~~~~-~~G~GLGLsIc~~iv~ahgG~I~a~~~-~~gGa~f~~~LP~~~~~~ 884 (890)
T COG2205 814 DEGPGIPEGELERIFDKFYRGNKESA-TRGVGLGLAICRGIVEAHGGTISAENN-PGGGAIFVFTLPVEEDPP 884 (890)
T ss_pred eCCCCCChhHHHHhhhhhhcCCCCCC-CCCccccHHHHHHHHHHcCCeEEEEEc-CCCceEEEEEeecCCCCc
Confidence 99999999999999999999876554 669999999999999999999999998 899999999999976543
No 2
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=100.00 E-value=1.8e-38 Score=374.96 Aligned_cols=265 Identities=29% Similarity=0.469 Sum_probs=230.5
Q ss_pred HHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceee
Q 005591 393 EKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPF 472 (689)
Q Consensus 393 ~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~ 472 (689)
+++++.+.+|++.|+||+||||++|.|+++++.+...+++++++++.+..+++++..++++++++++.+.+...+...++
T Consensus 277 ~~a~~~~~~~~a~isHelrtPL~~I~g~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~~~~ 356 (779)
T PRK11091 277 EKASRDKTTFISTISHELRTPLNGIVGLSRILLDTELTAEQRKYLKTIHVSAITLGNIFNDIIDMDKMERRKLQLDNQPI 356 (779)
T ss_pred HHHHHHHHHHHHHhhHhhcCcHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhCCCcEEEeecc
Confidence 33445678999999999999999999999999988888999999999999999999999999999999999999999999
Q ss_pred eHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCC
Q 005591 473 NLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRP 552 (689)
Q Consensus 473 ~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~ 552 (689)
++.++++++...+...+..+++.+.++.+.+.|..+.+|+.++.||+.||++||+||+++|.+.+.+....++
T Consensus 357 ~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~d~~~l~qvl~NLl~NAik~~~~g~v~i~~~~~~~~------- 429 (779)
T PRK11091 357 DFTDFLADLENLSGLQAEQKGLRFDLEPLLPLPHKVITDGTRLRQILWNLISNAVKFTQQGGVTVRVRYEEGD------- 429 (779)
T ss_pred CHHHHHHHHHHHHHHHHHhcCCEEEEEeCCCCCceEEeCHHHHHHHHHHHHHHHHHhCCCCcEEEEEEEccCC-------
Confidence 9999999999999999999999999998888887788999999999999999999999999888888765332
Q ss_pred CCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccC-CCCCC-CCCccchHHHHHHHHHHhCCEEEEEeecCCCc
Q 005591 553 PEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSR-GSSCQ-TPRAGLGLAICRRFVNLMGGHIWLDSEGLDKG 630 (689)
Q Consensus 553 ~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~-~~~~~-~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~G 630 (689)
.+.|+|+|+|+||+++.++++|+||++++ ..... ..|+|+||++||++++.|||+|+++|. +|+|
T Consensus 430 ------------~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~~~~~~~GtGLGL~i~~~iv~~~gG~i~v~s~-~g~G 496 (779)
T PRK11091 430 ------------MLTFEVEDSGIGIPEDELDKIFAMYYQVKDSHGGKPATGTGIGLAVSKRLAQAMGGDITVTSE-EGKG 496 (779)
T ss_pred ------------EEEEEEEecCCCCCHHHHHHHHHHhhcccCCCCCCCCCCcchHHHHHHHHHHHcCCEEEEEec-CCCe
Confidence 38999999999999999999999999985 32222 459999999999999999999999999 8999
Q ss_pred EEEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhhh
Q 005591 631 STVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSRY 685 (689)
Q Consensus 631 t~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r~ 685 (689)
|+|++.+|++..+....... .......++.+|||||||+.+|.+++.
T Consensus 497 t~f~i~lP~~~~~~~~~~~~--------~~~~~~~~~~~ILivdD~~~~~~~l~~ 543 (779)
T PRK11091 497 SCFTLTIHAPAVAEEVEDAF--------DEDDMPLPALNILLVEDIELNVIVARS 543 (779)
T ss_pred EEEEEEEecccccccccccc--------ccccccccccceEEEcCCHHHHHHHHH
Confidence 99999999976544211100 111223467899999999999998754
No 3
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=100.00 E-value=1e-38 Score=372.19 Aligned_cols=275 Identities=21% Similarity=0.301 Sum_probs=239.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 005591 382 NVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLE 461 (689)
Q Consensus 382 ~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~ 461 (689)
++++++++++++++.+++.+|+++|+||+||||++|.++++.+.+...+++++++++.+.++++++..++++++++++.+
T Consensus 433 ~~~L~~a~~~le~~~~~k~~fla~iSHELRtPL~aI~g~~elL~~~~~~~~~~~~l~~I~~~~~~L~~lI~dILdlsrle 512 (894)
T PRK10618 433 NKKLQQAQREYEKNQQARKAFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQQQPELDQLAEQSDVLVRLVDNIQLLNMLE 512 (894)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 44566677778888899999999999999999999999999998877788899999999999999999999999999999
Q ss_pred cCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEe
Q 005591 462 DGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASV 541 (689)
Q Consensus 462 ~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~ 541 (689)
.+...++.+++++.+++++++..+...+..+++.+.+..+.+.+..+.+|+.++.||+.||++||+||++.|.+.+.+..
T Consensus 513 ~~~~~l~~~~~~L~~ll~~vl~~~~~~a~~k~i~l~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~G~I~I~v~~ 592 (894)
T PRK10618 513 TQDWKPEQELFSLQDLIDEVLPEVLPAIKRKGLQLLIHNHLKAEQLRIGDRDALRKILLLLLNYAITTTAYGKITLEVDQ 592 (894)
T ss_pred cCCCcccceeECHHHHHHHHHHHHHHHHHHCCCEEEEEeCCCCCcEEEecHHHHHHHHHHHHHHHHHhCCCCeEEEEEEE
Confidence 99999999999999999999999999999999999988876666778899999999999999999999999998888765
Q ss_pred ecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEE
Q 005591 542 AKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIW 621 (689)
Q Consensus 542 ~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~ 621 (689)
.... ..++.|+|+|+|+||+++.++++|+||++.+.......|+||||+|||++++.|||+|+
T Consensus 593 ~~~~-----------------~~~l~I~V~DtG~GI~~e~l~~IFePF~t~~~~~~~~~GtGLGLaI~k~Lve~~GG~I~ 655 (894)
T PRK10618 593 DESS-----------------PDRLTIRILDTGAGVSIKELDNLHFPFLNQTQGDRYGKASGLTFFLCNQLCRKLGGHLT 655 (894)
T ss_pred ccCC-----------------CcEEEEEEEECCCCCCHHHHHHhcCccccCCCCCCCCCCcChhHHHHHHHHHHcCCEEE
Confidence 4322 12489999999999999999999999998765544446999999999999999999999
Q ss_pred EEeecCCCcEEEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhhh
Q 005591 622 LDSEGLDKGSTVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSRY 685 (689)
Q Consensus 622 i~S~~~g~Gt~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r~ 685 (689)
++|. +|+||+|+|.||+...+.+.. ......+.|.+||||||++.+|.+++.
T Consensus 656 v~S~-~g~GT~F~I~LPl~~~~~~~~-----------~~~~~~l~g~~vLlvdD~~~~r~~l~~ 707 (894)
T PRK10618 656 IKSR-EGLGTRYSIHLKMLAADPEVE-----------EEEEKLLDGVTVLLDITSEEVRKIVTR 707 (894)
T ss_pred EEEC-CCCcEEEEEEEEccCCccccc-----------ccccccCCCCEEEEEeCCHHHHHHHHH
Confidence 9999 999999999999954322110 011233678999999999999988764
No 4
>PRK10490 sensor protein KdpD; Provisional
Probab=100.00 E-value=1.6e-36 Score=357.45 Aligned_cols=387 Identities=22% Similarity=0.334 Sum_probs=286.0
Q ss_pred HHHHHHHHHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccC
Q 005591 180 RADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIG 259 (689)
Q Consensus 180 ~a~~l~~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~ 259 (689)
++.+++++....++++++.+.++++++.+..+.+.+++++.+.+.+.+.++.. +++|++++++.........
T Consensus 494 l~~r~r~~a~~a~~re~~~~~L~els~~L~~a~~~~~i~~~~~~~l~~~~~~~-~~l~l~~~~g~~~~~~~~~------- 565 (895)
T PRK10490 494 LTAGVRYQARVARYREQRTRHLYEMSKALAVGLSPEDIAATSEHFLASTFQAR-SQLLLPDDNGKLQPLTHDQ------- 565 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhCCC-EEEEEEcCCCccccccccc-------
Confidence 34555555566778888999999999999999999999999999999999964 5688888655432211111
Q ss_pred cccccCCchhHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCC
Q 005591 260 SSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG 339 (689)
Q Consensus 260 ~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~ 339 (689)
...+.+......++..+.+.- .+....+......+|+ ..++..+|++.+....
T Consensus 566 ~~~~~~~~~~~w~~~~~~~~g-------------~~~~tl~~~~~~~lPl--------------~~~~~~~Gvl~l~~~~ 618 (895)
T PRK10490 566 GMTPWDDAIARWSFDKGQPAG-------------AGTDTLPGVPYQILPL--------------KSAQKTYGLLAVEPGN 618 (895)
T ss_pred cccchHHHHHHHHHhcCCccc-------------cCcCcCCCCceEEEEE--------------EECCEEEEEEEEecCc
Confidence 001111111122222221100 0001112233445554 3344568888887654
Q ss_pred -CCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Q 005591 340 -GRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAII 418 (689)
Q Consensus 340 -~~~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~ 418 (689)
...|+.++.++++.++.+++.++++.....+..+. +...+..+.+++|++.++||+||||++|.
T Consensus 619 ~~~~~~~~~~~ll~~la~~~a~aler~~l~~~~~~~---------------~l~~e~e~lr~~lla~isHELrtPLt~I~ 683 (895)
T PRK10490 619 LRQLMIPEQQRLLETFTLLIANALERLTLTASEEQA---------------RLASEREQLRNALLAALSHDLRTPLTVLF 683 (895)
T ss_pred ccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHHhHHHHhHHHHHHH
Confidence 35688899999999999999999766543221110 11112234567899999999999999999
Q ss_pred HHHHHHhcCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceE
Q 005591 419 ALSSLLLETD--LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSM 496 (689)
Q Consensus 419 ~~~~~L~~~~--~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i 496 (689)
++++++..+. ...+..+.++.+.+.+.++..++++++++++.+.+...+...++++.+++++++..+......+++
T Consensus 684 g~~~lL~~~l~~~~~~~~~~~~~i~~~~~~l~~li~~LL~~srl~~~~~~l~~~~~~L~eli~~~l~~l~~~~~~~~i-- 761 (895)
T PRK10490 684 GQAEILTLDLASEGSPHARQASEIRQQVLNTTRLVNNLLDMARIQSGGFNLRKEWLTLEEVVGSALQMLEPGLSGHPI-- 761 (895)
T ss_pred HHHHHHhhcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccccCHHHHHHHHHHHHHHHhcCCCE--
Confidence 9999887542 233445678889999999999999999999999999999999999999999999999877655544
Q ss_pred EEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCC
Q 005591 497 TLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGC 575 (689)
Q Consensus 497 ~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~ 575 (689)
.++++.+.+ .+.+|+..+.|++.||++||+||+++| .+.+.+...++ .+.|+|.|+|+
T Consensus 762 ~l~~~~~~~-~v~~D~~~L~qVL~NLL~NAik~s~~g~~I~I~~~~~~~--------------------~v~I~V~D~G~ 820 (895)
T PRK10490 762 NLSLPEPLT-LIHVDGPLFERVLINLLENAVKYAGAQAEIGIDAHVEGE--------------------RLQLDVWDNGP 820 (895)
T ss_pred EEEcCCCCe-EEEECHHHHHHHHHHHHHHHHHhCCCCCeEEEEEEEeCC--------------------EEEEEEEECCC
Confidence 445555555 478899999999999999999999765 46666554333 38999999999
Q ss_pred CCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecC
Q 005591 576 GVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGI 641 (689)
Q Consensus 576 Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~ 641 (689)
||+++..+++|+||++.+... ...|+||||++||++++.|||+|+++|. +++||+|++.||+..
T Consensus 821 GI~~e~~~~IFepF~~~~~~~-~~~G~GLGL~Ivk~ive~hGG~I~v~s~-~~~Gt~f~i~LPl~~ 884 (895)
T PRK10490 821 GIPPGQEQLIFDKFARGNKES-AIPGVGLGLAICRAIVEVHGGTIWAENR-PEGGACFRVTLPLET 884 (895)
T ss_pred CCCHHHHHHhcCCCccCCCCC-CCCCccHHHHHHHHHHHHcCCEEEEEEC-CCCeEEEEEEeECCC
Confidence 999999999999999865432 3359999999999999999999999998 899999999999853
No 5
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=100.00 E-value=2.1e-35 Score=349.24 Aligned_cols=446 Identities=15% Similarity=0.195 Sum_probs=300.8
Q ss_pred HHHHhhhhchhHHhHHHHHHHHHHhcccChh--hHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccCccc
Q 005591 185 DREMGLILTQEETGRHVRMLTHEIRSTLDRH--TILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSV 262 (689)
Q Consensus 185 ~~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~--~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~ 262 (689)
++....++++.+..+.+..++..+....+.+ ..+...+..+.+.++.+.|++++.+.++............ ....
T Consensus 263 ~~~~~~l~~r~~~e~~l~~l~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~---~~~~ 339 (828)
T PRK13837 263 RARTRVLRRRAAFEEVIAAISRCFEAASPHELEASIEAALGILAKFFDADSAALALVDVGGRARIWTFPGLTP---DPVW 339 (828)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCeeeccCCccCC---CCCc
Confidence 3334445556666778888888888775554 8999999999999999999999988776554432210000 0000
Q ss_pred cc-CCchhHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCC-C
Q 005591 263 PI-NLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-G 340 (689)
Q Consensus 263 ~~-~~~~v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~-~ 340 (689)
+. ....+..+..........+........ ......+....+.+|+ ..++..++++.+.... .
T Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~--------------~~~~~~~g~l~~~~~~~~ 403 (828)
T PRK13837 340 PDRLRALASTVKAAERDVVFVDRNGPVRKR--SCLTRRGPALWACLAF--------------KSGDRIVALLGLGRQRYG 403 (828)
T ss_pred hHHHHHHHHHHhccCCceEEeecccchhhh--cccccCCcceEEEEEe--------------ccCCceEEEEEecccccC
Confidence 00 001111111122211111111111000 1111223334444443 2233445666655432 3
Q ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH
Q 005591 341 RKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIAL 420 (689)
Q Consensus 341 ~~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~ 420 (689)
..|...+..+++.++++++.++.+.+..++..+.++++ ++ .+..++.++|++.++||+||||++|.++
T Consensus 404 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~e~~~l~~~l-------~~-----~~rl~~l~~~~~~iaHeLrtPL~~I~~~ 471 (828)
T PRK13837 404 LRPPAGELQLLELALDCLAHAIERRRLETERDALERRL-------EH-----ARRLEAVGTLASGIAHNFNNILGAILGY 471 (828)
T ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------HH-----HHHHHHHHHHHHHhhHHhhhHHHHHHHH
Confidence 45568999999999999999987766554433332222 11 1223467899999999999999999999
Q ss_pred HHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEE
Q 005591 421 SSLLLET-DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLI 499 (689)
Q Consensus 421 ~~~L~~~-~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~ 499 (689)
++++.+. ..+++.+++++.+.+.++++..++++++++++.... ..+++++.++++++...++... .+++.+.++
T Consensus 472 ~~~l~~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~----~~~~~~l~~ll~~~~~~~~~~~-~~~i~l~~~ 546 (828)
T PRK13837 472 AEMALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGER----NTKPFDLSELVTEIAPLLRVSL-PPGVELDFD 546 (828)
T ss_pred HHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC----CCcEEcHHHHHHHHHHHHHHHc-cCCcEEEEE
Confidence 9988754 345577889999999999999999999999985433 4458999999999999887543 467788877
Q ss_pred eCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCC
Q 005591 500 MAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVP 578 (689)
Q Consensus 500 ~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~ 578 (689)
.++.. ..+.+|+..+.|++.||++||+||+++ |.+.+.+........ .........+..++.|+|+|||+||+
T Consensus 547 ~~~~~-~~v~~d~~~L~qvl~NLl~NAik~~~~~g~I~I~~~~~~~~~~-----~~~~~~~~~~~~~v~i~V~D~G~GI~ 620 (828)
T PRK13837 547 QDQEP-AVVEGNPAELQQVLMNLCSNAAQAMDGAGRVDISLSRAKLRAP-----KVLSHGVLPPGRYVLLRVSDTGAGID 620 (828)
T ss_pred eCCCC-ceEEECHHHHHHHHHHHHHHHHHHcccCCeEEEEEEEeecccc-----cccccccCCCCCEEEEEEEECCCCCC
Confidence 66553 457889999999999999999999864 667777665422110 00000001123358999999999999
Q ss_pred CCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCCCCCCCCCCCCccCCC
Q 005591 579 PQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICNNPGSPIHPVALKGRA 658 (689)
Q Consensus 579 ~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~~~~~~~~~~~~~~~ 658 (689)
++..+++|+||++++. .|+|+||++||++++.|||+|+++|. +|+||+|++.||.....+.... ....
T Consensus 621 ~e~~~~iFe~F~~~~~-----~G~GLGL~i~~~iv~~~gG~i~v~s~-~g~Gt~f~i~LP~~~~~~~~~~------~~~~ 688 (828)
T PRK13837 621 EAVLPHIFEPFFTTRA-----GGTGLGLATVHGIVSAHAGYIDVQST-VGRGTRFDVYLPPSSKVPVAPQ------AFFG 688 (828)
T ss_pred HHHHHHhhCCcccCCC-----CCCcchHHHHHHHHHHCCCEEEEEec-CCCeEEEEEEEeCCCCCCCCcc------ccCC
Confidence 9999999999998754 58999999999999999999999998 8999999999998654322111 1011
Q ss_pred CCCCCCCCCCceEEecCchhhhhhhh
Q 005591 659 SHGSADLTGPKPLFRDNDQIASTKSR 684 (689)
Q Consensus 659 ~~~~~~~~g~~ILlvDDd~~nr~v~r 684 (689)
+...+..+|.+|||||||+.++..++
T Consensus 689 ~~~~~~~~~~~ILvVddd~~~~~~l~ 714 (828)
T PRK13837 689 PGPLPRGRGETVLLVEPDDATLERYE 714 (828)
T ss_pred CcccCCCCCCEEEEEcCCHHHHHHHH
Confidence 12223346789999999999988764
No 6
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=100.00 E-value=6.3e-36 Score=354.04 Aligned_cols=238 Identities=32% Similarity=0.511 Sum_probs=215.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 005591 383 VALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLED 462 (689)
Q Consensus 383 ~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~ 462 (689)
+++++++++++++++++..|++.++||+||||++|.++++++.....+++++++++.+.++++++..++++++++++++.
T Consensus 431 ~~L~~~~~~~e~a~~~k~~fla~iSHELRTPL~~I~g~lelL~~~~~~~~~~~~l~~i~~~~~~L~~lI~dlLd~srie~ 510 (924)
T PRK10841 431 ESLQEMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKIES 510 (924)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 34555666677778888999999999999999999999999998888899999999999999999999999999999999
Q ss_pred CCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEee
Q 005591 463 GSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVA 542 (689)
Q Consensus 463 ~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~ 542 (689)
+...++.+++++.+++++++..+...+..+++.+.+.++++.|..+.+|+.++.||+.||++||+||++.|.+.+.+...
T Consensus 511 ~~~~l~~~~~~l~~li~~v~~~~~~~~~~k~i~l~~~i~~~~~~~v~~D~~~L~qvl~NLl~NAik~t~~G~I~I~v~~~ 590 (924)
T PRK10841 511 EQLKIEPREFSPREVINHITANYLPLVVKKRLGLYCFIEPDVPVALNGDPMRLQQVISNLLSNAIKFTDTGCIVLHVRVD 590 (924)
T ss_pred CCceeeeEEecHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCCcEEEECHHHHHHHHHHHHHHHHhhCCCCcEEEEEEEe
Confidence 99999999999999999999999999999999999998888887789999999999999999999999999888887664
Q ss_pred cCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHHHHHhCCEEE
Q 005591 543 KPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRFVNLMGGHIW 621 (689)
Q Consensus 543 ~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~iv~~~gG~I~ 621 (689)
++ ++.|+|+|+|+||+++.++++|+||++.+.... ...|+||||++||++++.|||+|+
T Consensus 591 ~~--------------------~l~i~V~DtG~GI~~e~~~~lFepF~~~~~~~~~~~~GtGLGL~I~k~lv~~~gG~I~ 650 (924)
T PRK10841 591 GD--------------------YLSFRVRDTGVGIPAKEVVRLFDPFFQVGTGVQRNFQGTGLGLAICEKLINMMDGDIS 650 (924)
T ss_pred CC--------------------EEEEEEEEcCcCCCHHHHHHHhcccccCCCCCCCCCCCeehhHHHHHHHHHHCCCEEE
Confidence 33 389999999999999999999999998765433 335999999999999999999999
Q ss_pred EEeecCCCcEEEEEEEEecC
Q 005591 622 LDSEGLDKGSTVTFLVKLGI 641 (689)
Q Consensus 622 i~S~~~g~Gt~~~~~lPl~~ 641 (689)
++|. +|.||+|+|.||+..
T Consensus 651 v~S~-~g~Gt~F~i~LP~~~ 669 (924)
T PRK10841 651 VDSE-PGMGSQFTIRIPLYG 669 (924)
T ss_pred EEEc-CCCcEEEEEEEECCc
Confidence 9999 899999999999853
No 7
>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=100.00 E-value=2.1e-35 Score=357.86 Aligned_cols=272 Identities=32% Similarity=0.514 Sum_probs=238.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 005591 385 LDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGS 464 (689)
Q Consensus 385 l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~ 464 (689)
.++++++++++++++..|++.|+||+||||++|.++++++.+...+++++++++.+.++++++..++++++++++++.+.
T Consensus 450 ~~~~~~~~~~~~~~~~~~~~~~sHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~~i~~ll~~~~~e~~~ 529 (968)
T TIGR02956 450 HAKARAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGLTSQQQQYLQVINRSGESLLDILNDILDYSKIEAGH 529 (968)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHhhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 34556677888889999999999999999999999999999888899999999999999999999999999999999999
Q ss_pred ccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecC
Q 005591 465 LELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKP 544 (689)
Q Consensus 465 ~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~ 544 (689)
..+...++++.++++++...++..+..+++.+.++++++.|..+.+|+.++.||+.||++||+||++.|.+.+.+...++
T Consensus 530 ~~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~d~~~l~~il~nLi~NAik~~~~g~i~i~~~~~~~ 609 (968)
T TIGR02956 530 LSISPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIPEQLPNWWQGDGPRIRQVLINLVGNAIKFTDRGSVVLRVSLNDD 609 (968)
T ss_pred CeeeecccCHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCCceEeeCHHHHHHHHHHHHHHHHhhCCCCeEEEEEEEcCC
Confidence 99999999999999999999999999999999999988888888899999999999999999999999998888766543
Q ss_pred CCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEe
Q 005591 545 ESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDS 624 (689)
Q Consensus 545 ~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S 624 (689)
. .+.|+|+|+|+||+++.++++|+||++.+ ......|+||||+|||++++.|||+|+++|
T Consensus 610 ~-------------------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~-~~~~~~g~GLGL~i~~~l~~~~gG~i~~~s 669 (968)
T TIGR02956 610 S-------------------SLLFEVEDTGCGIAEEEQATLFDAFTQAD-GRRRSGGTGLGLAISQRLVEAMDGELGVES 669 (968)
T ss_pred C-------------------eEEEEEEeCCCCCCHHHHHHHHhhhhccC-CCCCCCCccHHHHHHHHHHHHcCCEEEEEe
Confidence 2 18999999999999999999999999987 333346999999999999999999999999
Q ss_pred ecCCCcEEEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhhhh
Q 005591 625 EGLDKGSTVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSRYQ 686 (689)
Q Consensus 625 ~~~g~Gt~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r~~ 686 (689)
. +|+||+|+|.+|+...++..... ........+.+|||||||+.++.+++..
T Consensus 670 ~-~~~Gt~f~~~lp~~~~~~~~~~~---------~~~~~~~~~~~iLvvdd~~~~~~~l~~~ 721 (968)
T TIGR02956 670 E-LGVGSCFWFTLPLTRGKPAEDSA---------TLTVIDLPPQRVLLVEDNEVNQMVAQGF 721 (968)
T ss_pred c-CCCcEEEEEEEEcCCCCcccccc---------ccccccccccceEEEcCcHHHHHHHHHH
Confidence 9 89999999999997544321110 0122335677999999999999987643
No 8
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=100.00 E-value=6.6e-35 Score=351.76 Aligned_cols=242 Identities=30% Similarity=0.466 Sum_probs=220.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 377 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 456 (689)
Q Consensus 377 ~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~ 456 (689)
++.++.+++++++++++++++.+..|++.++||+||||++|.++++++.+...+++++++++.+...++++..+++++++
T Consensus 376 ~~~e~~~~l~~~~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~li~~ll~ 455 (921)
T PRK15347 376 KVAERTQALAEAKQRAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNTPLTAEQMDLADTARQCTLSLLAIINNLLD 455 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhchhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566777777778888889999999999999999999999999999888999999999999999999999999999
Q ss_pred HhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEE
Q 005591 457 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVS 536 (689)
Q Consensus 457 ~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~ 536 (689)
+++++.+...+..+++++.++++++...+...+..+++.+.+.++++.|..+.+|+.++.|++.||++||+||+++|.|.
T Consensus 456 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~il~NLl~NAik~~~~g~I~ 535 (921)
T PRK15347 456 FSRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAHVPLYLHLDSLRLRQILVNLLGNAVKFTETGGIR 535 (921)
T ss_pred HHHHhcCCccceecccCHHHHHHHHHHHHHHHHHHCCcEEEEEECCCCCceEEECHHHHHHHHHHHHHHHhhcCCCCCEE
Confidence 99999999999999999999999999999999999999999988888888889999999999999999999999999988
Q ss_pred EEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHh
Q 005591 537 IIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLM 616 (689)
Q Consensus 537 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~ 616 (689)
+.+...++ ++.|+|+|||+||+++.++++|+||++.+.. ..|+||||++||++++.|
T Consensus 536 i~~~~~~~--------------------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~---~~g~GLGL~i~~~~~~~~ 592 (921)
T PRK15347 536 LRVKRHEQ--------------------QLCFTVEDTGCGIDIQQQQQIFTPFYQADTH---SQGTGLGLTIASSLAKMM 592 (921)
T ss_pred EEEEEcCC--------------------EEEEEEEEcCCCCCHHHHHHHhcCcccCCCC---CCCCchHHHHHHHHHHHc
Confidence 88765433 3999999999999999999999999987643 358999999999999999
Q ss_pred CCEEEEEeecCCCcEEEEEEEEecCC
Q 005591 617 GGHIWLDSEGLDKGSTVTFLVKLGIC 642 (689)
Q Consensus 617 gG~I~i~S~~~g~Gt~~~~~lPl~~~ 642 (689)
||+|+++|. +|+||+|+|.||+...
T Consensus 593 gG~i~i~s~-~~~Gt~f~i~lp~~~~ 617 (921)
T PRK15347 593 GGELTLFST-PGVGSCFSLVLPLNEY 617 (921)
T ss_pred CCEEEEEec-CCCceEEEEEEECCCC
Confidence 999999999 8999999999998653
No 9
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=100.00 E-value=2.1e-34 Score=347.47 Aligned_cols=283 Identities=36% Similarity=0.566 Sum_probs=245.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 377 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 456 (689)
Q Consensus 377 ~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~ 456 (689)
++..++.+++.++++++++.+.+.+|++.++||+||||++|.++++.+.+...+++++++++.+.+.++++..+++++++
T Consensus 271 ~l~~~~~~l~~~~~~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~ 350 (919)
T PRK11107 271 QMEIQNVELDLAKKRAQEAARIKSEFLANMSHELRTPLNGVIGFTRQTLKTPLTPTQRDYLQTIERSANNLLAIINDILD 350 (919)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhcccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455666777888888889999999999999999999999999999988888899999999999999999999999999
Q ss_pred HhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEE
Q 005591 457 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVS 536 (689)
Q Consensus 457 ~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~ 536 (689)
+++.+.+...++..++++.++++++...+...+..+++.+.++++++.|..+.+|+.++.||+.||++||+||+++|.+.
T Consensus 351 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~d~~~l~~vl~NLl~NAik~~~~g~v~ 430 (919)
T PRK11107 351 FSKLEAGKLVLENIPFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPDNVIGDPLRLQQIITNLVGNAIKFTESGNID 430 (919)
T ss_pred HHHHhcCCcEEEEeecCHHHHHHHHHHHHHHHHHHcCCEEEEEeCCCCCceEEeCHHHHHHHHHHHHHHHhhcCCCCcEE
Confidence 99999999999999999999999999999999999999999999888887788999999999999999999999999888
Q ss_pred EEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHHHHH
Q 005591 537 IIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRFVNL 615 (689)
Q Consensus 537 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~iv~~ 615 (689)
+.+...... ++..++.|+|.|+|+||+++.++++|+||++.+...+ ...|+||||++||++++.
T Consensus 431 i~v~~~~~~---------------~~~~~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~g~GLGL~i~~~i~~~ 495 (919)
T PRK11107 431 ILVELRALS---------------NTKVQLEVQIRDTGIGISERQQSQLFQAFRQADASISRRHGGTGLGLVITQKLVNE 495 (919)
T ss_pred EEEEEEecC---------------CCeeEEEEEEEEeCCCcCHHHHHHHhhhhccCCCCCCCCCCCcchhHHHHHHHHHH
Confidence 777654322 1223589999999999999999999999998765433 345999999999999999
Q ss_pred hCCEEEEEeecCCCcEEEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhhh
Q 005591 616 MGGHIWLDSEGLDKGSTVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSRY 685 (689)
Q Consensus 616 ~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r~ 685 (689)
|||+|+++|. +|+||+|+|.+|+...+.+.. .+.+...+.|.+||++||++.+|..++-
T Consensus 496 ~gG~i~v~s~-~~~Gt~f~i~lp~~~~~~~~~----------~~~~~~~~~g~~ili~d~~~~~~~~l~~ 554 (919)
T PRK11107 496 MGGDISFHSQ-PNRGSTFWFHLPLDLNPNPII----------DGLPTDCLAGKRLLYVEPNSAAAQATLD 554 (919)
T ss_pred hCCEEEEEec-CCCCEEEEEEEEeccCCcccc----------ccCCccccCCCeEEEEeCCHHHHHHHHH
Confidence 9999999999 899999999999965443211 1122344688999999999999887654
No 10
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=100.00 E-value=1.3e-34 Score=348.53 Aligned_cols=277 Identities=29% Similarity=0.484 Sum_probs=237.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 376 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVL 455 (689)
Q Consensus 376 ~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll 455 (689)
.++.+...++.+++.+.+++.+++..|++.|+||+||||++|.++++++.+...+++++++++.+.+.++++..++++++
T Consensus 421 ~el~~~~~~~~~~~~~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll 500 (914)
T PRK11466 421 AELQELVIEHRQARAEAEKASQAKSAFLAAMSHEIRTPLYGILGTAQLLADNPALNAQRDDLRAITDSGESLLTILNDIL 500 (914)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44555555666677778888889999999999999999999999999999888888999999999999999999999999
Q ss_pred HHhhhhcCC--ccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC
Q 005591 456 DLSRLEDGS--LELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG 533 (689)
Q Consensus 456 ~~sr~~~~~--~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g 533 (689)
++++.+.+. ..++.+++++.+++++++..+...+..+++.+.++++++.|..+.+|+.++.||+.||++||+||+++|
T Consensus 501 ~~s~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~d~~~l~qil~NLl~NAik~~~~g 580 (914)
T PRK11466 501 DYSAIEAGGKNVSVSDEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDLPTALMGDPRRIRQVITNLLSNALRFTDEG 580 (914)
T ss_pred HHHHHhCCCCcceecccccCHHHHHHHHHHHHHHHHHhCCcEEEEEeCCCCCceEEECHHHHHHHHHHHHHHHHHhCCCC
Confidence 999988763 556678999999999999999999999999999998888887789999999999999999999999999
Q ss_pred cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHH
Q 005591 534 YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFV 613 (689)
Q Consensus 534 ~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv 613 (689)
.|.+.+...+. .+.|.|.|+|+||+++..+++|+||++.... ..|+||||++||+++
T Consensus 581 ~I~i~~~~~~~--------------------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~---~~g~GLGL~i~~~l~ 637 (914)
T PRK11466 581 SIVLRSRTDGE--------------------QWLVEVEDSGCGIDPAKLAEIFQPFVQVSGK---RGGTGLGLTISSRLA 637 (914)
T ss_pred eEEEEEEEcCC--------------------EEEEEEEECCCCCCHHHHHHHhchhhcCCCC---CCCCcccHHHHHHHH
Confidence 88887765433 3899999999999999999999999976432 358999999999999
Q ss_pred HHhCCEEEEEeecCCCcEEEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhhh
Q 005591 614 NLMGGHIWLDSEGLDKGSTVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSRY 685 (689)
Q Consensus 614 ~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r~ 685 (689)
+.|||+|+++|. +|.||+|++.||+.....+... .+.......+.+|||||||+.++.+++.
T Consensus 638 ~~~gG~i~v~s~-~~~Gt~f~i~lP~~~~~~~~~~---------~~~~~~~~~~~~vLivdD~~~~~~~l~~ 699 (914)
T PRK11466 638 QAMGGELSATST-PEVGSCFCLRLPLRVATAPVPK---------TVNQAVRLDGLRLLLIEDNPLTQRITAE 699 (914)
T ss_pred HHcCCEEEEEec-CCCCeEEEEEEEcccccccccc---------ccccccccCCcceEEEeCCHHHHHHHHH
Confidence 999999999999 8999999999998654332110 1112223467899999999999987653
No 11
>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=100.00 E-value=2.9e-32 Score=315.99 Aligned_cols=366 Identities=20% Similarity=0.240 Sum_probs=265.1
Q ss_pred HHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccCcccccCCchhHHHhcccCceE
Q 005591 201 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMR 280 (689)
Q Consensus 201 l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~ 280 (689)
+.++++.+.+..+.+++++.+++.+.+.++.+.+++|+.++++........++.... ....+.+.+.+......+....
T Consensus 307 ~l~~~~~L~~~~~~~~l~~~~~~~l~~~l~~~~g~l~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~ 385 (679)
T TIGR02916 307 WLRFTQTLSEARSSDDLGERVIRALAQLVESPGGVLWLKSGNDGLYRPAARWNQPLA-QAFEPSDSAFCQFLQESGWIIN 385 (679)
T ss_pred HHHHHHHHhCCCCCccHHHHHHHHHHHHhCCCCceEEEEcCCCCEEeeehhcCCCCc-ccCCCCCCHHHHHHHhCCCccc
Confidence 468899999999999999999999999999999999999988776666555443222 1233444444444444433333
Q ss_pred ecCCCcchhhhc---ccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecC-CCCccccchHHHHHHHHH
Q 005591 281 LPYNCPLARIRL---LVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GGRKWRDHELELIDVVAD 356 (689)
Q Consensus 281 l~~~~~~~~~~~---~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~-~~~~w~~~e~~ll~~va~ 356 (689)
+.+....+.... .+......+.+.+.+|+.. ++..+|++++..+ .++.++.++.++++.++.
T Consensus 386 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vPL~~--------------~~~~~G~l~l~~~~~~~~~~~e~~~lL~~l~~ 451 (679)
T TIGR02916 386 LEEARSEPDHYSGLVLPEWLREIPNAWLIVPLIS--------------GEELVGFVVLARPRTAGEFNWEVRDLLKTAGR 451 (679)
T ss_pred chhhcCCcccccccccchhhhcCCCceEEEEecc--------------CCEEEEEEEEecCCCCCCCCHHHHHHHHHHHH
Confidence 222221111000 0001111233456677533 3345777776654 456899999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHH-HHH
Q 005591 357 QVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE-QRV 435 (689)
Q Consensus 357 ~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e-~~~ 435 (689)
|++.++.+.+..++..+ + +..++.+++.+.++||+|||++.+....+...+...+++ .++
T Consensus 452 q~a~~l~~~~~~~~l~~--------------~-----~~~~~~~~~~a~i~HdLrn~l~~l~~~l~~~~~~~~~~~~~~~ 512 (679)
T TIGR02916 452 QAASYLAQMEASEALAE--------------A-----RQFEAFNRMSAFVVHDLKNLVAQLSLLLRNAERHKDNPEFQDD 512 (679)
T ss_pred HHHHHHHHHHHHHHHHH--------------H-----HHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhcccCHHHHHH
Confidence 99999966554432211 1 112345678888999999999999888887766544444 566
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHH
Q 005591 436 MIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRL 515 (689)
Q Consensus 436 ~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l 515 (689)
.++.+.+..+++.++++++.+... ..+..++++.++++++.+..+.. .. .+.++++.+ ..+.+|+..+
T Consensus 513 ~l~~i~~~~~rl~~ll~~l~~~~~------~~~~~~~~l~~ll~~~~~~~~~~--~~--~~~l~~~~~--~~v~~d~~~l 580 (679)
T TIGR02916 513 MLETVENAVNRMKKLLAQLRSKGL------EEEKLCVDLVDLLRRAIASKRAQ--GP--RPEVSIDTD--LSVRADRERL 580 (679)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc------ccCCccccHHHHHHHHHHHhhhh--cC--CceEEeCCC--ceEEECHHHH
Confidence 788899999999999888765432 45556899999999998876532 23 344444444 3477899999
Q ss_pred HHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCC-hhhhhcCCcccC
Q 005591 516 MQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQD-IPLLFTKFAQSR 593 (689)
Q Consensus 516 ~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~-~~~if~~f~~~~ 593 (689)
.+++.||++||+||+++ |.+.+.+...++ .+.|+|+|||+||+++. .+++|+||++++
T Consensus 581 ~~vl~nLl~NAik~~~~~~~I~I~~~~~~~--------------------~~~i~V~D~G~Gi~~~~i~~~lF~pf~~~~ 640 (679)
T TIGR02916 581 ERVLGHLVQNALEATPGEGRVAIRVERECG--------------------AARIEIEDSGCGMSPAFIRERLFKPFDTTK 640 (679)
T ss_pred HHHHHHHHHHHHHhCCCCCcEEEEEEEcCC--------------------EEEEEEEEcCCCcChHHHHHhcCCCCCCCC
Confidence 99999999999999864 677777765443 38999999999999999 999999999866
Q ss_pred CCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEE
Q 005591 594 GSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 594 ~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
. .|+|+||++||++++.|||+|+++|+ +|+||+|++++|
T Consensus 641 ~-----~G~GLGL~i~~~iv~~~gG~i~v~s~-~g~Gt~f~i~LP 679 (679)
T TIGR02916 641 G-----AGMGIGVYECRQYVEEIGGRIEVEST-PGQGTIFTLVLP 679 (679)
T ss_pred C-----CCcchhHHHHHHHHHHcCCEEEEEec-CCCceEEEEEeC
Confidence 4 48899999999999999999999998 899999999987
No 12
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=1.1e-35 Score=291.82 Aligned_cols=226 Identities=24% Similarity=0.461 Sum_probs=195.4
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeee
Q 005591 396 IHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE--QRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFN 473 (689)
Q Consensus 396 ~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e--~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~ 473 (689)
.+++..|.+++|||+||||+++.++++.|.+....+. ....+..-.+..+||.++++||+.+||++.....++.+.++
T Consensus 222 e~ErRefvanvSHElRTPltsmksyLEALe~ga~~d~eiAp~Fl~vt~~ETeRMiRlV~DLl~lsr~d~~~~qln~e~in 301 (459)
T COG5002 222 ERERREFVANVSHELRTPLTSMKSYLEALEEGAWEDKEIAPRFLRVTLNETERMIRLVNDLLQLSRMDNARYQLNKEWIN 301 (459)
T ss_pred HHHHHHHHHhcchhhcCchHHHHHHHHHHhcCCccChhhhhHHHHHhHHHHHHHHHHHHHHHHHccCcchhhhhhHHHHH
Confidence 4457799999999999999999999999998865444 67788889999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhhhhcCCce-EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCC
Q 005591 474 LQIVLREVIKLIKPVASCKKLS-MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWR 551 (689)
Q Consensus 474 L~~ll~~~~~~~~~~~~~~~i~-i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~ 551 (689)
+..++.++++.+....++.... +.- .-+.-+.++..|++.+.||+.|+++||+||+|+ |.+++.+...+.
T Consensus 302 ft~fl~~ii~R~e~~~~~e~~~~~vR-~~p~~~~~veiD~DK~tQVldNii~NA~KYsP~Gg~Itv~~~~~~~------- 373 (459)
T COG5002 302 FTAFLNEIINRFEMILKKETIARFVR-DIPKQDIWVEIDPDKMTQVLDNIISNALKYSPDGGRITVSVKQRET------- 373 (459)
T ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHh-cCCCCceEEEeChhHHHHHHHHHHHHHhhcCCCCCeEEEEEeeeCc-------
Confidence 9999999999998775544443 222 235557789999999999999999999999986 667777765332
Q ss_pred CCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCC-CCccchHHHHHHHHHHhCCEEEEEeecCCCc
Q 005591 552 PPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQT-PRAGLGLAICRRFVNLMGGHIWLDSEGLDKG 630 (689)
Q Consensus 552 ~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~-~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~G 630 (689)
++.++|.|.|.|||.++++++|+.||+.+...++. .|+||||+|+|++|+.|||.||.+|+ .|+|
T Consensus 374 -------------~v~iSI~D~G~gIPk~d~~~iFdrfyRvdkARsR~~gGTGLGLaIakeiV~~hgG~iWA~s~-~gkg 439 (459)
T COG5002 374 -------------WVEISISDQGLGIPKEDLEKIFDRFYRVDKARSRKMGGTGLGLAIAKEIVQAHGGRIWAESE-EGKG 439 (459)
T ss_pred -------------EEEEEEccCCCCCCchhHHHHHHHHhhhhhhhhhcCCCCchhHHHHHHHHHHhCCeEEEecc-cCCc
Confidence 39999999999999999999999999987665444 49999999999999999999999999 9999
Q ss_pred EEEEEEEEecCCC
Q 005591 631 STVTFLVKLGICN 643 (689)
Q Consensus 631 t~~~~~lPl~~~~ 643 (689)
|+|+|+||....+
T Consensus 440 tt~~ftLPy~~~~ 452 (459)
T COG5002 440 TTFSFTLPYSGEA 452 (459)
T ss_pred eEEEEEecccCcc
Confidence 9999999986543
No 13
>PRK09303 adaptive-response sensory kinase; Validated
Probab=100.00 E-value=2.8e-33 Score=302.25 Aligned_cols=241 Identities=23% Similarity=0.386 Sum_probs=207.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCC-------HHHHHHHHHHHHHHHHHHHH
Q 005591 378 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLT-------PEQRVMIETVLKSSNLLTTL 450 (689)
Q Consensus 378 L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~-------~e~~~~l~~i~~~~~~l~~l 450 (689)
+.+...+++++++++.+..+.+++|++.++||+||||++|.+.++++.+...+ +..+++++.+.+..+++..+
T Consensus 130 l~~~~~~l~~~~~~l~e~~~~~~~l~~~iaHeLrtPLt~i~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l 209 (380)
T PRK09303 130 LSDELFVLRQENETLLEQLKFKDRVLAMLAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQDQARRQLEEIERL 209 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhcchHHHHHHHHHHHhccCccccchhhHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445666666667778899999999999999999999999999854322 33677889999999999999
Q ss_pred HHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC
Q 005591 451 VDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT 530 (689)
Q Consensus 451 i~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~ 530 (689)
+++++++++.+.+...+...++++.+++++++..+...+..+++.+.++++.+.|. +.+|+.++.|++.||++||+||+
T Consensus 210 i~~ll~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~l~~~~~~~~~~-v~~d~~~l~qvl~NLl~NAik~~ 288 (380)
T PRK09303 210 ITDLLEVGRTRWEALRFNPQKLDLGSLCQEVILELEKRWLAKSLEIQTDIPSDLPS-VYADQERIRQVLLNLLDNAIKYT 288 (380)
T ss_pred HHHHHHHHHhhcCCceeccccCCHHHHHHHHHHHHHHHHHHcCCEEEEEcCCCCCe-EEeCHHHHHHHHHHHHHHHHhcC
Confidence 99999999999888888889999999999999999999999999999988777664 78899999999999999999999
Q ss_pred CC-CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHH
Q 005591 531 KE-GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAIC 609 (689)
Q Consensus 531 ~~-g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~ 609 (689)
++ |.+.+.+....++ ++.|.|.|||+||+++..+++|+||++.+. .....|+||||++|
T Consensus 289 ~~~~~I~i~~~~~~~~-------------------~v~i~V~D~G~GI~~~~~~~iF~pf~~~~~-~~~~~G~GLGL~i~ 348 (380)
T PRK09303 289 PEGGTITLSMLHRTTQ-------------------KVQVSICDTGPGIPEEEQERIFEDRVRLPR-DEGTEGYGIGLSVC 348 (380)
T ss_pred CCCceEEEEEEecCCC-------------------EEEEEEEEcCCCCCHHHHHHHccCceeCCC-CCCCCcccccHHHH
Confidence 76 4555554433322 389999999999999999999999998876 33445999999999
Q ss_pred HHHHHHhCCEEEEEeecCCCcEEEEEEEEec
Q 005591 610 RRFVNLMGGHIWLDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 610 k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~ 640 (689)
|++++.|||+|+++|. +|+|++|+|++|+.
T Consensus 349 ~~iv~~~gG~i~v~s~-~~~Gt~f~i~lP~~ 378 (380)
T PRK09303 349 RRIVRVHYGQIWVDSE-PGQGSCFHFTLPVY 378 (380)
T ss_pred HHHHHHcCCEEEEEec-CCCccEEEEEEecC
Confidence 9999999999999999 89999999999974
No 14
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=100.00 E-value=5.1e-32 Score=334.56 Aligned_cols=278 Identities=25% Similarity=0.387 Sum_probs=223.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 005591 384 ALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQ-RVMIETVLKSSNLLTTLVDDVLDLSRLED 462 (689)
Q Consensus 384 ~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~-~~~l~~i~~~~~~l~~li~~ll~~sr~~~ 462 (689)
+++++++++.++.+++++|++.|+||+||||++|.++++++.+...+++. .+.++.+...++++..++++++++++.+.
T Consensus 697 ~l~~~~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~~l~~~~~~~~~l~~li~~ll~~~~~~~ 776 (1197)
T PRK09959 697 ALEVERNKAINATVAKSQFLATMSHEIRTPISSIMGFLELLSGSGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIES 776 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcChhhCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 34444555556667789999999999999999999999999876555544 56888999999999999999999999999
Q ss_pred CCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEee
Q 005591 463 GSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVA 542 (689)
Q Consensus 463 ~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~ 542 (689)
+...+..+++++.+++++++..++..+..+++.+.+..+...+..+.+|+.++.||+.||++||+||+++|.+.+.+...
T Consensus 777 ~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~d~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~ 856 (1197)
T PRK09959 777 GNYQLQPQWVDIPTLVQNTCHSFGAIAASKSIALSCSSTFPDHYLVKIDPQAFKQVLSNLLSNALKFTTEGAVKITTSLG 856 (1197)
T ss_pred CCceeeeeeeCHHHHHHHHHHHHHHHHHhcCcEEEEecCCCCceEEEECHHHHHHHHHHHHHHHHHhCCCCCEEEEEEEe
Confidence 98888889999999999999999999989999888765433344578899999999999999999999988877766543
Q ss_pred cCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEE
Q 005591 543 KPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWL 622 (689)
Q Consensus 543 ~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i 622 (689)
..+ ++...+.|+|.|+|+||+++.++++|+||++++... ...|+||||++||++++.|||+|++
T Consensus 857 ~~~---------------~~~~~~~i~V~D~G~Gi~~~~~~~iF~~f~~~~~~~-~~~G~GLGL~i~~~iv~~~gG~i~v 920 (1197)
T PRK09959 857 HID---------------DNHAVIKMTIMDSGSGLSQEEQQQLFKRYSQTSAGR-QQTGSGLGLMICKELIKNMQGDLSL 920 (1197)
T ss_pred eec---------------CCceEEEEEEEEcCCCCCHHHHHHhhccccccccCC-CCCCcCchHHHHHHHHHHcCCEEEE
Confidence 211 122348899999999999999999999999876432 3359999999999999999999999
Q ss_pred EeecCCCcEEEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhh
Q 005591 623 DSEGLDKGSTVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSR 684 (689)
Q Consensus 623 ~S~~~g~Gt~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r 684 (689)
+|. +|+||+|++.||+.......... +... .+.+.....+||||||++.+|..++
T Consensus 921 ~s~-~~~Gt~f~i~lP~~~~~~~~~~~----~~~~--~~~~~~~~~~iLivdd~~~~~~~l~ 975 (1197)
T PRK09959 921 ESH-PGIGTTFTITIPVEISQQVATVE----AKAE--QPITLPEKLSILIADDHPTNRLLLK 975 (1197)
T ss_pred EeC-CCCcEEEEEEEEccccchhcccc----cccc--cccccccCceEEEcCCCHHHHHHHH
Confidence 999 89999999999986543221110 0001 1112234579999999999998764
No 15
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=100.00 E-value=6.9e-31 Score=276.41 Aligned_cols=261 Identities=28% Similarity=0.444 Sum_probs=211.7
Q ss_pred CCccccchHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHH
Q 005591 340 GRKWRDHELELIDVVADQ-VAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAII 418 (689)
Q Consensus 340 ~~~w~~~e~~ll~~va~~-~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~ 418 (689)
.-.|++.|++....+-.- +.+.+.++ .++.+.+++++++++....|...++|+||+||+.|.
T Consensus 481 s~PWs~~ei~~A~~LR~aiv~ivl~~a-----------------eela~l~r~lersn~el~~f~yv~sHdlqePl~~I~ 543 (750)
T COG4251 481 SQPWSEVEIEAALELRKAIVGIVLRHA-----------------EELAQLRRELERSNAELRAFAYVASHDLQEPLRQIS 543 (750)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHhhhhHHHHHHHHHhhhhhhHHHHHHH
Confidence 356888888776655433 23333222 233444455566666677899999999999999999
Q ss_pred HHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCce
Q 005591 419 ALSSLLLET---DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLS 495 (689)
Q Consensus 419 ~~~~~L~~~---~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~ 495 (689)
+++++|.++ ..+++.++++..+.+.+..+.++|++++.++++.....++. +.++.+.+.++...+.......++.
T Consensus 544 ~~a~lL~~~~~~~~d~~~~~~i~~~~~~~~~~~~lidd~l~~s~l~~~~~~l~--~td~~~vv~~vl~~l~~ri~dtgae 621 (750)
T COG4251 544 NYAQLLSERYSDALDEEAKEFITFISRLTSLMQQLIDDLLTYSKLGLTEAPLQ--PTDVQKVVDKVLLELSQRIADTGAE 621 (750)
T ss_pred HHHHhhhhccccccChHHHHHHHHHHHHHHHHHHHHHHHhhhhhhccccCCCC--CcchHHHHHHHHHhcccccccccce
Confidence 999999864 67889999999999999999999999999999876655544 8899999999999999888878777
Q ss_pred EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCC
Q 005591 496 MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGC 575 (689)
Q Consensus 496 i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~ 575 (689)
+.+ .+ +|. +.+|+.++.|+++||+.||+||..++...+.+..+..+. .+.+.|.|||.
T Consensus 622 i~i--~~-lp~-v~~d~~~l~qv~~NLi~Naik~~~~e~~~i~I~~~r~ed------------------~~t~sV~dng~ 679 (750)
T COG4251 622 IRI--AP-LPV-VAADATQLGQVFQNLIANAIKFGGPENPDIEISAERQED------------------EWTFSVRDNGI 679 (750)
T ss_pred EEe--cc-cce-eecCHHHHHHHHHHHHhhheecCCCCCCceEEeeeccCC------------------ceEEEecCCCC
Confidence 775 44 776 778999999999999999999997764444444333321 18999999999
Q ss_pred CCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCC
Q 005591 576 GVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICN 643 (689)
Q Consensus 576 Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~ 643 (689)
||++...++||..|.+.+... ...|+|+||+|||+|++.|+|+||++|+ +|.|+||.|++|.....
T Consensus 680 Gi~~a~~~riF~iFqRl~s~~-~y~gtG~GL~I~kkI~e~H~G~i~vEs~-~gEgsTF~f~lp~~~~e 745 (750)
T COG4251 680 GIDPAYFERIFVIFQRLHSRD-EYLGTGLGLAICKKIAERHQGRIWVEST-PGEGSTFYFTLPVGGEE 745 (750)
T ss_pred CcCHHHHHHHHHHHHhcCchh-hhcCCCccHHHHHHHHHHhCceEEEeec-CCCceeEEEEeecCCcC
Confidence 999999999999998866543 4458999999999999999999999999 99999999999986543
No 16
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=99.97 E-value=5.5e-29 Score=274.06 Aligned_cols=220 Identities=25% Similarity=0.384 Sum_probs=185.0
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDL-TPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 476 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~-~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ 476 (689)
++.+|+++++||+||||++|.++++++.+... ++...++++.+.+.++++..++++++++++.+.+........+++..
T Consensus 203 ~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~r~~~~~~~~~~~~~~~~~ 282 (430)
T PRK11006 203 ARRNFFANVSHELRTPLTVLQGYLEMMQDQPLEGALREKALHTMREQTQRMEGLVKQLLTLSKIEAAPTIDLNEKVDVPM 282 (430)
T ss_pred HHHHHHHHhHHHhcchHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccCCccCHHH
Confidence 34579999999999999999999999987543 45567889999999999999999999999988776666667899999
Q ss_pred HHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-cEEEEEEeecCCCCCCCCCCCc
Q 005591 477 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEF 555 (689)
Q Consensus 477 ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~ 555 (689)
+++.+...+.... .+++.+.++.+++. .+.+|+.++.|++.||++||+||+++| .+.+.+...++
T Consensus 283 ~~~~l~~~~~~~~-~~~~~i~~~~~~~~--~i~~d~~~l~~vl~NLl~NAik~~~~~~~I~i~~~~~~~----------- 348 (430)
T PRK11006 283 MLRVLEREAQTLS-QGKHTITFEVDNSL--KVFGNEDQLRSAISNLVYNAVNHTPEGTHITVRWQRVPQ----------- 348 (430)
T ss_pred HHHHHHHHHHHHh-cCCcEEEEecCCCc--eEEECHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEEcCC-----------
Confidence 9988887776554 57778888776554 367899999999999999999999764 45555544322
Q ss_pred CccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEE
Q 005591 556 YPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVT 634 (689)
Q Consensus 556 ~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~ 634 (689)
.+.|+|+|+|+||+++..+++|+||++.+...+ ...|+|+||++||++++.|||+|+++|. +|+||+|+
T Consensus 349 ---------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~~G~GLGL~ivk~iv~~~gG~i~i~s~-~~~Gt~f~ 418 (430)
T PRK11006 349 ---------GAEFSVEDNGPGIAPEHIPRLTERFYRVDKARSRQTGGSGLGLAIVKHALSHHDSRLEIESE-VGKGTRFS 418 (430)
T ss_pred ---------EEEEEEEEcCCCCCHHHHHHhccCcccccCCCCCCCCCCchHHHHHHHHHHHCCCEEEEEec-CCCceEEE
Confidence 289999999999999999999999998765433 3358999999999999999999999998 89999999
Q ss_pred EEEEecC
Q 005591 635 FLVKLGI 641 (689)
Q Consensus 635 ~~lPl~~ 641 (689)
+.+|...
T Consensus 419 i~lP~~~ 425 (430)
T PRK11006 419 FVLPERL 425 (430)
T ss_pred EEechHh
Confidence 9999753
No 17
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=99.97 E-value=2.4e-28 Score=249.99 Aligned_cols=500 Identities=15% Similarity=0.106 Sum_probs=364.9
Q ss_pred cchhhhhhhhhccccccchhhHHHHHHHH-HHHHHhhhc-----------CCCCCCCccCCCCC---chhhHHHHHHhh-
Q 005591 16 LCTPLLRINLNVVGCNLCLISCFTLYSLA-ILSYWLRQL-----------LDMESCDCIDTQWP---PDELLVRYQYIS- 79 (689)
Q Consensus 16 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-----------~~~~~~~~~~~~w~---~~~~~~~~~~vs- 79 (689)
+-+|+.+.-+++.+-.|-...|+..+.|+ +.+.++.-+ +.+-.| --.|-|= .. +.-.+|+.|
T Consensus 23 ~k~~lf~~lm~~~~~~~~k~~~~~iFSlf~im~ty~Gl~i~dsiaNtR~igv~~gG-llgGP~Vg~~vG-l~~GlhR~~m 100 (557)
T COG3275 23 SKTPLFIPLMQVTARLPHKLALYIIFSLFCIMGTYFGLHIDDSIANTRAIGVVMGG-LLGGPVVGIIVG-LTAGLHRYSM 100 (557)
T ss_pred hccHHHHHHHHhhcCCcceeehHHHHHHHHHhhceeccchhhhHHhhHHHHHHhcc-cccCChhhhhhh-hhhhhhhhhc
Confidence 34678777778888888999999998888 665544210 000000 0011111 11 234677765
Q ss_pred ----hHHHHHHHhhHHHHHHHHHhhcC--CCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHH
Q 005591 80 ----DILIALAYFSIPVELIYFVQKSA--FFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVS 153 (689)
Q Consensus 80 ----d~~ia~ay~~ip~~l~yf~~~~~--~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs 153 (689)
+..-++|+...++..+|+.++-. +.-....+..++++ .|++.+|+.|+++.+ |+..++.++.-+.+||.
T Consensus 101 Gg~ta~~c~iSti~~G~l~g~~~~~~~r~~R~~~p~~~~~v~~--~~E~lqM~iIL~~a~---~~~~av~lVs~i~iPMi 175 (557)
T COG3275 101 GGMTALSCAISTILEGLLGGLVHLYLIRRGRWDSPIVAALVGI--VAEMLQMLIILVIAR---PFADAVDLVSNIAIPMI 175 (557)
T ss_pred CCchhHHHHHHHHHHHHHHHHHHHHhhhccCCCCchHHHHHHH--HHHHHHHHHHhhccC---cHHHHHHHHhhccchhH
Confidence 45567888899999999875432 22225557777777 999999999999887 77788999999999999
Q ss_pred HHHHHHHHHHhhhhhhhccHHHHHHHHHHHHHHHHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCe
Q 005591 154 CITALMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEE 233 (689)
Q Consensus 154 ~~ta~~l~~~ip~~l~~~~~e~~~~~~a~~l~~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~ 233 (689)
+.+.++...|+..+++.+..++..+ +.+.++.+....+.... +|..++ .+-+..+++.+.+.+++++
T Consensus 176 l~Nsvgaa~fm~i~~~~~~~~E~~~--a~~a~~aL~iA~~tlpl----------fr~gfn-~es~~~va~Ii~~~~~~~A 242 (557)
T COG3275 176 LGNSVGAALFMRILLDRRAKFEKYA--AVQAKLALKIANKTLPL----------FRQGFN-EESLMKVAEIIYEELGAGA 242 (557)
T ss_pred hhcchhHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHhhhHH----------HHhhcC-hhhHHHHHHHHHHHhCCCe
Confidence 9999999999988888776555444 55666666666666555 333333 3456778889999999999
Q ss_pred EEEEcccCCCCeEEEEEecccccccCcccccCCchhHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeecccccc
Q 005591 234 CALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLS 313 (689)
Q Consensus 234 ~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~ 313 (689)
+++ ++++..+++......++..+.++..+....++++++.+....+.+ .. |.+..++..+++..|+
T Consensus 243 Vai-----Td~e~ilA~vg~g~dhhi~g~~i~s~~t~~ai~~g~vv~~~~~e~---~~--csh~~c~l~s~lViPL---- 308 (557)
T COG3275 243 VAI-----TDREKLLAFVGIGDDHHIPGKPIISSLTRKAIKTGEVVYADGNEV---YE--CSHPTCKLGSALVIPL---- 308 (557)
T ss_pred EEe-----cCHHHHHHhhcccccccCCCCeeccHHHHHHHhhCCEEEEccchh---hc--cCCCCCCcCCceEeec----
Confidence 998 666666777666666667778888889999999999888776665 22 4477788888888885
Q ss_pred CccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 314 NFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAE 393 (689)
Q Consensus 314 ~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~ 393 (689)
..++.++|.+.++...++.++..+.++.+.++..+...++ +.|.+++.+.+++.+-
T Consensus 309 ----------~~~g~ViGTiK~y~~~~~lis~~~r~la~Gia~l~SaQie--------------~ge~e~q~~ll~~AEi 364 (557)
T COG3275 309 ----------RGKGRVIGTIKLYEAKARLISSINRELAEGIAQLLSAQIE--------------AGEAERQRELLKQAEI 364 (557)
T ss_pred ----------ccCCceeeeEEEEeccHhHhhHHHHHHHHHHHHHHHHHHH--------------HhHHHHHHHHHHHHHH
Confidence 4445679999999999889999988888888877766552 2222223333444445
Q ss_pred HHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccc-ceee
Q 005591 394 KAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELD-NGPF 472 (689)
Q Consensus 394 ~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~-~~~~ 472 (689)
++.|++-+ +|.+.|-||+|... |+++.+..++++-++..|.|..- +.. .+.+
T Consensus 365 k~LqaQvn-----PHFLFNaLNTIsa~-------------------IR~npdkAreLil~LS~yfR~NL---~~~~~~~v 417 (557)
T COG3275 365 KALQAQVN-----PHFLFNALNTISAV-------------------IRRNPDKARELILYLSTYFRYNL---ENNTQEIV 417 (557)
T ss_pred HHHHhccC-----hHHHHHHHHHHHHH-------------------hcCChHHHHHHHHHHHHHHHHHh---cCCcceEe
Confidence 55565555 89999999999987 88888899999999999988543 333 4579
Q ss_pred eHHHHHHHHHHHHHhh-hh-cCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC-----CCCcEEEEEEeecCC
Q 005591 473 NLQIVLREVIKLIKPV-AS-CKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT-----KEGYVSIIASVAKPE 545 (689)
Q Consensus 473 ~L~~ll~~~~~~~~~~-~~-~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~-----~~g~i~i~~~~~~~~ 545 (689)
+|.+.++++-++++-. ++ ..++++.+++++.+.. .....-+++.|++||+||+ +.|.|.+++..++.+
T Consensus 418 ~L~kEl~~v~AYl~IEkARF~~rL~v~i~id~~l~~-----~~iP~filQPLVENAIKHG~~~~~~~g~V~I~V~~~d~~ 492 (557)
T COG3275 418 TLSKELEHVNAYLSIEKARFGDRLDVVIDIDEELRQ-----VQIPSFILQPLVENAIKHGISQLKDTGRVTISVEKEDAD 492 (557)
T ss_pred ehHHHHHHHHHHHHHHHHhcCCceEEEEecCHHHhh-----ccCchhhhhHHHHHHHHhcccchhcCCceEEEEEEeCCe
Confidence 9999999999998732 21 1234555555544321 1223467899999999997 358888888877654
Q ss_pred CCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCC---EEEE
Q 005591 546 SLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGG---HIWL 622 (689)
Q Consensus 546 ~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG---~I~i 622 (689)
+.++|+|||.|++++. ..|+|+||++++++++.+.| -+.+
T Consensus 493 --------------------l~i~VeDng~li~p~~-----------------~~g~giGL~nv~~RLk~lyG~~~gl~i 535 (557)
T COG3275 493 --------------------LRIEVEDNGGLIQPDE-----------------EDGTGIGLANVHKRLKLLYGDDEGLHI 535 (557)
T ss_pred --------------------EEEEEecCCCCcCCCC-----------------CCCCChHHHHHHHHHHHhcCccccceE
Confidence 9999999999998851 24789999999999999999 5899
Q ss_pred EeecCCCcEEEEEEEEecCCC
Q 005591 623 DSEGLDKGSTVTFLVKLGICN 643 (689)
Q Consensus 623 ~S~~~g~Gt~~~~~lPl~~~~ 643 (689)
++. +..||++.+++|.+...
T Consensus 536 ~~~-~q~gTri~f~lp~~~~~ 555 (557)
T COG3275 536 ESL-EQAGTRIIFRLPLQRTA 555 (557)
T ss_pred Eec-cCCCcEEEEEecCcccc
Confidence 998 78899999999997543
No 18
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.97 E-value=7.2e-33 Score=319.24 Aligned_cols=631 Identities=35% Similarity=0.419 Sum_probs=498.6
Q ss_pred cCCCCCCCccCC--CCCchhhHHHHHHhhhHHHHHHHhhHHHHHHHHHhhcCCCc-hhHHHHHHHHHHHHhhhhhHhHhh
Q 005591 53 LLDMESCDCIDT--QWPPDELLVRYQYISDILIALAYFSIPVELIYFVQKSAFFP-YRWVLMQFGSFIILCGLTHFISLW 129 (689)
Q Consensus 53 ~~~~~~~~~~~~--~w~~~~~~~~~~~vsd~~ia~ay~~ip~~l~yf~~~~~~~~-~~~~~~~f~~fi~~cg~thl~~i~ 129 (689)
+.+ .+|||++. .|+........++.+|++++.|||++|..++||..+...++ +.|....|..|+..|+.+|.+..|
T Consensus 27 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~ 105 (786)
T KOG0519|consen 27 GGE-DLCNCLDSPYSERSVLTALKPQISSDFLIASAYFSIPIELLYFVSKSAVFPLEAGVLSEFIAFDNLCGATHLLNGW 105 (786)
T ss_pred Cch-hhhhccccCccccchhhhhhhhhhhhhhhhhHhhccchhhcccccccccccceeccccchhhhhhhhhhcccchhh
Confidence 345 89999953 55445445688899999999999999999999999998875 999999999999999999999999
Q ss_pred h-ccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHH---HHHHHHHHhhhhchhHHhHHHHHHH
Q 005591 130 T-FTVHSKAVAVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTRELFLKNR---ADELDREMGLILTQEETGRHVRMLT 205 (689)
Q Consensus 130 ~-~~~~~~~~~~~~~~~k~~ta~vs~~ta~~l~~~ip~~l~~~~~e~~~~~~---a~~l~~~~~~~~~~~~~~~~l~~lt 205 (689)
+ +..+....+...+..+..++.+++.++...+..+|..+..+.++...+++ +.++.++...+..+.+.....++++
T Consensus 106 ~~~~~~~~~~~~~~t~~~~~~~~~~~~~a~~~~~~lP~~~~~~~~~~~~~~~~~~~~~l~~~~~~i~~s~~~~~~~~~~~ 185 (786)
T KOG0519|consen 106 TSYTSHRKQLILSETSTAILTAVVSCLTALNLVEVLPLLLLVKNRELELKQKVLHAAELDYEVGLINTSLETLSIVRMLT 185 (786)
T ss_pred hcCCccchhheeeeeheeheeeecccccccccccccchhhccchhhhhhhcccccchhhhhhhhhhhhhhheeeeeeeee
Confidence 9 55555556666677899999999999999999999999999999999999 9999999999999999999999999
Q ss_pred HHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccc----cccCcccccCCchhHHHhcccCceEe
Q 005591 206 HEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ----IQIGSSVPINLPIVTDVFNSAQAMRL 281 (689)
Q Consensus 206 ~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~v~~v~~~~~~~~l 281 (689)
+.++.+.+++.+++++..+..+.+..+.++.|++.+.+......|++... .......+..+++...++++......
T Consensus 186 ~~~~~~~~r~~~l~~~~~~~~~~~~~~e~~~~~~sq~~~~~~~sHeir~p~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~ 265 (786)
T KOG0519|consen 186 HEIRAALDRHTILKTTLVELQKKLASDEAAVWSPSQKGFLATLSHEIRTPLNGGMLGGLSDTDLDSDQRLILNTDRVSAK 265 (786)
T ss_pred eehhhhhchhhhhhHHHHHHHHHhhcchhcccCccchhhcccccceeecccccCcceEEeccccchHHHHHHHHHhhhcc
Confidence 99999999999999999999999999999999999988777788887765 22233455566777777777666555
Q ss_pred cCCCcchhhhc-ccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHHHHHH
Q 005591 282 PYNCPLARIRL-LVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAV 360 (689)
Q Consensus 282 ~~~~~~~~~~~-~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~av 360 (689)
...+-....-. ...........+.++++.+..++....+++.....|+..++..+.+.++.|..++.++.++++++++.
T Consensus 266 ~~~s~ln~i~d~~~v~~g~~~l~~~rf~l~~ll~~~~~~~~e~~~~~~~~l~~~~~~~~p~~v~~de~~~~qv~~n~v~n 345 (786)
T KOG0519|consen 266 SLLSLLNDILDLSKVESGKGELVAKRFDLRTLLNFVISLLSELSQAKYAILVLDLSSGVPRNVRGDEARLRQVIANLVSN 345 (786)
T ss_pred ccchhHHHhhcccccccccceeeeeecchHhhhhhhhhhhHHHhhcCCeEEEEecCCCCcceeeccceeeeeeehhhccc
Confidence 54444433321 23345677888899999998888777799999999999999999999999999999999999999999
Q ss_pred HHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHH-hcCCCCHHHHHHH
Q 005591 361 ALS--HAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLL-LETDLTPEQRVMI 437 (689)
Q Consensus 361 al~--~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L-~~~~~~~e~~~~l 437 (689)
++. ++.-+++....++++.+++.+++.++++..++..++..+...+.|..++|.+.+.+....+ +.....++..-.+
T Consensus 346 aik~t~~~~i~~~~~~~~~~~~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i 425 (786)
T KOG0519|consen 346 AIKFTHAGHLEESVIAREELSESNDVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEI 425 (786)
T ss_pred eecccccceEEEEEEeehhcchhhHHHHhhhhhhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeE
Confidence 998 8888888999999999999999999999999999999999999999999999999998844 4445666667777
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHH
Q 005591 438 ETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQ 517 (689)
Q Consensus 438 ~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~q 517 (689)
+...+..+.+..+++.-.+.++...+........+.+..+++.......+....+.+.+.+.+..+.+..+.+|+.+.+|
T Consensus 426 ~~~~~~~~~~~~~~q~~~~~~~~~~gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~ 505 (786)
T KOG0519|consen 426 QTVMRSSNVFTSLIQADPDITRLYGGTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLDLLTNLPKSVVGDEKRLFQ 505 (786)
T ss_pred ehhhhhhhHHHHHhccccccccccCCCcccchhhccHHHHHHHHhhhhhhhccCceeeEEEEeccCCCccchhhhhhhhh
Confidence 88888888999999999999987767666677789999999999999999888888999998888888888899999999
Q ss_pred HHHHHHHHHhh--cCCCCcE-EEEEEeecCCCCC----CCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCc
Q 005591 518 TILNIVGNAVK--FTKEGYV-SIIASVAKPESLS----DWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFA 590 (689)
Q Consensus 518 vl~nLl~NAik--~~~~g~i-~i~~~~~~~~~~~----~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~ 590 (689)
++.+..+++.+ ++..++- .+.+.....+... +-..+.|....+..+.++.+.++++..|....+....+..+.
T Consensus 506 ~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~vd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~ 585 (786)
T KOG0519|consen 506 IILDFNGMLALLIDTKLGREQIFQVLAELLGISVDVSLSLSLAFWFLDLSLSDLEVCKQIEDNEEGSNNGDISSSNPLHK 585 (786)
T ss_pred hhhhhcchhhhhhccccCcceeEEEEecccCccccccccchhhhhhcccccccchheEEeeeccccccCCCcchhhhhhh
Confidence 99999999988 6666532 4444333221110 112223333333344468899999999988888887776666
Q ss_pred ccCCCCCC-CCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCCCCCC---CCCCCCccCCCCCCCCCCC
Q 005591 591 QSRGSSCQ-TPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICNNPGS---PIHPVALKGRASHGSADLT 666 (689)
Q Consensus 591 ~~~~~~~~-~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~~~~---~~~~~~~~~~~~~~~~~~~ 666 (689)
+......+ ..+.+++++.|.+..+.++|.+++.....+..-.....+-......... .....+.....+..+..++
T Consensus 586 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~l~ 665 (786)
T KOG0519|consen 586 SLRDLTSKLSSGSGLSLALCPENSQLMEGNIGLVPSSDGLPKSPSLCLEACLRVELNSMGSKLSGNPEKLAEPRDSKLLT 665 (786)
T ss_pred ccccchhhcccccccccccchhhHHhhhcccccccccccCCccHHHHHHhhccccccccccccCCCcccccCcccccccc
Confidence 65444433 2467899999999999999999987432232211111122221111111 0011111112223455679
Q ss_pred CCceEEecCchhhhhhhh
Q 005591 667 GPKPLFRDNDQIASTKSR 684 (689)
Q Consensus 667 g~~ILlvDDd~~nr~v~r 684 (689)
|++|||||||++||+|++
T Consensus 666 g~~iLlvddn~vn~~Va~ 683 (786)
T KOG0519|consen 666 GPKILLVDDNPVNRKVAT 683 (786)
T ss_pred CCceEEEecccchHHHHH
Confidence 999999999999999964
No 19
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=99.97 E-value=8.9e-29 Score=261.65 Aligned_cols=214 Identities=23% Similarity=0.398 Sum_probs=188.3
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHHHH---HHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeee
Q 005591 397 HARNDFRAVMNHEMRTLMHAIIALSS---LLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFN 473 (689)
Q Consensus 397 ~~~~~~~~~~sHelr~PL~~I~~~~~---~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~ 473 (689)
.+.+++.+.++||+++||.+|.++.+ .|.+....++.++.+..|..-.++|..+..++..|++..... ..++.
T Consensus 382 A~LGQmSA~iaHElNQPLaaiRt~adna~~lLergr~e~a~~Nl~~I~~LteRma~It~~Lk~FArk~~~a----~~~v~ 457 (603)
T COG4191 382 AALGQMSAGIAHELNQPLAAIRTYADNARLLLERGRTEEARENLERISALTERMAAITAHLKSFARKSRDA----AGPVS 457 (603)
T ss_pred HHHHHHHHHHHHHhcCcHHHHHhHHHHHHHHHHcCChHHHHhHHHHHHHHHHHHHHHHHHHHHHhccCccc----cCCcc
Confidence 36778999999999999999998875 456777888999999999999999999999999999976544 44899
Q ss_pred HHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC---CCcEEEEEEeecCCCCCCC
Q 005591 474 LQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK---EGYVSIIASVAKPESLSDW 550 (689)
Q Consensus 474 L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~---~g~i~i~~~~~~~~~~~~~ 550 (689)
+.+.|+++...+....+..+..+....++. |.+|++++.+|+||+.||+.||+++.. ++.+.|....+++.
T Consensus 458 l~~ai~~Al~ll~~R~~~~~~~l~~~~~~~-~~~V~~~~iRLeQVLvNLl~NALDA~~~~~~~~i~i~~~~~~~~----- 531 (603)
T COG4191 458 LREAIEGALELLRGRLRAAGVELELDLPDA-PLWVMANEIRLEQVLVNLLQNALDAMAGQEDRRLSIRAQREGGQ----- 531 (603)
T ss_pred HHHHHHHHHHHHHHhhhccCceeeccCCCC-CceeecchhhHHHHHHHHHHHHHHHhcCCCCCeeEEEEEecCCe-----
Confidence 999999999999998888888888766443 567999999999999999999999874 46677777665543
Q ss_pred CCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCc
Q 005591 551 RPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKG 630 (689)
Q Consensus 551 ~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~G 630 (689)
+.|+|+|||+||+++...++|+||+++|+.. +|.||||+|++.|++.+||+|++.+. ++.|
T Consensus 532 ---------------v~l~VrDnGpGi~~e~~~~lFePF~TtK~~~---~GLGLGLaIS~~i~~d~GGsL~v~n~-~~~G 592 (603)
T COG4191 532 ---------------VVLTVRDNGPGIAPEALPHLFEPFFTTKPVG---KGLGLGLAISQNIARDLGGSLEVANH-PEGG 592 (603)
T ss_pred ---------------EEEEEccCCCCCCHHHHHhhcCCccccCccc---CCcchhHHHHHHHHHHhCCeEEeecC-CCCc
Confidence 9999999999999999999999999998654 69999999999999999999999987 8999
Q ss_pred EEEEEEEEe
Q 005591 631 STVTFLVKL 639 (689)
Q Consensus 631 t~~~~~lPl 639 (689)
++|++.||.
T Consensus 593 a~F~i~L~~ 601 (603)
T COG4191 593 ASFTIELRR 601 (603)
T ss_pred eEEEEEeec
Confidence 999999985
No 20
>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=99.97 E-value=1e-28 Score=276.48 Aligned_cols=219 Identities=21% Similarity=0.258 Sum_probs=170.0
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHH
Q 005591 396 IHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 475 (689)
Q Consensus 396 ~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~ 475 (689)
.+...+++..++|++||||+.|.++++++.+...+.......+.+.+....+...+..+.++.. ........++|+.
T Consensus 273 ~~~l~~~~~~~~h~lr~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~~~~dl~ 349 (494)
T TIGR02938 273 LEAIRETLSAAIHRLQGPMNLISAAISVLQRRGDDAGNPASAAMLQQALSAGREHMEALRQVIP---QSPQEIVVPVNLN 349 (494)
T ss_pred HHHHHHHHHHHHHHHhcHHHHHHHHHHHHHhccccccCHHHHHHHHHHHHHHHHHHHHHHHhhc---cCcccccccccHH
Confidence 3445667888889999999999999999986533333333344444444444445555544432 1223445689999
Q ss_pred HHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCc---EEEEEEeecCCCCCCCCC
Q 005591 476 IVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGY---VSIIASVAKPESLSDWRP 552 (689)
Q Consensus 476 ~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~---i~i~~~~~~~~~~~~~~~ 552 (689)
.++++++..+...+..+++.+.+..+...|. +.+|+.++.||+.||+.||+||++.+. ..+.+.....+
T Consensus 350 ~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-v~~d~~~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~------- 421 (494)
T TIGR02938 350 QILRDVITLSTPRLLAAGIVVDWQPAATLPA-ILGRELQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNG------- 421 (494)
T ss_pred HHHHHHHHHhHHHHHhCCCEEEEecCCCCCe-eecCHHHHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecC-------
Confidence 9999999999988888999999988777764 778999999999999999999986542 22333322221
Q ss_pred CCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEE
Q 005591 553 PEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGST 632 (689)
Q Consensus 553 ~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~ 632 (689)
..+.|+|+|||+|||++.+.++|+||++++... ..|+||||++||++++.|||+|+++|+ +|+||+
T Consensus 422 -----------~~~~~~V~D~G~Gi~~~~~~~iF~~f~~~~~~~--~~G~GlGL~i~~~iv~~~gG~i~~~s~-~~~G~~ 487 (494)
T TIGR02938 422 -----------DLIVVSILDSGPGIPQDLRYKVFEPFFTTKGGS--RKHIGMGLSVAQEIVADHGGIIDLDDD-YSEGCR 487 (494)
T ss_pred -----------CEEEEEEEeCCCCCCHHHHHHhcCCCcccCCCC--CCCCcccHHHHHHHHHHcCCEEEEEEC-CCCCEE
Confidence 148999999999999999999999999987543 459999999999999999999999999 899999
Q ss_pred EEEEEEe
Q 005591 633 VTFLVKL 639 (689)
Q Consensus 633 ~~~~lPl 639 (689)
|+|+||+
T Consensus 488 f~i~lp~ 494 (494)
T TIGR02938 488 IIVEFRV 494 (494)
T ss_pred EEEEecC
Confidence 9999995
No 21
>PRK10364 sensor protein ZraS; Provisional
Probab=99.97 E-value=1.7e-26 Score=256.37 Aligned_cols=215 Identities=25% Similarity=0.430 Sum_probs=185.6
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeH
Q 005591 396 IHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 474 (689)
Q Consensus 396 ~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~-~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L 474 (689)
....+++...++||+||||++|.++++++.+.. ..++.++.++.+.+.++++..++++++++++.. .....++++
T Consensus 234 l~~~~~~~~~laHelrtpL~~i~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~ll~~~~~~----~~~~~~~~l 309 (457)
T PRK10364 234 LVALGHLAAGVAHEIRNPLSSIKGLAKYFAERAPAGGEAHQLAQVMAKEADRLNRVVSELLELVKPT----HLALQAVDL 309 (457)
T ss_pred HHHHHHHHHHhhHHhccHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC----CCcceEecH
Confidence 345678999999999999999999999988653 345667788999999999999999999998843 345568999
Q ss_pred HHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCC
Q 005591 475 QIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPP 553 (689)
Q Consensus 475 ~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~ 553 (689)
.++++++...+...+..+++.+.++.++..+. +.+|+.++.+++.||++||+||+++ +.+.+.+...++.
T Consensus 310 ~~~l~~~~~~~~~~~~~~~i~l~~~~~~~~~~-~~~d~~~l~~il~NLl~NA~k~~~~~~~I~i~~~~~~~~-------- 380 (457)
T PRK10364 310 NDLINHSLQLVSQDANSREIQLRFTANDTLPE-IQADPDRLTQVLLNLYLNAIQAIGQHGVISVTASESGAG-------- 380 (457)
T ss_pred HHHHHHHHHHHHHHHHhcCeEEEEEcCCCCce-EEECHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEEeCCe--------
Confidence 99999999999999999999999988776554 6679999999999999999999764 5677766654332
Q ss_pred CcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEE
Q 005591 554 EFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTV 633 (689)
Q Consensus 554 ~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~ 633 (689)
+.|+|+|||+||+++..+++|++|++++. .|+|+||++||++++.|||+++++|. +|+||+|
T Consensus 381 ------------~~i~V~D~G~Gi~~~~~~~if~~~~~~k~-----~g~GlGL~iv~~~v~~~gG~i~i~s~-~~~Gt~f 442 (457)
T PRK10364 381 ------------VKISVTDSGKGIAADQLEAIFTPYFTTKA-----EGTGLGLAVVHNIVEQHGGTIQVASQ-EGKGATF 442 (457)
T ss_pred ------------EEEEEEECCCCCCHHHHHHHhCccccCCC-----CCCcccHHHHHHHHHHCCCEEEEEeC-CCCcEEE
Confidence 89999999999999999999999997652 47899999999999999999999998 8999999
Q ss_pred EEEEEecC
Q 005591 634 TFLVKLGI 641 (689)
Q Consensus 634 ~~~lPl~~ 641 (689)
++.||...
T Consensus 443 ~i~lP~~~ 450 (457)
T PRK10364 443 TLWLPVNI 450 (457)
T ss_pred EEEecCCC
Confidence 99999853
No 22
>PRK10604 sensor protein RstB; Provisional
Probab=99.97 E-value=3.4e-28 Score=267.65 Aligned_cols=231 Identities=21% Similarity=0.292 Sum_probs=189.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005591 381 QNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRL 460 (689)
Q Consensus 381 ~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~ 460 (689)
....+.+..++.++..+.+.+|.+.++||+||||+.|.+.++++.... +++ . +.+.+..+++..++++++.+++.
T Consensus 194 L~~~fn~m~~~l~~~~~~~~~l~~~vsHeLrtPL~~i~~~l~~l~~~~-~~~-~---~~i~~~~~~l~~li~~ll~~~rl 268 (433)
T PRK10604 194 LGVAFNQMADNINALIASKKQLIDGIAHELRTPLVRLRYRLEMSDNLS-AAE-S---QALNRDIGQLEALIEELLTYARL 268 (433)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHhhcChHHHHHHHHHHhcCCC-cHH-H---HHHHHHHHHHHHHHHHHHHHHhc
Confidence 334445555666666777889999999999999999999988886322 222 2 23778899999999999999999
Q ss_pred hcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEE
Q 005591 461 EDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIAS 540 (689)
Q Consensus 461 ~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~ 540 (689)
+.+......+++++.+++++++..++.....+++.+.+ +.. +..+.+|+..+.+++.||++||+||++ +.+.+.+.
T Consensus 269 ~~~~~~~~~~~~~l~~~l~~~i~~~~~~~~~~~i~~~~--~~~-~~~~~~d~~~l~~vl~NLl~NAik~~~-~~I~I~~~ 344 (433)
T PRK10604 269 DRPQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLDT--PHQ-GDYGALDMRLMERVLDNLLNNALRYAH-SRVRVSLL 344 (433)
T ss_pred cCCCcccCCCCCCHHHHHHHHHHHHHHHhhcCcEEEEe--cCC-CceEecCHHHHHHHHHHHHHHHHHhCC-CeEEEEEE
Confidence 98888888889999999999999988776666655554 333 234667999999999999999999985 67777776
Q ss_pred eecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCC-CCCccchHHHHHHHHHHhCCE
Q 005591 541 VAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQ-TPRAGLGLAICRRFVNLMGGH 619 (689)
Q Consensus 541 ~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~-~~g~GLGL~i~k~iv~~~gG~ 619 (689)
..++. +.|+|+|||+||+++..+++|+||++.+..... ..|.|+||++||++++.|||+
T Consensus 345 ~~~~~--------------------~~I~V~D~G~Gi~~e~~~~if~~f~r~~~~~~~~~~g~GLGL~ivk~i~~~~gG~ 404 (433)
T PRK10604 345 LDGNQ--------------------ACLIVEDDGPGIPPEERERVFEPFVRLDPSRDRATGGCGLGLAIVHSIALAMGGS 404 (433)
T ss_pred EECCE--------------------EEEEEEEcCCCCCHHHHhhcCCCCccCCCCCCCCCCCccchHHHHHHHHHHCCCE
Confidence 65432 899999999999999999999999987655433 348999999999999999999
Q ss_pred EEEEeecCCCcEEEEEEEEecC
Q 005591 620 IWLDSEGLDKGSTVTFLVKLGI 641 (689)
Q Consensus 620 I~i~S~~~g~Gt~~~~~lPl~~ 641 (689)
+++++. +++||+|++.+|...
T Consensus 405 i~v~s~-~~~G~~f~i~lP~~~ 425 (433)
T PRK10604 405 VNCDES-ELGGARFSFSWPVWH 425 (433)
T ss_pred EEEEec-CCCeeEEEEEEeCCC
Confidence 999998 899999999999864
No 23
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=99.96 E-value=2.4e-28 Score=237.38 Aligned_cols=222 Identities=25% Similarity=0.338 Sum_probs=183.9
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHH
Q 005591 397 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 476 (689)
Q Consensus 397 ~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ 476 (689)
++-..+.+.++||+||||.+|.|.+++|.....++..+++.+.|.+.++|+.++++.+.-++. ..+....++++|.
T Consensus 130 ~a~~~L~r~LAHEIKNPL~GiRGAAQLLe~~lpd~~~~~lt~lIieE~DRl~~LVDRme~~~~----~rp~~r~~~NIH~ 205 (363)
T COG3852 130 RAVKGLVRGLAHEIKNPLGGIRGAAQLLERALPDEALRELTQLIIEEADRLRNLVDRLEVLGP----QRPGDRVPVNIHE 205 (363)
T ss_pred HHHHHHHHHHHHHhcCcccchhhHHHHHHhhCCChHHHHHHHHHHHHHHHHHHHHHHHHhcCC----CCCcccccchHHH
Confidence 345678899999999999999999999998877777899999999999999999999966654 2344555899999
Q ss_pred HHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC---C--CcEEEEEEeecCCCCCCCC
Q 005591 477 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK---E--GYVSIIASVAKPESLSDWR 551 (689)
Q Consensus 477 ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~---~--g~i~i~~~~~~~~~~~~~~ 551 (689)
+++.+....+..+ ..++.+.-+.++++|. +.+|++++.|++.||+.||..+.. . |.|+++.+....-
T Consensus 206 VLerV~~lv~~e~-~~~i~l~rdYDPSLP~-v~~d~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~------ 277 (363)
T COG3852 206 VLERVRALVEAEF-ADNVRLIRDYDPSLPE-VLGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQL------ 277 (363)
T ss_pred HHHHHHHHHhccc-CCceEEeecCCCCCcc-ccCCHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEE------
Confidence 9999999988655 4688888899999998 778999999999999999999765 2 6666655322110
Q ss_pred CCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcE
Q 005591 552 PPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGS 631 (689)
Q Consensus 552 ~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt 631 (689)
+.........+.++|.|||+|+|++.++.+|.||.+++. .|+||||+++++++..|||.|+++|. | +.|
T Consensus 278 ----~i~g~r~rl~l~leViDNGPGVP~~L~~~lF~P~Vs~r~-----~GsGLGLala~~li~qH~G~Ie~~S~-P-g~T 346 (363)
T COG3852 278 ----TIAGTRYRLALPLEVIDNGPGVPPDLQDHLFYPMVSGRE-----GGTGLGLALAQNLIDQHGGKIEFDSW-P-GRT 346 (363)
T ss_pred ----EccCceeEeeeeeEEecCCCCCChHHhhhccccccccCC-----CCccccHHHHHHHHHhcCCEEEEecc-C-Cce
Confidence 001111223477899999999999999999999998764 48999999999999999999999998 4 579
Q ss_pred EEEEEEEecC
Q 005591 632 TVTFLVKLGI 641 (689)
Q Consensus 632 ~~~~~lPl~~ 641 (689)
+|++.+|+..
T Consensus 347 ~FrvllP~~~ 356 (363)
T COG3852 347 VFRVLLPIRK 356 (363)
T ss_pred EEEEEeeccc
Confidence 9999999976
No 24
>PRK10815 sensor protein PhoQ; Provisional
Probab=99.96 E-value=1.1e-27 Score=266.25 Aligned_cols=229 Identities=19% Similarity=0.282 Sum_probs=190.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 005591 383 VALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLE 461 (689)
Q Consensus 383 ~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~-~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~ 461 (689)
+.+.+..++.++..+...+|++.++||+||||+.|.+.++.+.+.. .+.+ +....+.+...++..+++++++.++.+
T Consensus 250 ~~ln~~l~~~~~~~~~~~~~l~~isHELRTPLt~I~~~l~~L~~~~~~~~~--~~~~~~~~~i~ri~~~i~~ll~~~~~~ 327 (485)
T PRK10815 250 RNLNRLLKNERERYTKYRTTLTDLTHSLKTPLAVLQSTLRSLRSGKQMSVE--QAEPIMLEQISRISQQIGYYLHRASMR 327 (485)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3444444445555666778999999999999999999999987654 3322 333557788889999999999999988
Q ss_pred cCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEe
Q 005591 462 DGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASV 541 (689)
Q Consensus 462 ~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~ 541 (689)
.+...+..+.+++..+++++++.+...+..+++.+.++++++. .+.+|+..+.+++.||++||+||+.. .+.+.+..
T Consensus 328 ~~~~~~~~~~~~l~~ll~~~~~~l~~~~~~~~i~i~~~~~~~~--~v~~d~~~l~~vl~NLi~NAik~~~~-~i~I~~~~ 404 (485)
T PRK10815 328 SEHNLLSRELHSVAPLLDNLTSALNKVYQRKGVNITLDISPEI--TFVGEKNDFMEVMGNVLDNACKYCLE-FVEISARQ 404 (485)
T ss_pred cCCcccccceecHHHHHHHHHHHHHHHHHHCCcEEEEecCCCc--EEEeCHHHHHHHHHHHHHHHHHhcCC-cEEEEEEE
Confidence 8777778889999999999999999988899999998876543 36689999999999999999999975 46666554
Q ss_pred ecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEE
Q 005591 542 AKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIW 621 (689)
Q Consensus 542 ~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~ 621 (689)
.++ .+.|.|+|+|+||+++.++++|+||++.+.. ..|+|+||++||++++.|||+|+
T Consensus 405 ~~~--------------------~v~I~V~D~G~GI~~e~~~~iF~~f~~~~~~---~~G~GLGL~Ivk~iv~~~gG~i~ 461 (485)
T PRK10815 405 TDE--------------------HLHIVVEDDGPGIPESKRELIFDRGQRADTL---RPGQGLGLSVAREITEQYEGKIS 461 (485)
T ss_pred eCC--------------------EEEEEEEECCCCcCHHHHHHHhCCcccCCCC---CCCcchhHHHHHHHHHHcCCEEE
Confidence 332 3899999999999999999999999976432 24899999999999999999999
Q ss_pred EEeecCCCcEEEEEEEEec
Q 005591 622 LDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 622 i~S~~~g~Gt~~~~~lPl~ 640 (689)
++|. +++||+|++.||.+
T Consensus 462 v~s~-~~~Gt~f~i~lp~~ 479 (485)
T PRK10815 462 AGDS-PLGGARMEVIFGRQ 479 (485)
T ss_pred EEEC-CCCEEEEEEEEcCC
Confidence 9998 89999999999975
No 25
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=99.95 E-value=1.4e-26 Score=248.66 Aligned_cols=212 Identities=20% Similarity=0.239 Sum_probs=172.7
Q ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeH-HHH
Q 005591 399 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL-QIV 477 (689)
Q Consensus 399 ~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L-~~l 477 (689)
...|.+.++||+||||+.+.+.++++.+... + ..+.+.+..+++...+++++++++............+++ +++
T Consensus 137 ~~~~~~~~sHelrtPL~~i~~~~e~l~~~~~-~----~~~~~~~~~~~l~~~i~~ll~~~r~~~~~~~~~~~~~~l~~~~ 211 (356)
T PRK10755 137 ERLFTADVAHELRTPLAGIRLHLELLEKQHH-I----DVAPLIARLDQMMHTVEQLLQLARAGQSFSSGHYQTVKLLEDV 211 (356)
T ss_pred HHHHHHHhhHhhcChHHHHHHHHHHHHhccc-h----hHHHHHHHHHHHHHHHHHHHHHHHcccccccccchhhhHHHHH
Confidence 4468899999999999999999988875432 1 233455667889999999999999766555555667888 899
Q ss_pred HHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcC
Q 005591 478 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFY 556 (689)
Q Consensus 478 l~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~ 556 (689)
+..+...+...+..+++.+.+...+ .+..+.+|+..+.+++.||++||+||+++ +.+.+.+...++
T Consensus 212 i~~~~~~~~~~~~~~~~~~~~~~~~-~~~~v~~d~~~l~~il~nLi~NA~k~~~~~~~I~I~~~~~~~------------ 278 (356)
T PRK10755 212 ILPSQDELSEMLEQRQQTLLLPESA-ADITVQGDATLLRLLLRNLVENAHRYSPEGSTITIKLSQEDG------------ 278 (356)
T ss_pred HHHHHHHHHHHHHHhCCeEEeccCC-CceEEEECHHHHHHHHHHHHHHHHhhCCCCCcEEEEEEEcCC------------
Confidence 9998888888888888888774333 34457889999999999999999999965 456666644332
Q ss_pred ccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCC-CcEEEEE
Q 005591 557 PVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLD-KGSTVTF 635 (689)
Q Consensus 557 ~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g-~Gt~~~~ 635 (689)
.+.|+|+|||+||+++..+++|++|++.+. ...|+|+||++|+++++.|||+++++|. ++ +||+|++
T Consensus 279 --------~~~i~V~D~G~Gi~~~~~~~if~~f~~~~~---~~~g~GlGL~i~~~i~~~~gg~i~i~s~-~~~~Gt~~~i 346 (356)
T PRK10755 279 --------GAVLAVEDEGPGIDESKCGELSKAFVRMDS---RYGGIGLGLSIVSRITQLHHGQFFLQNR-QERSGTRAWV 346 (356)
T ss_pred --------EEEEEEEECCCCCCHHHHHHhCCCeEeCCC---CCCCcCHHHHHHHHHHHHCCCEEEEEEC-CCCCeEEEEE
Confidence 289999999999999999999999997543 2358999999999999999999999998 77 9999999
Q ss_pred EEEec
Q 005591 636 LVKLG 640 (689)
Q Consensus 636 ~lPl~ 640 (689)
.+|..
T Consensus 347 ~~p~~ 351 (356)
T PRK10755 347 WLPKA 351 (356)
T ss_pred EecCC
Confidence 99864
No 26
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=99.95 E-value=1.4e-26 Score=257.94 Aligned_cols=241 Identities=26% Similarity=0.354 Sum_probs=201.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 377 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 456 (689)
Q Consensus 377 ~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~ 456 (689)
++.+..+++.+...+.++..+.+.++.+.++||+++||+.+.+.++.+++.... ...+.+..+...++++..+++++.+
T Consensus 218 E~~~l~~~~n~m~~~l~~~~~~~~~~~~~~shel~~pL~~i~~~~~~l~~~~~~-~~~~~l~~~~~~~~~l~~li~~l~~ 296 (466)
T PRK10549 218 ELGRLAQDFNQLASTLEKNEQMRRDFMADISHELRTPLAVLRGELEAIQDGVRK-FTPESVASLQAEVGTLTKLVDDLHQ 296 (466)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhCChHHHHHHHHHHHHhcccc-CCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555556666666677788999999999999999999999999865322 2345577788899999999999999
Q ss_pred HhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcE
Q 005591 457 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYV 535 (689)
Q Consensus 457 ~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i 535 (689)
+++.+.+...+..+++++.+++++++..++.....+++.+.++.++.. .+.+|+..+.|++.||+.||++|+++ |.+
T Consensus 297 l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~i~i~~~~~~~~--~~~~d~~~l~qvl~nll~NAi~~~~~~~~I 374 (466)
T PRK10549 297 LSLSDEGALAYRKTPVDLVPLLEVAGGAFRERFASRGLTLQLSLPDSA--TVFGDPDRLMQLFNNLLENSLRYTDSGGSL 374 (466)
T ss_pred HHhhcCCCcccccCCCCHHHHHHHHHHHHHHHHHHCCcEEEEecCCCc--EEEeCHHHHHHHHHHHHHHHHHhCCCCCEE
Confidence 999888888888899999999999999999888888899888776543 35679999999999999999999876 566
Q ss_pred EEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHHHH
Q 005591 536 SIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRFVN 614 (689)
Q Consensus 536 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~iv~ 614 (689)
.+.+...++ .+.|.|.|||+||+++.++++|+||++.+.... ...|+|+||++|+++++
T Consensus 375 ~i~~~~~~~--------------------~~~i~V~D~G~Gi~~e~~~~lf~~~~~~~~~~~~~~~g~GlGL~iv~~i~~ 434 (466)
T PRK10549 375 HISAEQRDK--------------------TLRLTFADSAPGVSDEQLQKLFERFYRTEGSRNRASGGSGLGLAICLNIVE 434 (466)
T ss_pred EEEEEEcCC--------------------EEEEEEEecCCCcCHHHHHHhccCcccCCCCcCCCCCCCcHHHHHHHHHHH
Confidence 666655433 389999999999999999999999998765433 23489999999999999
Q ss_pred HhCCEEEEEeecCCCcEEEEEEEEecC
Q 005591 615 LMGGHIWLDSEGLDKGSTVTFLVKLGI 641 (689)
Q Consensus 615 ~~gG~I~i~S~~~g~Gt~~~~~lPl~~ 641 (689)
.|||+++++|. +++||+|++.||+..
T Consensus 435 ~~~G~l~~~s~-~~~G~~~~i~lP~~~ 460 (466)
T PRK10549 435 AHNGRIIAAHS-PFGGVSITVELPLER 460 (466)
T ss_pred HcCCEEEEEEC-CCCeEEEEEEccCCC
Confidence 99999999998 899999999999854
No 27
>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=99.95 E-value=2.4e-26 Score=265.40 Aligned_cols=239 Identities=19% Similarity=0.283 Sum_probs=199.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 377 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 456 (689)
Q Consensus 377 ~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~ 456 (689)
++.+..+.+.+...++++..+...+|.+.++||+|||++.|.+.++.+.....+++..++++.+.+.++++..+++++.+
T Consensus 463 EIg~La~afn~M~~~L~~~~~~l~~~s~~lSHELrtPL~~I~~~le~L~~~~~~~~~~~~le~i~~~i~~L~~li~~l~~ 542 (703)
T TIGR03785 463 EIGDLSRSFAQMVARLRQYTHYLENMSSRLSHELRTPVAVVRSSLENLELQALEQEKQKYLERAREGTERLSMILNNMSE 542 (703)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444555566666677777788899999999999999999999999988777888888999999999999999999999
Q ss_pred HhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcE
Q 005591 457 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYV 535 (689)
Q Consensus 457 ~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i 535 (689)
+++.+.+......+++++.++++++++.++.....+++.+.+. .+ +..+.+|+..+.+++.||+.||+||+++ +.|
T Consensus 543 ~arle~~~~~~~~~~~dl~~ll~~~i~~~~~~~~~~~i~l~i~--~~-~~~i~~d~~~L~~il~NLI~NAik~s~~~~~I 619 (703)
T TIGR03785 543 ATRLEQAIQSAEVEDFDLSEVLSGCMQGYQMTYPPQRFELNIP--ET-PLVMRGSPELIAQMLDKLVDNAREFSPEDGLI 619 (703)
T ss_pred HHhhhcccccccceeecHHHHHHHHHHHHHHHhhcCCEEEEec--CC-CeEEEECHHHHHHHHHHHHHHHHHHCCCCCeE
Confidence 9998877667777899999999999999988877666666553 33 2357889999999999999999999976 445
Q ss_pred EEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCC-CCccchHHHHHHHHH
Q 005591 536 SIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQT-PRAGLGLAICRRFVN 614 (689)
Q Consensus 536 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~-~g~GLGL~i~k~iv~ 614 (689)
.+.+...++ .+.|+|+|+|+||+++..+++|++|++.+...... .|+||||++||++++
T Consensus 620 ~I~~~~~~~--------------------~v~I~V~D~G~GI~~e~~~~IFe~F~t~~~~~~~~~~g~GLGL~Ivr~Iv~ 679 (703)
T TIGR03785 620 EVGLSQNKS--------------------HALLTVSNEGPPLPEDMGEQLFDSMVSVRDQGAQDQPHLGLGLYIVRLIAD 679 (703)
T ss_pred EEEEEEcCC--------------------EEEEEEEEcCCCCCHHHHHHHhCCCeecCCCCCCCCCCccHHHHHHHHHHH
Confidence 555544332 38999999999999999999999999876444333 489999999999999
Q ss_pred HhCCEEEEEeecCCCcEEEEEEEE
Q 005591 615 LMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 615 ~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
.|||+|++++...+.|++|+++||
T Consensus 680 ~~gG~I~v~s~~~g~Gt~f~I~LP 703 (703)
T TIGR03785 680 FHQGRIQAENRQQNDGVVFRISLP 703 (703)
T ss_pred HcCCEEEEEECCCCCeEEEEEEeC
Confidence 999999999983348999999997
No 28
>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=99.95 E-value=1.4e-25 Score=249.17 Aligned_cols=237 Identities=25% Similarity=0.410 Sum_probs=198.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 376 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDV 454 (689)
Q Consensus 376 ~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~-~~~e~~~~l~~i~~~~~~l~~li~~l 454 (689)
+++.+...++....+++++..+...++...++||+||||+.+.+.++.+.... ..++..+.++.+.+..+++..+++++
T Consensus 218 dEi~~l~~~~n~m~~~l~~~~~~~~~~~~~~~h~l~tpl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~l 297 (457)
T TIGR01386 218 AELRELAQSFNAMLGRLEDAFQRLSQFSADLAHELRTPLTNLLGQTQVALSQPRTGEEYREVLESNLEELERLSRMVSDM 297 (457)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhcCcHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555556666666677777777888999999999999999999998876543 33455678888888999999999999
Q ss_pred HHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-C
Q 005591 455 LDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-G 533 (689)
Q Consensus 455 l~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g 533 (689)
+++++.+........+++++.++++++.+.+...+..+++.+.++ .+ ..+.+|+..+.+++.|+++||+||+++ +
T Consensus 298 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~--~~--~~~~~~~~~l~~~~~nll~Nai~~~~~~~ 373 (457)
T TIGR01386 298 LFLARADNGQLALERVRLDLAAELAKVAEYFEPLAEERGVRIRVE--GE--GLVRGDPQMFRRAISNLLSNALRHTPDGG 373 (457)
T ss_pred HHHHHhhcccccccccccCHHHHHHHHHHHHHHHHHhCCeEEEec--CC--ceEEECHHHHHHHHHHHHHHHHHcCCCCc
Confidence 999999888888888899999999999999998888888776654 32 347889999999999999999999976 5
Q ss_pred cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHH
Q 005591 534 YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRF 612 (689)
Q Consensus 534 ~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~i 612 (689)
.|.+.+...++ .+.|+|.|+|+||+++..+++|++||+++...+ ...|+|+||++|+++
T Consensus 374 ~I~i~~~~~~~--------------------~~~i~v~D~G~g~~~~~~~~~~~~~~~~~~~~~~~~~g~GlGL~i~~~~ 433 (457)
T TIGR01386 374 TITVRIERRSD--------------------EVRVSVSNPGPGIPPEHLSRLFDRFYRVDPARSNSGEGTGLGLAIVRSI 433 (457)
T ss_pred eEEEEEEecCC--------------------EEEEEEEeCCCCCCHHHHHHhccccccCCcccCCCCCCccccHHHHHHH
Confidence 67776665433 289999999999999999999999998765432 345899999999999
Q ss_pred HHHhCCEEEEEeecCCCcEEEEEEEE
Q 005591 613 VNLMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 613 v~~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
++.|||++++++ +++||+|++.+|
T Consensus 434 ~~~~~G~~~~~~--~~~G~~~~~~~P 457 (457)
T TIGR01386 434 MEAHGGRASAES--PDGKTRFILRFP 457 (457)
T ss_pred HHHCCCEEEEEe--CCCceEEEEecC
Confidence 999999999998 489999999987
No 29
>PRK09835 sensor kinase CusS; Provisional
Probab=99.95 E-value=2.8e-25 Score=248.56 Aligned_cols=238 Identities=20% Similarity=0.358 Sum_probs=194.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 377 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVL 455 (689)
Q Consensus 377 ~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~-~~~e~~~~l~~i~~~~~~l~~li~~ll 455 (689)
++.+....+.+..++.++..+.+.+|.+.++||++||++.+.+..+.+.+.. ...+..+.+..+.+...++..++++++
T Consensus 240 El~~l~~~~n~m~~~l~~~~~~~~~~~~~laheL~tpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~ll 319 (482)
T PRK09835 240 ELEQLVLSFNHMIERIEDVFTRQSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEELTRMAKMVSDML 319 (482)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444455555566666677888999999999999999999888776543 334556677788888999999999999
Q ss_pred HHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-c
Q 005591 456 DLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-Y 534 (689)
Q Consensus 456 ~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g-~ 534 (689)
++++.+.+.......++++.++++++.+.++.....+++.+.+.. . +..+.+|+..+.+++.|+++||++|++++ .
T Consensus 320 ~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~--~-~~~v~~d~~~l~~vl~nll~Na~~~~~~~~~ 396 (482)
T PRK09835 320 FLAQADNNQLIPEKKMLDLADEVGKVFDFFEAWAEERGVELRFVG--D-PCQVAGDPLMLRRAISNLLSNALRYTPAGEA 396 (482)
T ss_pred HHHHhcCCCCCCCceeecHHHHHHHHHHHHHHHHhhCCEEEEEeC--C-CcEEEECHHHHHHHHHHHHHHHHhcCCCCCe
Confidence 999998887777788999999999999999988888888777642 2 33477899999999999999999999765 4
Q ss_pred EEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHHH
Q 005591 535 VSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRFV 613 (689)
Q Consensus 535 i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~iv 613 (689)
+.+.+...++ .+.|+|.|+|.|++++..+++|+||++.+.... ...|+|+||++|++++
T Consensus 397 I~i~~~~~~~--------------------~~~i~v~d~G~gi~~~~~~~if~~f~~~~~~~~~~~~g~GlGL~i~~~i~ 456 (482)
T PRK09835 397 ITVRCQEVDH--------------------QVQLVVENPGTPIAPEHLPRLFDRFYRVDPSRQRKGEGSGIGLAIVKSIV 456 (482)
T ss_pred EEEEEEEeCC--------------------EEEEEEEECCCCcCHHHHHHHhCCcccCCCCCCCCCCCcchHHHHHHHHH
Confidence 6666655433 289999999999999999999999998765432 2358999999999999
Q ss_pred HHhCCEEEEEeecCCCcEEEEEEEEe
Q 005591 614 NLMGGHIWLDSEGLDKGSTVTFLVKL 639 (689)
Q Consensus 614 ~~~gG~I~i~S~~~g~Gt~~~~~lPl 639 (689)
+.|||+|+++|. ++||+|++.+|.
T Consensus 457 ~~~~g~i~~~s~--~~g~~~~i~lP~ 480 (482)
T PRK09835 457 VAHKGTVAVTSD--ARGTRFVISLPR 480 (482)
T ss_pred HHCCCEEEEEEC--CCcEEEEEEeeC
Confidence 999999999997 469999999995
No 30
>PRK13557 histidine kinase; Provisional
Probab=99.95 E-value=2.5e-25 Score=252.33 Aligned_cols=265 Identities=18% Similarity=0.251 Sum_probs=197.2
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceee
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLET-----DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPF 472 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~-----~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~ 472 (689)
....+...++|++++||+.|.++++++.+. .......+.++.+.+.++++..++++++++++.. ......+
T Consensus 162 ~l~~~~~~i~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~li~~l~~~~~~~----~~~~~~~ 237 (540)
T PRK13557 162 ALGQLTGGIAHDFNNLLQVMSGYLDVIQAALSHPDADRGRMARSVENIRAAAERAATLTQQLLAFARKQ----RLEGRVL 237 (540)
T ss_pred HhhhhhhhhhHHhhhHHHHHHhHHHHHHHhhccCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC----CCCCccc
Confidence 456788999999999999999999988643 1234567788999999999999999999998743 3445679
Q ss_pred eHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-cEEEEEEeecCCCCCCCC
Q 005591 473 NLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWR 551 (689)
Q Consensus 473 ~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~ 551 (689)
++..+++.+...+... ..+++.+.+...+..+. +..|+.++.|++.||+.||++|++.+ .+.+.......... .
T Consensus 238 ~l~~~i~~~~~~~~~~-~~~~~~i~~~~~~~~~~-~~~d~~~l~~vl~nll~NA~~~~~~~~~i~i~~~~~~~~~~---~ 312 (540)
T PRK13557 238 NLNGLVSGMGELAERT-LGDAVTIETDLAPDLWN-CRIDPTQAEVALLNVLINARDAMPEGGRVTIRTRNVEIEDE---D 312 (540)
T ss_pred CHHHHHHHHHHHHHHh-cCCCeEEEEecCCCCCc-eeeCHHHHHHHHHHHHHHHHHhcccCCeEEEEEeeeccCcc---c
Confidence 9999999888776643 34677777776666554 66799999999999999999998754 44444433221100 0
Q ss_pred CCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcE
Q 005591 552 PPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGS 631 (689)
Q Consensus 552 ~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt 631 (689)
...+... .....+.|+|.|||+||+++..+++|++|++++.. ..|+|+||++||++++.|||+|+++|. +|+||
T Consensus 313 ~~~~~~~--~~~~~~~i~v~D~G~Gi~~~~~~~if~~~~~~~~~---~~g~GlGL~i~~~~v~~~gG~i~~~s~-~~~G~ 386 (540)
T PRK13557 313 LAMYHGL--PPGRYVSIAVTDTGSGMPPEILARVMDPFFTTKEE---GKGTGLGLSMVYGFAKQSGGAVRIYSE-VGEGT 386 (540)
T ss_pred cccccCC--CCCCEEEEEEEcCCCCCCHHHHHhccCCCcccCCC---CCCCCccHHHHHHHHHHCCCEEEEEec-CCCce
Confidence 0000000 11234889999999999999999999999987643 258999999999999999999999999 89999
Q ss_pred EEEEEEEecCCCCCCCCCCCCCccCCCCCCCCCCCCCceEEecCchhhhhhhh
Q 005591 632 TVTFLVKLGICNNPGSPIHPVALKGRASHGSADLTGPKPLFRDNDQIASTKSR 684 (689)
Q Consensus 632 ~~~~~lPl~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ILlvDDd~~nr~v~r 684 (689)
+|++.||.........+ ...........+++||++||++..+..++
T Consensus 387 ~f~i~lP~~~~~~~~~~-------~~~~~~~~~~~~~~iliv~~~~~~~~~l~ 432 (540)
T PRK13557 387 TVRLYFPASDQAENPEQ-------EPKARAIDRGGTETILIVDDRPDVAELAR 432 (540)
T ss_pred EEEEEeeCCCCccCCCC-------CCCCcccccCCCceEEEEcCcHHHHHHHH
Confidence 99999998554332111 11111223456789999999998877654
No 31
>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=99.94 E-value=1.2e-25 Score=238.17 Aligned_cols=216 Identities=29% Similarity=0.456 Sum_probs=185.2
Q ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHH
Q 005591 399 RNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 476 (689)
Q Consensus 399 ~~~~~~~~sHelr~PL~~I~~~~~~L~~~--~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ 476 (689)
+.+|.+.++|+++|||+.|.++++.+... ..+++..++++.+.+.++++..++++++++++.+.+.......++++.+
T Consensus 114 ~~~~~~~l~h~l~~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~~l~~ 193 (333)
T TIGR02966 114 RRDFVANVSHELRTPLTVLRGYLETLADGPDEDPEEWNRALEIMLEQSQRMQSLVEDLLTLSRLESAASPLEDEPVDMPA 193 (333)
T ss_pred HHHHHHhhhhhhcccHHHHHHHHHHHHhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccCHHH
Confidence 34688999999999999999999988754 3455667889999999999999999999999988877778888999999
Q ss_pred HHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCc
Q 005591 477 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEF 555 (689)
Q Consensus 477 ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~ 555 (689)
+++.+...+......+++.+.+..+. +..+.+|+..+.+++.||+.||++|+++ +.+.+.+...++
T Consensus 194 ~i~~~~~~~~~~~~~~~i~i~~~~~~--~~~~~~d~~~l~~vl~nll~Nai~~~~~~~~i~i~~~~~~~----------- 260 (333)
T TIGR02966 194 LLDHLRDEAEALSQGKNHQITFEIDG--GVDVLGDEDELRSAFSNLVSNAIKYTPEGGTITVRWRRDGG----------- 260 (333)
T ss_pred HHHHHHHHHHHHHHHcCcEEEEcCCC--CceEEECHHHHHHHHHHHHHHhheeCCCCCeEEEEEEEcCC-----------
Confidence 99999999999998898999987732 3457889999999999999999999875 555555544332
Q ss_pred CccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCC-CCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEE
Q 005591 556 YPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSC-QTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVT 634 (689)
Q Consensus 556 ~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~-~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~ 634 (689)
.+.|.|.|+|.||+++..+++|++|++.+.... ...|.|+||++|+++++.|||+++++|. ++.||+|+
T Consensus 261 ---------~~~i~i~d~G~gi~~~~~~~if~~~~~~~~~~~~~~~g~glGL~~~~~~~~~~gG~i~~~s~-~~~Gt~~~ 330 (333)
T TIGR02966 261 ---------GAEFSVTDTGIGIAPEHLPRLTERFYRVDKSRSRDTGGTGLGLAIVKHVLSRHHARLEIESE-LGKGSTFS 330 (333)
T ss_pred ---------EEEEEEEecCCCCCHHHHhhhccCceecCcccccCCCCCcccHHHHHHHHHHCCCEEEEEec-CCCCeEEE
Confidence 289999999999999999999999997654332 3358999999999999999999999999 89999999
Q ss_pred EEE
Q 005591 635 FLV 637 (689)
Q Consensus 635 ~~l 637 (689)
+.+
T Consensus 331 i~l 333 (333)
T TIGR02966 331 FIF 333 (333)
T ss_pred EEC
Confidence 875
No 32
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=99.94 E-value=3.2e-25 Score=246.57 Aligned_cols=238 Identities=22% Similarity=0.328 Sum_probs=195.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 376 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVL 455 (689)
Q Consensus 376 ~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll 455 (689)
+++.+..+.+.+..+++++..+.+.+|.+.++||++|||+.+.+..+++.......+ .+..+....+++..++++++
T Consensus 220 dEi~~l~~~~n~m~~~l~~~~~~~~~~~~~~shel~tpl~~i~~~~~~~~~~~~~~~---~~~~i~~~~~~l~~~i~~l~ 296 (461)
T PRK09470 220 QEFRQAGASFNQMVTALERMMTSQQRLLSDISHELRTPLTRLQLATALLRRRQGESK---ELERIETEAQRLDSMINDLL 296 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhhCCHHHHHHHHHHHHhhccCChH---HHHHHHHHHHHHHHHHHHHH
Confidence 344455555666666777777778889999999999999999998888775433322 45668889999999999999
Q ss_pred HHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcE
Q 005591 456 DLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYV 535 (689)
Q Consensus 456 ~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i 535 (689)
++++.+.. .....+.+++..+++++++.+......+++.+.++..++ +..+.+|+..+.+++.||++||+||++ +.+
T Consensus 297 ~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~~~~~~~~l~~~l~nli~NA~~~~~-~~i 373 (461)
T PRK09470 297 VLSRNQQK-NHLERETFKANSLWSEVLEDAKFEAEQMGKSLTVSAPPG-PWPINGNPNALASALENIVRNALRYSH-TKI 373 (461)
T ss_pred HHHHhhcc-cccccceecHHHHHHHHHHHHHHHHHHCCCeEEEecCCc-ceEEEECHHHHHHHHHHHHHHHHHhCC-CcE
Confidence 99997654 355667899999999999988877777888888864333 445788999999999999999999986 567
Q ss_pred EEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCC-CCCccchHHHHHHHHH
Q 005591 536 SIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQ-TPRAGLGLAICRRFVN 614 (689)
Q Consensus 536 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~-~~g~GLGL~i~k~iv~ 614 (689)
.+.+...++. +.|+|+|+|+||+++.++++|+||++.+....+ ..|+|+||++|+++++
T Consensus 374 ~i~~~~~~~~--------------------~~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~~~~~g~GlGL~iv~~~v~ 433 (461)
T PRK09470 374 EVAFSVDKDG--------------------LTITVDDDGPGVPEEEREQIFRPFYRVDEARDRESGGTGLGLAIVENAIQ 433 (461)
T ss_pred EEEEEEECCE--------------------EEEEEEECCCCCCHHHHHHhcCCCccCCcccCCCCCCcchhHHHHHHHHH
Confidence 7776654432 899999999999999999999999987654333 3489999999999999
Q ss_pred HhCCEEEEEeecCCCcEEEEEEEEec
Q 005591 615 LMGGHIWLDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 615 ~~gG~I~i~S~~~g~Gt~~~~~lPl~ 640 (689)
.|||+++++|. ++.||+|++.+|+.
T Consensus 434 ~~~G~l~~~s~-~~~Gt~~~i~lp~~ 458 (461)
T PRK09470 434 QHRGWVKAEDS-PLGGLRLTIWLPLY 458 (461)
T ss_pred HCCCEEEEEEC-CCCeEEEEEEeeCC
Confidence 99999999998 89999999999984
No 33
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=99.94 E-value=4.2e-25 Score=246.45 Aligned_cols=219 Identities=26% Similarity=0.401 Sum_probs=190.9
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 477 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~l 477 (689)
...++.+.++||++||++.+.+.++.+.+....++..+.++.+...++++..++++++.+++.+..........+++.++
T Consensus 255 ~~~~~~~~~~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~~~~~~~~~~~~~~~ 334 (475)
T PRK11100 255 YVEQYVQTLTHELKSPLAAIRGAAELLQEDPPPEDRARFTGNILTQSARLQQLIDRLLELARLEQRQELEVLEPVALAAL 334 (475)
T ss_pred HHHHHHHHhhhhhcCcHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccCCCCccceeccHHHH
Confidence 45678899999999999999999999888655667788999999999999999999999999887776667789999999
Q ss_pred HHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcC
Q 005591 478 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFY 556 (689)
Q Consensus 478 l~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~ 556 (689)
++++...+...+..+++.+.++.+ +..+.+|...+.+++.|++.||++|+.+ +.+.+.+...++.
T Consensus 335 ~~~~~~~~~~~~~~~~i~~~~~~~---~~~~~~~~~~l~~vl~nli~Na~~~~~~~~~i~i~~~~~~~~----------- 400 (475)
T PRK11100 335 LEELVEAREAQAAAKGITLRLRPD---DARVLGDPFLLRQALGNLLDNAIDFSPEGGTITLSAEVDGEQ----------- 400 (475)
T ss_pred HHHHHHHHHHHHHhCCceEEEeCC---CceEEECHHHHHHHHHHHHHHHHHhCCCCCEEEEEEEEcCCE-----------
Confidence 999999999888888988888665 3447779999999999999999999864 6777776654432
Q ss_pred ccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEE
Q 005591 557 PVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFL 636 (689)
Q Consensus 557 ~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~ 636 (689)
+.++|+|+|.||+++.++++|++|++.........|+|+||++|++++++|||+++++|. ++.||+|.+.
T Consensus 401 ---------~~i~i~D~G~Gi~~~~~~~i~~~~~~~~~~~~~~~~~GlGL~i~~~~~~~~~G~i~i~s~-~~~Gt~v~i~ 470 (475)
T PRK11100 401 ---------VALSVEDQGPGIPDYALPRIFERFYSLPRPANGRKSTGLGLAFVREVARLHGGEVTLRNR-PEGGVLATLT 470 (475)
T ss_pred ---------EEEEEEECCCCCCHHHHHHHHHHHccCCCCCCCCCCcchhHHHHHHHHHHCCCEEEEEEc-CCCeEEEEEE
Confidence 899999999999999999999999987543334468999999999999999999999998 8899999999
Q ss_pred EEec
Q 005591 637 VKLG 640 (689)
Q Consensus 637 lPl~ 640 (689)
+|..
T Consensus 471 lp~~ 474 (475)
T PRK11100 471 LPRH 474 (475)
T ss_pred eeCC
Confidence 9974
No 34
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=99.94 E-value=3.4e-25 Score=237.08 Aligned_cols=217 Identities=22% Similarity=0.321 Sum_probs=173.3
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 477 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~l 477 (689)
+.+.|++.++||+||||++|.++++++.+...+++.+++++.+.+.++++..++++++.+.+.. .....+++.+
T Consensus 129 ~~~~~~~~iaHelr~pL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~lv~~l~~~~~~~------~~~~~~l~~~ 202 (348)
T PRK11073 129 AARDLVRGLAHEIKNPLGGLRGAAQLLSKALPDPALTEYTKVIIEQADRLRNLVDRLLGPQRPG------THVTESIHKV 202 (348)
T ss_pred HHHHHHHhhhHhhcChHHHHHHHHHHhhhcCCChHHHHHHHHHHHHHHHHHHHHHHHhcccCCC------CCccccHHHH
Confidence 4568999999999999999999999988776677788999999999999999999998776532 2346799999
Q ss_pred HHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC-C-CCcEEEEEEeecCCCCCCCCCCCc
Q 005591 478 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT-K-EGYVSIIASVAKPESLSDWRPPEF 555 (689)
Q Consensus 478 l~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~-~-~g~i~i~~~~~~~~~~~~~~~~~~ 555 (689)
++.+...+.... .+++.+.++.+++.+. +.+|+..+.|++.||++||++|+ + ++.+.+.........
T Consensus 203 ~~~~~~~~~~~~-~~~i~i~~~~~~~~~~-i~~d~~~l~~vl~nLl~NA~~~~~~~~~~i~i~~~~~~~~~--------- 271 (348)
T PRK11073 203 AERVVQLVSLEL-PDNVRLIRDYDPSLPE-LAHDPDQIEQVLLNIVRNALQALGPEGGTITLRTRTAFQLT--------- 271 (348)
T ss_pred HHHHHHHHhhhc-cCCcEEEEecCCCCCc-eeeCHHHHHHHHHHHHHHHHHHhccCCCeEEEEEccccccc---------
Confidence 999888887554 4677788777666654 67799999999999999999997 3 355555443221100
Q ss_pred CccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEE
Q 005591 556 YPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTF 635 (689)
Q Consensus 556 ~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~ 635 (689)
.........+.+.|.|||+||+++..+++|+||++++. .|+|+||++||++++.|||+|+++|. +| ||+|++
T Consensus 272 -~~~~~~~~~~~i~v~D~G~Gi~~~~~~~iF~~~~~~~~-----~g~GlGL~i~~~iv~~~gG~i~~~s~-~~-~~~f~i 343 (348)
T PRK11073 272 -LHGERYRLAARIDIEDNGPGIPPHLQDTLFYPMVSGRE-----GGTGLGLSIARNLIDQHSGKIEFTSW-PG-HTEFSV 343 (348)
T ss_pred -cCCccCCceEEEEEEeCCCCCCHHHHhhccCCcccCCC-----CCccCCHHHHHHHHHHcCCeEEEEec-CC-ceEEEE
Confidence 00001112368999999999999999999999997652 48999999999999999999999998 66 599999
Q ss_pred EEEe
Q 005591 636 LVKL 639 (689)
Q Consensus 636 ~lPl 639 (689)
.+|+
T Consensus 344 ~lP~ 347 (348)
T PRK11073 344 YLPI 347 (348)
T ss_pred EEec
Confidence 9996
No 35
>PRK10337 sensor protein QseC; Provisional
Probab=99.94 E-value=7.5e-25 Score=242.82 Aligned_cols=232 Identities=21% Similarity=0.304 Sum_probs=189.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 378 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE-QRVMIETVLKSSNLLTTLVDDVLD 456 (689)
Q Consensus 378 L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e-~~~~l~~i~~~~~~l~~li~~ll~ 456 (689)
+.+....+.+...+.++..+...+|.+.++||+|||++.+.+..+.+.....+++ ....++.+...++++..++++++.
T Consensus 216 i~~l~~~~n~~~~~l~~~~~~~~~~~~~~ahelrtpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~ll~ 295 (449)
T PRK10337 216 VRPLVEALNQLFARTHAMMVRERRFTSDAAHELRSPLAALKVQTEVAQLSDDDPQARKKALLQLHAGIDRATRLVDQLLT 295 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334445555555566666667789999999999999999998888765544444 456888999999999999999999
Q ss_pred HhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-cE
Q 005591 457 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-YV 535 (689)
Q Consensus 457 ~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g-~i 535 (689)
+++.+........+++++.+++++++..+...+..+++.+.++.++.. ..+.+|+..+.+++.|+++||+||++++ .+
T Consensus 296 ~~r~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~-~~~~~~~~~l~~vl~Nli~NA~k~~~~~~~i 374 (449)
T PRK10337 296 LSRLDSLDNLQDVAEIPLEDLLQSAVMDIYHTAQQAGIDVRLTLNAHP-VIRTGQPLLLSLLVRNLLDNAIRYSPQGSVV 374 (449)
T ss_pred HHhcCCCCCCCCCcccCHHHHHHHHHHHHHHHHHHcCCEEEEecCCCC-ceeecCHHHHHHHHHHHHHHHHhhCCCCCeE
Confidence 999887665666778999999999999998888889999998876443 3467899999999999999999999864 44
Q ss_pred EEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHH
Q 005591 536 SIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNL 615 (689)
Q Consensus 536 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~ 615 (689)
.+.+.. ..++|+|+|+||+++..+++|++|++.+.. ...|+|+||++|++++++
T Consensus 375 ~i~~~~------------------------~~i~i~D~G~Gi~~~~~~~if~~f~~~~~~--~~~g~GlGL~iv~~i~~~ 428 (449)
T PRK10337 375 DVTLNA------------------------RNFTVRDNGPGVTPEALARIGERFYRPPGQ--EATGSGLGLSIVRRIAKL 428 (449)
T ss_pred EEEEEe------------------------eEEEEEECCCCCCHHHHHHhcccccCCCCC--CCCccchHHHHHHHHHHH
Confidence 444321 368999999999999999999999985432 235899999999999999
Q ss_pred hCCEEEEEeecCCCcEEEEEEE
Q 005591 616 MGGHIWLDSEGLDKGSTVTFLV 637 (689)
Q Consensus 616 ~gG~I~i~S~~~g~Gt~~~~~l 637 (689)
|||+++++|. +++|++|++.+
T Consensus 429 ~gg~l~~~s~-~~~G~~~~i~~ 449 (449)
T PRK10337 429 HGMNVSFGNA-PEGGFEAKVSW 449 (449)
T ss_pred cCCEEEEEec-CCCeEEEEEeC
Confidence 9999999998 88999998764
No 36
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=99.94 E-value=6e-25 Score=242.58 Aligned_cols=228 Identities=20% Similarity=0.332 Sum_probs=182.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 377 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 456 (689)
Q Consensus 377 ~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~ 456 (689)
++.+..+.+.+..++.++..+.+..|.+.++||+||||+.+.+.++++.++ .....+.+.+..+++..+++++++
T Consensus 207 Ei~~L~~~~n~m~~~l~~~~~~~~~~~~~lsHeLrtPL~~i~~~~e~~~~~-----~~~~~~~i~~~~~~~~~~i~~~l~ 281 (435)
T PRK09467 207 EVRSVTRAFNQMAAGIKQLEDDRTLLMAGVSHDLRTPLTRIRLATEMMSEE-----DGYLAESINKDIEECNAIIEQFID 281 (435)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccchHHHHHHHHHhcccc-----hHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455566666667777778889999999999999999999888776532 223445688889999999999999
Q ss_pred HhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEE
Q 005591 457 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVS 536 (689)
Q Consensus 457 ~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~ 536 (689)
+.+.... ....++++.+++++++.... ..+..+.++++.. +..+.+|+..+.+++.||++||+||+ .+.+.
T Consensus 282 ~~r~~~~---~~~~~~~l~~~~~~~~~~~~----~~~~~i~~~~~~~-~~~~~~~~~~l~~il~NLl~NA~k~~-~~~i~ 352 (435)
T PRK09467 282 YLRTGQE---MPMEMADLNALLGEVIAAES----GYEREIETALQPG-PIEVPMNPIAIKRALANLVVNAARYG-NGWIK 352 (435)
T ss_pred HhcccCC---CCccccCHHHHHHHHHHHhh----hcCCeEEEecCCC-CceEEECHHHHHHHHHHHHHHHHHhC-CCeEE
Confidence 9886532 34568899999999887654 3455666665544 33578899999999999999999998 46677
Q ss_pred EEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHh
Q 005591 537 IIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLM 616 (689)
Q Consensus 537 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~ 616 (689)
+.....++ .+.|+|.|+|+||+++..+++|+||++.+... ...|+|+||++|+++++.|
T Consensus 353 i~~~~~~~--------------------~~~i~V~D~G~Gi~~~~~~~~~~~f~~~~~~~-~~~g~GlGL~iv~~i~~~~ 411 (435)
T PRK09467 353 VSSGTEGK--------------------RAWFQVEDDGPGIPPEQLKHLFQPFTRGDSAR-GSSGTGLGLAIVKRIVDQH 411 (435)
T ss_pred EEEEecCC--------------------EEEEEEEecCCCcCHHHHHHhcCCcccCCCCC-CCCCeehhHHHHHHHHHHC
Confidence 77655433 38999999999999999999999999865443 2358999999999999999
Q ss_pred CCEEEEEeecCCCcEEEEEEEEec
Q 005591 617 GGHIWLDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 617 gG~I~i~S~~~g~Gt~~~~~lPl~ 640 (689)
||++.+.+. +++|++|++.+|+.
T Consensus 412 ~g~l~i~~~-~~~G~~~~i~lp~~ 434 (435)
T PRK09467 412 NGKVELGNS-EEGGLSARAWLPLT 434 (435)
T ss_pred CCEEEEEEC-CCCcEEEEEEEeCC
Confidence 999999998 89999999999974
No 37
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=99.93 E-value=4.1e-23 Score=217.65 Aligned_cols=212 Identities=21% Similarity=0.302 Sum_probs=172.6
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcC---CCCH---HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccee
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLET---DLTP---EQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGP 471 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~---~~~~---e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~ 471 (689)
+-++.++.++||+||||+-|...++.|... ..++ .-++..++|.++++.+.++++++..|+|+. ++.+++
T Consensus 485 AW~dVArRIAHEIKNPLTPIQLSAERl~rk~gk~i~eDrevfd~~tdTIirQV~dI~rMVdeF~afARmP----~p~~e~ 560 (712)
T COG5000 485 AWGDVARRIAHEIKNPLTPIQLSAERLLRKLGKEIDEDREVFDRCTDTIIRQVEDIKRMVDEFRAFARMP----APKLEK 560 (712)
T ss_pred HHHHHHHHHHHHhcCCCchhhhhHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC----CCCCCc
Confidence 345666678999999999999999988753 2232 236788999999999999999999999976 445568
Q ss_pred eeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC------CcEEEEEEeecCC
Q 005591 472 FNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE------GYVSIIASVAKPE 545 (689)
Q Consensus 472 ~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~------g~i~i~~~~~~~~ 545 (689)
.||+++++++....+ .....+.|..+...+ |.....|+..+.|++.|++.||.++..+ +.-.++++....+
T Consensus 561 ~dL~~ll~e~~~L~e--~~~~~i~f~~e~g~e-pl~~~~D~~~l~Qvf~NliKNA~EAi~~~~~~e~~~~~i~~~~~~~~ 637 (712)
T COG5000 561 SDLRALLKEVSFLYE--IGNDHIVFAAEFGGE-PLIGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDAD 637 (712)
T ss_pred chHHHHHHHHHHHHh--ccCCCeEEEeecCCC-ceeeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCC
Confidence 999999999999888 445678888888776 7778889999999999999999998532 1112333333222
Q ss_pred CCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEee
Q 005591 546 SLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSE 625 (689)
Q Consensus 546 ~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~ 625 (689)
+ .+.+.|.|||.|+|.+.+.++|+||.+++. +|+||||+|+|+|++.|||++++...
T Consensus 638 g------------------~i~v~V~DNGkG~p~e~r~r~~EPYvTtr~-----KGTGLGLAiVKkIvEeHGG~leL~da 694 (712)
T COG5000 638 G------------------RIVVDVIDNGKGFPRENRHRALEPYVTTRE-----KGTGLGLAIVKKIVEEHGGRLELHNA 694 (712)
T ss_pred C------------------eEEEEEecCCCCCChHHhhhhccCceeccc-----ccccccHHHHHHHHHhcCCeEEecCC
Confidence 1 399999999999999999999999998764 58999999999999999999999987
Q ss_pred cCCCcEEEEEEEEe
Q 005591 626 GLDKGSTVTFLVKL 639 (689)
Q Consensus 626 ~~g~Gt~~~~~lPl 639 (689)
+.-.|..+.+.+|.
T Consensus 695 ~d~~GA~i~i~fp~ 708 (712)
T COG5000 695 PDFDGAMIRIKFPL 708 (712)
T ss_pred CCCCCcEEEEEccc
Confidence 33459999999987
No 38
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=99.93 E-value=2.4e-21 Score=220.79 Aligned_cols=350 Identities=15% Similarity=0.132 Sum_probs=237.0
Q ss_pred HHHHHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCe--EEEEEecccccccCcc
Q 005591 184 LDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLN--LELSYTLNNQIQIGSS 261 (689)
Q Consensus 184 l~~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~--~~~~~~~~~~~~~~~~ 261 (689)
.++....+.++++.+..++..++.+..+.+..+.+..++.++.+.++++.+.+.+.+..... ...++.. ..
T Consensus 205 ~~~~t~~l~~~~~~l~~ly~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~--~~----- 277 (569)
T PRK10600 205 VQEKTAGLEQKNQILSFLWQANRRLHSRAPLCERLSPVLNGLQNLTLLRDIELRVYETDDEENHQEFTCQS--DM----- 277 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHhcCCCceEEEEeccccccceeeccCCC--cc-----
Confidence 33344456667777888999999999999999999999999999999999998765533222 1111110 00
Q ss_pred cccCCchhHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCC
Q 005591 262 VPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGR 341 (689)
Q Consensus 262 ~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~ 341 (689)
...+..+.. .+.. ..........+..| +..+...+|++......++
T Consensus 278 -~~~~~~~~~---------~~~~----------~~~~~~~~~~~~~~--------------l~~~~~~~G~~~~~~~~~~ 323 (569)
T PRK10600 278 -TCDDKGCQL---------CPRG----------VLPVGDRGTTLKWR--------------LSDKHGQYGILLATLPQGR 323 (569)
T ss_pred -Ccccccccc---------cccc----------CCCcCCCCceEEEE--------------eecCCcceEEEEEEcCCCC
Confidence 000000000 0000 00000011233444 3344455777776666667
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHH
Q 005591 342 KWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALS 421 (689)
Q Consensus 342 ~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~ 421 (689)
.++..+..+++.++.+++.++...+... +.++ ....+.+..+...++|.+.++|+.+...+
T Consensus 324 ~l~~~~~~ll~~l~~~l~~~l~~~~~~~-----------~~~~--------~~~~~er~~iarelhd~i~~~L~~l~~~~ 384 (569)
T PRK10600 324 HLSHDQQQLVDTLVEQLTATLALERQQE-----------RQQQ--------LIVMEERATIARELHDSIAQSLSCMKMQV 384 (569)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHHH-----------HHHH--------HHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 8899999999999999998874432111 0000 11122344566777777888888887777
Q ss_pred HHHhc--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEE
Q 005591 422 SLLLE--TDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLI 499 (689)
Q Consensus 422 ~~L~~--~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~ 499 (689)
+.++. ...+++.++.++.+.+..+++...+++++...+. .....++.+.+++++..+.... ++.+.++
T Consensus 385 ~~l~~~~~~~~~~~~~~l~~i~~~~~~~~~~lr~ll~~~r~-------~~~~~~l~~~l~~~~~~~~~~~---~~~i~~~ 454 (569)
T PRK10600 385 SCLQMQGDALPESSRELLSQIRNELNASWRQLRELLTTFRL-------QLTEPGLRPALEASCEEFSARF---GFPVKLD 454 (569)
T ss_pred HHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc-------CcccCCHHHHHHHHHHHHHHHh---CCeEEEE
Confidence 65553 3346777889999999999999999999887653 2336788899998888876543 4445554
Q ss_pred eCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCC
Q 005591 500 MAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPP 579 (689)
Q Consensus 500 ~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~ 579 (689)
.+.........+...+.+++.|+++||+||++.+.+.+.+...++ .+.++|+|||+||++
T Consensus 455 ~~~~~~~~~~~~~~~l~~il~ell~NA~kha~a~~i~V~~~~~~~--------------------~~~l~V~D~G~Gi~~ 514 (569)
T PRK10600 455 YQLPPRLVPSHQAIHLLQIAREALSNALKHAQASEVVVTVAQNQN--------------------QVKLSVQDNGCGVPE 514 (569)
T ss_pred ecCCcccCCHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEcCC--------------------EEEEEEEECCCCCCc
Confidence 432222212224556999999999999999988888877754432 389999999999988
Q ss_pred CChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecC
Q 005591 580 QDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGI 641 (689)
Q Consensus 580 ~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~ 641 (689)
+.. .+.|+||++|+++++.|||+++++|. +|+||+|+++||...
T Consensus 515 ~~~-----------------~~~glGL~i~~~~~~~lgG~l~i~s~-~~~Gt~v~i~lp~~~ 558 (569)
T PRK10600 515 NAE-----------------RSNHYGLIIMRDRAQSLRGDCRVRRR-ESGGTEVVVTFIPEK 558 (569)
T ss_pred ccc-----------------CCCCccHHHHHHHHHHcCCEEEEEEC-CCCCEEEEEEEecCC
Confidence 631 25699999999999999999999999 899999999999853
No 39
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=99.93 E-value=4.7e-24 Score=245.01 Aligned_cols=214 Identities=27% Similarity=0.451 Sum_probs=185.1
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 477 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~l 477 (689)
+..++++.++||++|||+.|.++++++.....+++..+.++.+.+.++++..++++++++++.... ...++++..+
T Consensus 389 ~l~~~~~~~~hel~~~l~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~~~~~ 464 (607)
T PRK11360 389 ALGELVAGVAHEIRNPLTAIRGYVQIWRQQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFSRPRES----QWQPVSLNAL 464 (607)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcC----ccceecHHHH
Confidence 456899999999999999999999998877667788899999999999999999999999886533 3458999999
Q ss_pred HHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcC
Q 005591 478 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFY 556 (689)
Q Consensus 478 l~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~ 556 (689)
++++...+......+++.+.++.+++.+. +..|+..+.+++.|++.||++|+.. |.+.+.+...+++
T Consensus 465 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~nli~na~~~~~~~~~i~v~~~~~~~~----------- 532 (607)
T PRK11360 465 VEEVLQLFQTAGVQARVDFETELDNELPP-IWADPELLKQVLLNILINAVQAISARGKIRIRTWQYSDG----------- 532 (607)
T ss_pred HHHHHHHHHHhhhccCcEEEEEcCCCCCe-EEECHHHHHHHHHHHHHHHHHHhcCCCeEEEEEEEcCCC-----------
Confidence 99999999887777889998888777664 6679999999999999999999764 5666666544332
Q ss_pred ccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEE
Q 005591 557 PVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFL 636 (689)
Q Consensus 557 ~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~ 636 (689)
.+.|+|+|||+||+++..+++|+||++++. .|+|+||++||+++++|||+++++|. +|+||+|+++
T Consensus 533 --------~~~i~v~D~G~G~~~~~~~~~f~~~~~~~~-----~g~glGL~~~~~~~~~~~G~i~~~s~-~~~Gt~~~i~ 598 (607)
T PRK11360 533 --------QVAVSIEDNGCGIDPELLKKIFDPFFTTKA-----KGTGLGLALSQRIINAHGGDIEVESE-PGVGTTFTLY 598 (607)
T ss_pred --------EEEEEEEeCCCCCCHHHHhhhcCCceeCCC-----CCCchhHHHHHHHHHHcCCEEEEEEc-CCCceEEEEE
Confidence 189999999999999999999999997653 47899999999999999999999999 8999999999
Q ss_pred EEecC
Q 005591 637 VKLGI 641 (689)
Q Consensus 637 lPl~~ 641 (689)
+|+..
T Consensus 599 lp~~~ 603 (607)
T PRK11360 599 LPINP 603 (607)
T ss_pred ecCCC
Confidence 99843
No 40
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=99.92 E-value=9.1e-23 Score=226.78 Aligned_cols=249 Identities=16% Similarity=0.219 Sum_probs=179.6
Q ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhchHHHHHHH
Q 005591 342 KWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREA-EKAIHARNDFRAVMNHEMRTLMHAIIAL 420 (689)
Q Consensus 342 ~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~-~~a~~~~~~~~~~~sHelr~PL~~I~~~ 420 (689)
.|.....+++..++.++.+++..+....+.++.+++++++..+.++..++. +...+.++++++.++||+++||++|.+.
T Consensus 244 ~~~~~~~~l~~~l~~~~l~gi~lg~~i~r~r~l~~~L~~~l~~~~~l~~~L~~~~e~~r~~ia~elhdeI~~pLtaI~~~ 323 (495)
T PRK11644 244 TWHDHPVDLLLSLLAQSLTGLLLGAGIQRQRELNQSLQKELARNRHLAERLLETEESVRRDVARELHDEIGQTITAIRTQ 323 (495)
T ss_pred hcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHH
Confidence 344555566666777766555544444444444444443322222222222 2223457789999999999999999999
Q ss_pred HHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEE
Q 005591 421 SSLLLETDL-TPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLI 499 (689)
Q Consensus 421 ~~~L~~~~~-~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~ 499 (689)
.+.+++... +++.++..+.+.+.+.++.+.++++++..+ +...+++++.+.++++.+.+.... +++.++++
T Consensus 324 a~ll~~~~~~~~~~~~~~~~I~~~~~~l~~~vr~LL~~lr------~~~l~~~~L~~~l~~l~~~l~~~~--~~~~v~l~ 395 (495)
T PRK11644 324 AGIIKRLAADNASVKQSAQLIEQLSLGVYDTVRRLLGRLR------PRQLDDLTLEQAIRSLMREMELED--RGIVSHLD 395 (495)
T ss_pred HHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhccC------CcccccCCHHHHHHHHHHHHHHhh--cCceEEEE
Confidence 998876433 344567788899999999999999886554 223347899999999998886443 45555555
Q ss_pred eCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCC
Q 005591 500 MAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPP 579 (689)
Q Consensus 500 ~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~ 579 (689)
.+.+.+.....++..+.++++|+++||+||++++.+.+.+...++ .+.++|+|||+||++
T Consensus 396 ~~~~~~~l~~~~~~~L~ril~nlL~NAiKha~~~~I~I~l~~~~~--------------------~i~l~V~DnG~Gi~~ 455 (495)
T PRK11644 396 WRIDESALSETQRVTLFRVCQEGLNNIVKHADASAVTLQGWQQDE--------------------RLMLVIEDDGSGLPP 455 (495)
T ss_pred ecCCcccCChhHHHHHHHHHHHHHHHHHHhCCCCEEEEEEEEcCC--------------------EEEEEEEECCCCCCc
Confidence 443333335567888999999999999999998888887765433 289999999999987
Q ss_pred CChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEe
Q 005591 580 QDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKL 639 (689)
Q Consensus 580 ~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl 639 (689)
++ .|.|+||++||++++.|||+++++| ++||+|++.+|.
T Consensus 456 ~~------------------~~~GLGL~ivr~iv~~~GG~i~v~S---~~Gt~f~I~LP~ 494 (495)
T PRK11644 456 GS------------------GQQGFGLRGMRERVTALGGTLTISC---THGTRLSVSLPQ 494 (495)
T ss_pred CC------------------CCCCCcHHHHHHHHHHcCCEEEEEc---CCCEEEEEEEeC
Confidence 62 2569999999999999999999998 579999999995
No 41
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.92 E-value=1.8e-22 Score=212.73 Aligned_cols=218 Identities=37% Similarity=0.583 Sum_probs=182.5
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC-ccccceeeeHHH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGS-LELDNGPFNLQI 476 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~-~~l~~~~~~L~~ 476 (689)
.+..|...++|++++|++.+.+..+.+... ......+.+..+....+++..++++++++++.+... ........++..
T Consensus 114 ~~~~~~~~~~hel~~pl~~i~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 192 (336)
T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEG-LLDPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELVDLAE 192 (336)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCCCcCHHH
Confidence 467899999999999999999988855554 222267788888899999999999999999987652 333466788999
Q ss_pred HHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcC
Q 005591 477 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFY 556 (689)
Q Consensus 477 ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~ 556 (689)
+++++...+......+++.+....+ .+..+.+|+..+.+++.||+.||++|++.+.+.+.+...++
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~v~~~~~~l~~vl~nLi~NAi~~~~~~~i~i~~~~~~~------------ 258 (336)
T COG0642 193 LLEEVVRLLAPLAQEKGIELAVDLP--ELPYVLGDPERLRQVLVNLLSNAIKYTPGGEITISVRQDDE------------ 258 (336)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecC--CCceEeeCHHHHHHHHHHHHHHHhccCCCCeEEEEEEecCC------------
Confidence 9999999999888777887775543 23457789999999999999999999986667776665433
Q ss_pred ccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEE
Q 005591 557 PVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFL 636 (689)
Q Consensus 557 ~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~ 636 (689)
++.++|.|+|+||+++..+++|+||++++.... |+|+||++||++++.|||+++++|. ++.||+|+++
T Consensus 259 --------~i~i~V~D~G~Gi~~~~~~~if~~~~~~~~~~~---g~GlGL~i~~~~~~~~~g~i~~~~~-~~~Gt~~~i~ 326 (336)
T COG0642 259 --------QVTISVEDTGPGIPEEELERIFEPFFRTDKSRS---GTGLGLAIVKRIVELHGGTISVESE-PGKGTTFTIR 326 (336)
T ss_pred --------eEEEEEEcCCCCCCHHHHHHhccCeeccCCCCC---CCCccHHHHHHHHHHcCCEEEEEec-CCCceEEEEE
Confidence 399999999999999999999999999876542 8999999999999999999999998 7899999999
Q ss_pred EEecCC
Q 005591 637 VKLGIC 642 (689)
Q Consensus 637 lPl~~~ 642 (689)
+|....
T Consensus 327 lP~~~~ 332 (336)
T COG0642 327 LPLAPA 332 (336)
T ss_pred Eecccc
Confidence 998654
No 42
>PRK13560 hypothetical protein; Provisional
Probab=99.90 E-value=1.1e-22 Score=242.03 Aligned_cols=209 Identities=14% Similarity=0.165 Sum_probs=158.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCc
Q 005591 386 DSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSL 465 (689)
Q Consensus 386 ~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~ 465 (689)
+++++++++++++++.|++.|+||+||||+.|.++++++.+...+++...++.........+....+.+..
T Consensus 592 K~aE~~L~~a~~~~~~~l~~isHelrnpL~~I~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~--------- 662 (807)
T PRK13560 592 KHAEEKIKAALTEKEVLLKEIHHRVKNNLQIISSLLDLQAEKLHDEEAKCAFAESQDRICAMALAHEKLYQ--------- 662 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHhChHHHHHHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHhc---------
Confidence 34445556667778899999999999999999999999888777777777776666666555555554432
Q ss_pred cccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC----CcEEEEEEe
Q 005591 466 ELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE----GYVSIIASV 541 (689)
Q Consensus 466 ~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~----g~i~i~~~~ 541 (689)
.....++++.++++++...+......+...+.+.++.+.+.....+...+.+|+.||++||+||+.+ |.+.+.+..
T Consensus 663 ~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~NLl~NAik~~~~~~~~~~i~i~~~~ 742 (807)
T PRK13560 663 SEDLADIDFLDYIESLTAHLKNSFAIDFGRIDCKIDADDGCLDIDKAIPCGLIISELLSNALKHAFPDGAAGNIKVEIRE 742 (807)
T ss_pred cccchhccHHHHHHHHHHHHHHHhccccCceEEEEecCccccccccccchHHHHHHHHHHHHHhhccCCCCceEEEEEEE
Confidence 1233478999999999999887766666666666655544434446667889999999999999743 456666554
Q ss_pred ecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEE
Q 005591 542 AKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIW 621 (689)
Q Consensus 542 ~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~ 621 (689)
..++ ++.|+|+|||+|||++.. ...++||||+|||++|+.|||+|+
T Consensus 743 ~~~~-------------------~v~i~V~D~G~GI~~~~~---------------~~~~~gLGLai~~~iv~~~gG~I~ 788 (807)
T PRK13560 743 QGDG-------------------MVNLCVADDGIGLPAGFD---------------FRAAETLGLQLVCALVKQLDGEIA 788 (807)
T ss_pred cCCC-------------------EEEEEEEeCCCcCCcccc---------------ccccCCccHHHHHHHHHHcCCEEE
Confidence 3222 499999999999998732 113668999999999999999999
Q ss_pred EEeecCCCcEEEEEEEEec
Q 005591 622 LDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 622 i~S~~~g~Gt~~~~~lPl~ 640 (689)
++|. +||+|+|+||+.
T Consensus 789 v~S~---~Gt~F~i~lP~~ 804 (807)
T PRK13560 789 LDSR---GGARFNIRFPMS 804 (807)
T ss_pred EEcC---CceEEEEEecCC
Confidence 9985 699999999974
No 43
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=99.90 E-value=1.1e-19 Score=190.11 Aligned_cols=339 Identities=15% Similarity=0.185 Sum_probs=240.4
Q ss_pred HHHHHHHHHHHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccc
Q 005591 178 KNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQ 257 (689)
Q Consensus 178 ~~~a~~l~~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~ 257 (689)
+.++.+..++.+.+.++++.+..++..++.+..+...++.++.+++.+....++.++.+.+.++++...+..++-.....
T Consensus 225 ~~LE~rV~eKT~~L~~~Nq~Ls~LYqssr~L~ts~~~~~~l~~vLn~l~~~~~~~~~~l~l~~~~~e~~h~~~~~~~di~ 304 (574)
T COG3850 225 ADLEQRVEEKTRDLEQKNQRLSFLYQSSRRLHTSQIDDERLRHVLNRLQNLTGLAAVRLELYGGDDERNHQEHAEQWDIS 304 (574)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhccCCChHHHHHHHHHHHHHhhcccceEEEEecCcchhhhhhhccCccee
Confidence 44555666666778888899999999999999999999999999999999999999999888766555443332221100
Q ss_pred cCcccccCCchhHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeec
Q 005591 258 IGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPT 337 (689)
Q Consensus 258 ~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~ 337 (689)
.+ + . ..+..-...+| +...+..+|.+..
T Consensus 305 ~~------d------------------~------------~~~~~~~~~~~--------------l~~~g~~Lg~l~~-- 332 (574)
T COG3850 305 EG------D------------------Q------------PSGLKWPQEDP--------------LTQQGHLLGTLPW-- 332 (574)
T ss_pred cC------C------------------C------------Ccccchhhhcc--------------hhhhhhhheeeec--
Confidence 00 0 0 00000000011 1111222333322
Q ss_pred CCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHH
Q 005591 338 DGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAI 417 (689)
Q Consensus 338 ~~~~~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I 417 (689)
.+.....+..+++.++.+++.++.....- ++++.....++|+-.+..+++.+-+.|+-+
T Consensus 333 --~~~l~~~d~~Ll~tl~~~L~rtL~~~~~q-------------------~~~qQLllmEERatIAReLHDSiAQsLS~L 391 (574)
T COG3850 333 --QRSLPEDDQQLLDTLVQQLGRTLALNKQQ-------------------EQQQQLLLMEERATIARELHDSIAQSLSFL 391 (574)
T ss_pred --cCCCCCchHHHHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34678899999999999999988433211 111222234456677777777788888887
Q ss_pred HHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCc
Q 005591 418 IALSSLLLET---DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKL 494 (689)
Q Consensus 418 ~~~~~~L~~~---~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i 494 (689)
.-.+++|+.. ...++.++.+..+++..+....-+++++.-.|.. ...-+|..-+++.++.+..+ .++
T Consensus 392 kiQvt~L~~~~~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtTFRlt-------L~e~~L~~AL~~~~~~f~~q---tg~ 461 (574)
T COG3850 392 KIQVTLLKTAIPEELPEKAREIIAQIRQGLNDAYRQLRELLTTFRLT-------LQEAELPPALEQMLAEFSNQ---TGI 461 (574)
T ss_pred HHHHHHHHhhCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-------cccCchHHHHHHHHHHHHhc---cCC
Confidence 7777788753 4566778899999999999999999998766643 23557778888888888643 566
Q ss_pred eEEEEeCCCCCceEE--ccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEe
Q 005591 495 SMTLIMAPELPTYAV--GDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVND 572 (689)
Q Consensus 495 ~i~~~~~~~~p~~v~--~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D 572 (689)
.++++. .+|.... --..++-||+.+.++||+||+.+.+|.|.+....++ +++.|+|
T Consensus 462 ~~~l~~--qlp~~~lpa~qqvHlLqIvREAlsNa~KHa~As~i~V~~~~~~g~--------------------~~~~VeD 519 (574)
T COG3850 462 TVTLDY--QLPPRALPAHQQVHLLQIVREALSNAIKHAQASEIKVTVSQNDGQ--------------------VTLTVED 519 (574)
T ss_pred eEEEec--cCCCCCCCHHHHHHHHHHHHHHHHHHHHhcccCeEEEEEEecCCe--------------------EEEEEee
Confidence 665543 3332211 134678899999999999999999999999877643 9999999
Q ss_pred cCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEe
Q 005591 573 SGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKL 639 (689)
Q Consensus 573 ~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl 639 (689)
||+|||+..- ..| ..||.|++++++.+||.+.+++. +|+||.+.+++|-
T Consensus 520 nG~Gi~~~~e----------------~~g-HyGL~IM~ERA~~L~~~L~i~~~-~~gGT~V~ltf~~ 568 (574)
T COG3850 520 NGVGIDEAAE----------------PSG-HYGLNIMRERAQRLGGQLRIRRR-EGGGTEVSLTFPP 568 (574)
T ss_pred CCcCCCCccC----------------CCC-CcchHHHHHHHHHhcCeEEEeec-CCCCeEEEEEecc
Confidence 9999998621 113 78999999999999999999999 9999999999974
No 44
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=99.89 E-value=5.8e-21 Score=194.17 Aligned_cols=212 Identities=21% Similarity=0.350 Sum_probs=174.0
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHH---hcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLL---LETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 474 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L---~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L 474 (689)
.-++-+..++||+.+||+++..|+=.. .++..++..+.+++.|..-.+|+..+++.+..|+|..+++-++ .|++|
T Consensus 450 vVGqTmTslaHEinQPLnAmsaYLFsA~~A~e~~~s~qa~~~L~kie~L~eR~~~Iv~sLRqF~Rk~s~~~~l--qpV~L 527 (673)
T COG4192 450 VVGQTMTSLAHEINQPLNAMSAYLFSARLALEEAPSAQAATSLDKIENLTERMGKIVNSLRQFARKNSSDESL--QPVRL 527 (673)
T ss_pred HHHHHHHHHHHHhcCchHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCCc--ccccH
Confidence 345667889999999999999886433 3456677788999999999999999999999999987665444 49999
Q ss_pred HHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC--CcEEEEEEeecCCCCCCCCC
Q 005591 475 QIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE--GYVSIIASVAKPESLSDWRP 552 (689)
Q Consensus 475 ~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~--g~i~i~~~~~~~~~~~~~~~ 552 (689)
.+.++.+.+.++...+.+.+.+.. +.+ ..+|.||+..+.||+.|++-||++++.. .-|.+.....+.+
T Consensus 528 ~~~v~~AweLl~~khk~rQ~~Li~--ptD-~~~V~gd~v~ieQVlvNl~~NaldA~~h~~p~i~~~~~~~~~e------- 597 (673)
T COG4192 528 NSVVEQAWELLQTKHKRRQIKLIN--PTD-DLMVMGDAVSIEQVLVNLIVNALDASTHFAPWIKLIALGTEQE------- 597 (673)
T ss_pred HHHHHHHHHHHHhhhhhccccccC--Ccc-cceecchhhhHHHHHHHHHHHHHhhhccCCceEEEEeecCccc-------
Confidence 999999999999777666655543 334 3469999999999999999999997753 3344444333333
Q ss_pred CCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEE
Q 005591 553 PEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGST 632 (689)
Q Consensus 553 ~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~ 632 (689)
.+++.|.|||.|.|-+..+++|.||.+++. .|.|+||+||..+++.|.|++.+.|+ ..+|..
T Consensus 598 ------------~l~i~i~DnGqGwp~~l~dkLl~PFttsK~-----vgLGlGLSIsqSlmeqmqG~l~lASt-Lt~nA~ 659 (673)
T COG4192 598 ------------MLRIAIIDNGQGWPHELVDKLLTPFTTSKE-----VGLGLGLSISQSLMEQMQGRLALAST-LTKNAM 659 (673)
T ss_pred ------------ceEEEEecCCCCCchhHHHHhcCCcccccc-----cccccchhHHHHHHHHhcCcchHhhh-cccCcE
Confidence 289999999999999999999999998764 38999999999999999999999999 889988
Q ss_pred EEEEEEe
Q 005591 633 VTFLVKL 639 (689)
Q Consensus 633 ~~~~lPl 639 (689)
+.+.+..
T Consensus 660 ViL~f~v 666 (673)
T COG4192 660 VILEFQV 666 (673)
T ss_pred EEEEEee
Confidence 7766654
No 45
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=99.86 E-value=1.3e-20 Score=213.98 Aligned_cols=193 Identities=21% Similarity=0.311 Sum_probs=133.4
Q ss_pred HHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHH
Q 005591 401 DFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLRE 480 (689)
Q Consensus 401 ~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~ 480 (689)
++++.++||+||||++|.+++++... ++..+++.. .+......++++.+..+ . + .+..
T Consensus 341 ~~l~~~sHel~npL~~I~g~~~~~~~----~~~~~~~~~---~~~~~~~~~~~~~~~~~------~----~-----~~~~ 398 (542)
T PRK11086 341 DALRAQSHEFMNKLHVILGLLHLKSY----DQLEDYILK---TANNYQEEIGSLLGKIK------S----P-----VIAG 398 (542)
T ss_pred HHHHhhchhhcCHHHHHHHHHHhCch----HHHHHHHHH---HHHHHHHHHHHHHHhcc------C----H-----HHHH
Confidence 45566899999999999999876432 222233222 22222222233322111 0 1 1111
Q ss_pred HHHHHHhhhhcCCceEEEEeCCCCCceE-EccHHHHHHHHHHHHHHHhhcCC---CCcEEEEEEeecCCCCCCCCCCCcC
Q 005591 481 VIKLIKPVASCKKLSMTLIMAPELPTYA-VGDEKRLMQTILNIVGNAVKFTK---EGYVSIIASVAKPESLSDWRPPEFY 556 (689)
Q Consensus 481 ~~~~~~~~~~~~~i~i~~~~~~~~p~~v-~~D~~~l~qvl~nLl~NAik~~~---~g~i~i~~~~~~~~~~~~~~~~~~~ 556 (689)
.+......+..+++.+.++.+...|... ..+...+.+++.||++||++|+. ++.+.+.+...++
T Consensus 399 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~------------ 466 (542)
T PRK11086 399 FLLGKISRARELGITLIISEDSQLPDSGDEDQVHELITILGNLIENALEAVGGEEGGEISVSLHYRNG------------ 466 (542)
T ss_pred HHHHHHHHHHHcCCEEEEeCCCCCCcccccccHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCC------------
Confidence 1112223355678888887766555322 12345799999999999999963 3566666554332
Q ss_pred ccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEE
Q 005591 557 PVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFL 636 (689)
Q Consensus 557 ~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~ 636 (689)
.+.|+|+|||+||+++..+++|+||++++. .|+|+||++||++++.|||+|+++|. +|+||+|++.
T Consensus 467 --------~~~i~V~D~G~gi~~~~~~~iF~~~~~~~~-----~g~GlGL~iv~~iv~~~~G~i~v~s~-~~~G~~f~i~ 532 (542)
T PRK11086 467 --------WLHCEVSDDGPGIAPDEIDAIFDKGYSTKG-----SNRGVGLYLVKQSVENLGGSIAVESE-PGVGTQFFVQ 532 (542)
T ss_pred --------EEEEEEEECCCCCCHHHHHHHHhCCCccCC-----CCCcCcHHHHHHHHHHcCCEEEEEeC-CCCcEEEEEE
Confidence 389999999999999999999999997653 48899999999999999999999998 8999999999
Q ss_pred EEecC
Q 005591 637 VKLGI 641 (689)
Q Consensus 637 lPl~~ 641 (689)
||...
T Consensus 533 lP~~~ 537 (542)
T PRK11086 533 IPWDG 537 (542)
T ss_pred EeCCC
Confidence 99853
No 46
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=99.85 E-value=1.5e-17 Score=176.01 Aligned_cols=195 Identities=21% Similarity=0.261 Sum_probs=141.8
Q ss_pred HHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHH
Q 005591 401 DFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLRE 480 (689)
Q Consensus 401 ~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~ 480 (689)
+-++..+||..|-|++|.|++++=.- .+..+.|.+.++.-.+.++.+..--+ .--+..++-.
T Consensus 335 ~aLRaq~HEfmNkLhtI~GLlql~~y-------d~a~~~I~~~~~~qq~~~~~l~~~i~-----------~~~lAg~Llg 396 (537)
T COG3290 335 EALRAQSHEFMNKLHTILGLLQLGEY-------DDALDYIQQESEEQQELIDSLSEKIK-----------DPVLAGFLLG 396 (537)
T ss_pred HHHHHhhHHHHHHHHHHHHHHhhccH-------HHHHHHHHHHHhhhhhhHHHHHHhcc-----------cHHHHHHHHh
Confidence 45667799999999999999887322 23334455555444455554433211 1223344332
Q ss_pred HHHHHHhhhhcCCceEEEEeCCCCCce-EEccHHHHHHHHHHHHHHHhhcCC----CCcEEEEEEeecCCCCCCCCCCCc
Q 005591 481 VIKLIKPVASCKKLSMTLIMAPELPTY-AVGDEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKPESLSDWRPPEF 555 (689)
Q Consensus 481 ~~~~~~~~~~~~~i~i~~~~~~~~p~~-v~~D~~~l~qvl~nLl~NAik~~~----~g~i~i~~~~~~~~~~~~~~~~~~ 555 (689)
-.. .+++.|+.+.++.+..+|.. -.-+...+--++-||++||+++.. ++.+.+.+...++
T Consensus 397 K~~----rArElgv~l~Id~~S~l~~~p~~~~~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~----------- 461 (537)
T COG3290 397 KIS----RARELGVSLIIDPNSQLPQLPSELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGD----------- 461 (537)
T ss_pred HHH----HHHHcCceEEEcCCCcCCCCCCccChHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCC-----------
Confidence 222 35578888888776665542 223788899999999999999764 2445555544433
Q ss_pred CccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEE
Q 005591 556 YPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTF 635 (689)
Q Consensus 556 ~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~ 635 (689)
.+.++|.|+|+|||++..+++|+..++++.. .+.|+||++||+.|+.+||.|+++|+ .+.||+|++
T Consensus 462 ---------~lvieV~D~G~GI~~~~~~~iFe~G~Stk~~----~~rGiGL~Lvkq~V~~~~G~I~~~s~-~~~Gt~F~i 527 (537)
T COG3290 462 ---------ELVIEVADTGPGIPPEVRDKIFEKGVSTKNT----GGRGIGLYLVKQLVERLGGSIEVESE-KGQGTRFSI 527 (537)
T ss_pred ---------EEEEEEeCCCCCCChHHHHHHHhcCccccCC----CCCchhHHHHHHHHHHcCceEEEeeC-CCCceEEEE
Confidence 3999999999999999999999999988762 47799999999999999999999998 899999999
Q ss_pred EEEecCC
Q 005591 636 LVKLGIC 642 (689)
Q Consensus 636 ~lPl~~~ 642 (689)
.+|....
T Consensus 528 ~iP~~~~ 534 (537)
T COG3290 528 YIPKVKE 534 (537)
T ss_pred ECCCCcc
Confidence 9998643
No 47
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=99.85 E-value=1e-19 Score=206.81 Aligned_cols=193 Identities=21% Similarity=0.251 Sum_probs=140.6
Q ss_pred HHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHH
Q 005591 403 RAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVI 482 (689)
Q Consensus 403 ~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~ 482 (689)
+..++||++|||++|.+++++- +..+.++.+.+.+.++..+++++...... -.+..++ .
T Consensus 342 l~~~~he~~n~L~~i~g~l~~~-------~~~~~~~~i~~~s~~~~~l~~~l~~~~~~-----------~~~~~~l---~ 400 (545)
T PRK15053 342 LRTLRHEHLNWMSTLNGLLQMK-------EYDRVLEMVQGESQAQQQLIDSLREAFAD-----------RQVAGLL---F 400 (545)
T ss_pred HHHHHHHHhhhHHHHHHHHhhc-------hhhHHHHHHHHHHHHHHHHHHHHHHhccc-----------HHHHHHH---H
Confidence 4457899999999999987652 22345677778888888888877654320 1111221 1
Q ss_pred HHHHhhhhcCCceEEEEeCCCCC-ceEEccHHHHHHHHHHHHHHHhhcC---CC--CcEEEEEEeecCCCCCCCCCCCcC
Q 005591 483 KLIKPVASCKKLSMTLIMAPELP-TYAVGDEKRLMQTILNIVGNAVKFT---KE--GYVSIIASVAKPESLSDWRPPEFY 556 (689)
Q Consensus 483 ~~~~~~~~~~~i~i~~~~~~~~p-~~v~~D~~~l~qvl~nLl~NAik~~---~~--g~i~i~~~~~~~~~~~~~~~~~~~ 556 (689)
.. ...+.++++.+.+..+.... .....|+..+.|++.||++||++|+ +. +.+.+.+...++
T Consensus 401 ~~-~~~~~~~~i~~~~~~~~~~~~l~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~------------ 467 (545)
T PRK15053 401 GK-VQRARELGLKMVIVPGSQLSQLPPGLDSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGD------------ 467 (545)
T ss_pred HH-HHHHHHhCCceEEcCCCccccccccCCHHHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCC------------
Confidence 11 22345677777765443321 1234599999999999999999995 33 345554433222
Q ss_pred ccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEE
Q 005591 557 PVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFL 636 (689)
Q Consensus 557 ~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~ 636 (689)
.+.++|+|||+||+++..+++|++||+++... ..|+|+||++||++++.|||+|+++|. +|.||+|++.
T Consensus 468 --------~~~i~V~D~G~Gi~~~~~~~iF~~~~~tk~~~--~~g~GlGL~ivk~iv~~~~G~i~v~s~-~~~Gt~f~i~ 536 (545)
T PRK15053 468 --------DVVIEVADQGCGVPESLRDKIFEQGVSTRADE--PGEHGIGLYLIASYVTRCGGVITLEDN-DPCGTLFSIF 536 (545)
T ss_pred --------EEEEEEEeCCCCcCHHHHHHHhCCCCCCCCCC--CCCceeCHHHHHHHHHHcCCEEEEEEC-CCCeEEEEEE
Confidence 38999999999999999999999999876432 237899999999999999999999999 8999999999
Q ss_pred EEec
Q 005591 637 VKLG 640 (689)
Q Consensus 637 lPl~ 640 (689)
||..
T Consensus 537 lP~~ 540 (545)
T PRK15053 537 IPKV 540 (545)
T ss_pred ECCC
Confidence 9974
No 48
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=99.83 E-value=1.3e-16 Score=182.19 Aligned_cols=188 Identities=17% Similarity=0.232 Sum_probs=136.8
Q ss_pred HHHHhhchHHHHHHHHH----HHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHH
Q 005591 406 MNHEMRTLMHAIIALSS----LLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLR 479 (689)
Q Consensus 406 ~sHelr~PL~~I~~~~~----~L~~~--~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~ 479 (689)
++|++++|+..+...+. ++... ...++..+.+..+.+...++...+.+++...+ ....++++.+.++
T Consensus 367 la~el~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~~~~-------~~~~~~~l~~~l~ 439 (565)
T PRK10935 367 IARELHDSLAQVLSYLKIQLTLLKRSLDEDNAKAQSIIAEFDQALSDAYRQLRELLTTFR-------LTIQEANLGSALE 439 (565)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-------CCCCCCCHHHHHH
Confidence 56777777766655543 34332 22445566777777777777777777765443 3345789999999
Q ss_pred HHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccC
Q 005591 480 EVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVS 559 (689)
Q Consensus 480 ~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~ 559 (689)
+++..++.. .++.+.++.+.+.......+..++.|++.|++.||+||++.+.+.+......++
T Consensus 440 ~~~~~~~~~---~~~~i~~~~~~~~~~~~~~~~~~l~qv~~nll~NA~k~~~~~~i~i~~~~~~~~-------------- 502 (565)
T PRK10935 440 EMLDQLRNQ---TDAKITLDCRLPSQALDAQQQVHLLQIIREATLNAIKHANASEIAVSCVTNPDG-------------- 502 (565)
T ss_pred HHHHHHHHh---hCCeEEEEeeCCCCCCCHHHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEEcCCC--------------
Confidence 999988754 334444433322222223345679999999999999999988888877654232
Q ss_pred CCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEe
Q 005591 560 TDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKL 639 (689)
Q Consensus 560 ~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl 639 (689)
.+.++|.|+|+||+++. ..|+|+||++|+++++.|||+|+++|. +|+||+|++.+|.
T Consensus 503 -----~~~i~V~D~G~Gi~~~~-----------------~~~~glGL~i~~~iv~~~~G~i~v~s~-~~~Gt~~~i~lP~ 559 (565)
T PRK10935 503 -----EHTVSIRDDGIGIGELK-----------------EPEGHYGLNIMQERAERLGGTLTISQP-PGGGTTVSLTFPS 559 (565)
T ss_pred -----EEEEEEEECCcCcCCCC-----------------CCCCCcCHHHHHHHHHHcCCEEEEEEC-CCCcEEEEEEECC
Confidence 38999999999998752 136799999999999999999999999 8999999999997
Q ss_pred c
Q 005591 640 G 640 (689)
Q Consensus 640 ~ 640 (689)
+
T Consensus 560 ~ 560 (565)
T PRK10935 560 Q 560 (565)
T ss_pred C
Confidence 5
No 49
>PRK13559 hypothetical protein; Provisional
Probab=99.79 E-value=4.2e-18 Score=183.19 Aligned_cols=185 Identities=14% Similarity=0.205 Sum_probs=138.7
Q ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHH
Q 005591 399 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVL 478 (689)
Q Consensus 399 ~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll 478 (689)
+.+|++.++|+++|||+.|.++++++... .+..++++.+.+.+.++..+++++++.++ ..++++.+++
T Consensus 170 ~~~l~~~l~H~~~n~L~~i~~~~~l~~~~---~~~~~~~~~i~~~~~~l~~~~~~ll~~~~---------~~~v~l~~~~ 237 (361)
T PRK13559 170 ERRLAREVDHRSKNVFAVVDSIVRLTGRA---DDPSLYAAAIQERVQALARAHETLLDERG---------WETVEVEELI 237 (361)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHhhccC---CCHHHHHHHHHHHHHHHHHHHHHHhccCC---------cCcccHHHHH
Confidence 34678889999999999999999987632 23345778888889999999888876543 3479999999
Q ss_pred HHHHHHHHhhhhcCCceEEEEeCCCCCceEEc-cHHHHHHHHHHHHHHHhhcC----CCCcEEEEEEeecCCCCCCCCCC
Q 005591 479 REVIKLIKPVASCKKLSMTLIMAPELPTYAVG-DEKRLMQTILNIVGNAVKFT----KEGYVSIIASVAKPESLSDWRPP 553 (689)
Q Consensus 479 ~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~-D~~~l~qvl~nLl~NAik~~----~~g~i~i~~~~~~~~~~~~~~~~ 553 (689)
+++...+... +..+.++. +..+ +.. +...+.+|+.||+.||+||+ +.|.+.+.+.....+
T Consensus 238 ~~~~~~~~~~----~~~i~~~~-~~~~--~~~~~~~~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~~~~~~-------- 302 (361)
T PRK13559 238 RAQVAPYAPR----ATRVAFEG-PGIR--LGAASVQPLGLVLHELAVNAIKHGALSADQGRISISWKPSPEG-------- 302 (361)
T ss_pred HHHHHhhcCC----CceEEEEC-CCee--eCHHHHHHHHHHHHHHHHhHHHhccccCCCcEEEEEEEecCCC--------
Confidence 9998877532 34455542 2221 221 23569999999999999993 347777766322211
Q ss_pred CcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHH-hCCEEEEEeecCCCcEE
Q 005591 554 EFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNL-MGGHIWLDSEGLDKGST 632 (689)
Q Consensus 554 ~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~-~gG~I~i~S~~~g~Gt~ 632 (689)
..+.+.|.|+|.|++++. .|+|+||.+|+++++. |||++++++. +.||+
T Consensus 303 ----------~~~~i~v~d~G~~~~~~~------------------~~~g~Gl~i~~~~v~~~~gG~i~~~~~--~~G~~ 352 (361)
T PRK13559 303 ----------AGFRIDWQEQGGPTPPKL------------------AKRGFGTVIIGAMVESQLNGQLEKTWS--DDGLL 352 (361)
T ss_pred ----------CeEEEEEECCCCCCCCCC------------------CCCCcHHHHHHHHHHHHcCCeEEEEEc--CCeEE
Confidence 138999999999977652 3679999999999986 9999999997 57999
Q ss_pred EEEEEEec
Q 005591 633 VTFLVKLG 640 (689)
Q Consensus 633 ~~~~lPl~ 640 (689)
|++++|+.
T Consensus 353 ~~l~~P~~ 360 (361)
T PRK13559 353 ARIEIPSR 360 (361)
T ss_pred EEEEEeCC
Confidence 99999964
No 50
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=99.78 E-value=2.3e-16 Score=156.68 Aligned_cols=245 Identities=16% Similarity=0.206 Sum_probs=186.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHH
Q 005591 345 DHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVA-LDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSL 423 (689)
Q Consensus 345 ~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~-l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~ 423 (689)
.+..+++..++.|.-+.+.....+...++.++++.+.-.+ ...+++-....++.|++.++.+++|+.+.+++|...+.+
T Consensus 248 s~l~dLll~l~~Qal~Gl~LGiaIqrlrelnqrL~~EL~~~raLaeqListEEsiRk~vARELHDeIGQnITAIr~Qa~i 327 (497)
T COG3851 248 SHLVDLLLSLLAQALTGLGLGIAIQRLRELNQRLQKELARNRALAEQLISTEESIRKDVARELHDEIGQNITAIRTQAGI 327 (497)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHhcchHHHHHHHHHH
Confidence 5778888888888665555555555555555555432211 112233333445678899999999999999999999999
Q ss_pred HhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCC
Q 005591 424 LLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPE 503 (689)
Q Consensus 424 L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~ 503 (689)
.++-..++..++....|++-+-++..-++.++.--| +...+...+.+.++++++.++ ..++|+...++...+
T Consensus 328 vkR~~~~~q~kqaas~Ie~LslrI~~svrqLL~rLR------P~~LDdL~l~qai~~l~~Em~--~~ergihcq~~~~~n 399 (497)
T COG3851 328 VKRAADNAQVKQAASLIEQLSLRIYDSVRQLLGRLR------PRQLDDLTLEQAIRSLLREME--LEERGIHCQLDWRIN 399 (497)
T ss_pred HHhccCCHhHHhHHHHHHHHHHHHHHHHHHHHHhcC------CcccccccHHHHHHHHHHHhh--hhhcCeEEEeccccC
Confidence 998777888888888888888888888888875433 333446788999999999887 668899888876544
Q ss_pred CCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh
Q 005591 504 LPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP 583 (689)
Q Consensus 504 ~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~ 583 (689)
....-..-+..++++.+++++|.+||+++..|++.....++. +.++|+|||.|+|+..
T Consensus 400 ~~~ldet~rvTLyRl~QE~LNNI~KHA~AS~V~i~l~~~~e~--------------------l~Lei~DdG~Gl~~~~-- 457 (497)
T COG3851 400 ETALDETQRVTLYRLCQELLNNICKHADASAVTIQLWQQDER--------------------LMLEIEDDGSGLPPGS-- 457 (497)
T ss_pred cccCCcceeEeHHHHHHHHHHHHHhccccceEEEEEeeCCcE--------------------EEEEEecCCcCCCCCC--
Confidence 322111223459999999999999999999999988775543 8999999999998762
Q ss_pred hhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEE
Q 005591 584 LLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 584 ~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
+-.|+||.-++++|..+||++.++|. .||++.+.+|
T Consensus 458 ----------------~v~G~Gl~GmrERVsaLGG~ltlssq---~GTrviVnLP 493 (497)
T COG3851 458 ----------------GVQGFGLTGMRERVSALGGTLTLSSQ---HGTRVIVNLP 493 (497)
T ss_pred ----------------CccCcCcchHHHHHHHhCCceEEEec---cCcEEEEecc
Confidence 23599999999999999999999997 7999999999
No 51
>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=99.77 E-value=1.1e-18 Score=154.08 Aligned_cols=109 Identities=33% Similarity=0.590 Sum_probs=98.7
Q ss_pred ccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcC
Q 005591 510 GDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTK 588 (689)
Q Consensus 510 ~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~ 588 (689)
||+.++.+++.||+.||++|+++ +.+.+.+...++. +.|+|+|+|.||+++.++++|++
T Consensus 1 gd~~~l~~il~~ll~Na~~~~~~~~~I~i~~~~~~~~--------------------~~i~i~d~G~gi~~~~l~~~~~~ 60 (111)
T PF02518_consen 1 GDPDRLRQILSELLDNAIKHSPEGGKIDITIEEDDDH--------------------LSIEISDNGVGIPPEELEKLFEP 60 (111)
T ss_dssp ETHHHHHHHHHHHHHHHHHHHHHTSEEEEEEEEETTE--------------------EEEEEEESSSSTTHHHHHHHCST
T ss_pred CcHHHHHHHHHHHHHHHHHHhcCCCEEEEEEEEecCe--------------------EEEEEEeccccccccccccchhh
Confidence 69999999999999999999987 7888888776543 99999999999999999999999
Q ss_pred CcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEe
Q 005591 589 FAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKL 639 (689)
Q Consensus 589 f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl 639 (689)
+++.+.......|.|+||++|+.++++|+|++++++. ++.||+|+|.+|+
T Consensus 61 ~~~~~~~~~~~~g~GlGL~~~~~~~~~~~g~l~~~~~-~~~gt~v~~~~p~ 110 (111)
T PF02518_consen 61 FFTSDKSETSISGHGLGLYIVKQIAERHGGELTIESS-EGGGTTVTFTLPL 110 (111)
T ss_dssp TSHSSSSSGGSSSSSHHHHHHHHHHHHTTEEEEEEEE-TTTEEEEEEEEEG
T ss_pred cccccccccccCCCChHHHHHHHHHHHCCCEEEEEEc-CCCcEEEEEEEEC
Confidence 9998764444568999999999999999999999999 8999999999997
No 52
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.73 E-value=1.8e-15 Score=162.73 Aligned_cols=195 Identities=22% Similarity=0.299 Sum_probs=135.3
Q ss_pred HHHHHHHHHHHHHhhchHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeH
Q 005591 397 HARNDFRAVMNHEMRTLMHAIIALSSLLL--ETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 474 (689)
Q Consensus 397 ~~~~~~~~~~sHelr~PL~~I~~~~~~L~--~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L 474 (689)
++|+++++.+++.+-+-|.++....+... .+...++.++.++.+.+.++...+-++.+.. .+.+...+-
T Consensus 169 ~ER~RIARdLHDsv~q~L~~i~m~~~~~~~~~~~~~e~~~~~l~~i~~~~~e~l~evR~~v~---------~Lrp~~l~~ 239 (365)
T COG4585 169 EERNRIARDLHDSVGQSLTAISMLLALLLLLADEDAEKAQEELKEIEKLLREALQEVRALVR---------DLRPVELEG 239 (365)
T ss_pred HHHHHHHHHHhhHHhhHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------hcCCchhhc
Confidence 67889999999999999999886222222 2233344555555555554444333333322 122222222
Q ss_pred HHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCC
Q 005591 475 QIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPE 554 (689)
Q Consensus 475 ~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~ 554 (689)
..+...+....+......++.+........+.....-+..+++++++.++|++||+++.++.+.+...++.
T Consensus 240 ~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~e~~l~rivQEaltN~~rHa~A~~v~V~l~~~~~~--------- 310 (365)
T COG4585 240 LGLVEALRALLADFEERTGITVDLSLGSELERLPPEAEDALFRIVQEALTNAIRHAQATEVRVTLERTDDE--------- 310 (365)
T ss_pred chHHHHHHHHHHHHHhhcCeEEEEecCcccccCChhHHHHHHHHHHHHHHHHHhccCCceEEEEEEEcCCE---------
Confidence 22334444444444444566666655432222233467889999999999999999999999999887664
Q ss_pred cCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEE
Q 005591 555 FYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVT 634 (689)
Q Consensus 555 ~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~ 634 (689)
+.++|.|||+|++++.. +.|+||..+|++++.+||++.+.|. +|+||+++
T Consensus 311 -----------l~l~V~DnG~Gf~~~~~------------------~~~~GL~~mreRv~~lgG~l~i~S~-~g~Gt~i~ 360 (365)
T COG4585 311 -----------LRLEVIDNGVGFDPDKE------------------GGGFGLLGMRERVEALGGTLTIDSA-PGQGTTVT 360 (365)
T ss_pred -----------EEEEEEECCcCCCcccc------------------CCCcchhhHHHHHHHcCCEEEEEec-CCCceEEE
Confidence 99999999999987632 1489999999999999999999999 89999999
Q ss_pred EEEEe
Q 005591 635 FLVKL 639 (689)
Q Consensus 635 ~~lPl 639 (689)
+++|+
T Consensus 361 i~lPl 365 (365)
T COG4585 361 ITLPL 365 (365)
T ss_pred EecCC
Confidence 99995
No 53
>PRK10547 chemotaxis protein CheA; Provisional
Probab=99.67 E-value=5e-15 Score=166.73 Aligned_cols=147 Identities=20% Similarity=0.351 Sum_probs=116.5
Q ss_pred eeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHH---HHHHHHHHhhcC-------------CCCcE
Q 005591 472 FNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQT---ILNIVGNAVKFT-------------KEGYV 535 (689)
Q Consensus 472 ~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qv---l~nLl~NAik~~-------------~~g~i 535 (689)
+.+..++...-..++..+...+..+++.+.... +..|+..+.++ +.||+.||++|+ +.|.+
T Consensus 343 ~p~~~~~~~~~rlvrdla~~~gk~v~l~~~g~~---~~lD~~~l~~l~dpL~hLirNAidHgie~p~~R~~~gkp~~G~I 419 (670)
T PRK10547 343 MPMEYVFSRFPRLVRDLAGKLGKQVELTLVGSS---TELDKSLIERIIDPLTHLVRNSLDHGIELPEKRLAAGKNSVGNL 419 (670)
T ss_pred ccHHHHHHHHHHHHHHHHHHcCCcEEEEEeCCc---eecCHHHHHHHHHHHHHHHHHHHHhhccchhhHHhcCCCCCCce
Confidence 456777777777777777666667777665542 45699999888 579999999996 13566
Q ss_pred EEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh---------------------hhhcCCcccCC
Q 005591 536 SIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP---------------------LLFTKFAQSRG 594 (689)
Q Consensus 536 ~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~---------------------~if~~f~~~~~ 594 (689)
.+......+ .+.|+|+|+|.||+++.+. .+|+|+|++..
T Consensus 420 ~l~a~~~~~--------------------~v~I~V~DdG~GId~e~i~~~a~~~Gl~~~~~ls~~e~~~lIF~pgfst~~ 479 (670)
T PRK10547 420 ILSAEHQGG--------------------NICIEVTDDGAGLNRERILAKAASQGLAVSENMSDEEVGMLIFAPGFSTAE 479 (670)
T ss_pred EEEEEEcCC--------------------EEEEEEEeCCCCCCHHHHHHHHHHcCCCccccCCHHHHHHHhhcCCccccc
Confidence 666655433 3899999999999986543 59999888765
Q ss_pred CCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCC
Q 005591 595 SSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGIC 642 (689)
Q Consensus 595 ~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~ 642 (689)
..+...|.|+||.+||++++.|||+|+++|. +|+||+|++.+|+...
T Consensus 480 ~~~~~sGrGvGL~iVk~~ve~lgG~I~v~S~-~g~Gt~f~i~LPltla 526 (670)
T PRK10547 480 QVTDVSGRGVGMDVVKRNIQEMGGHVEIQSK-QGKGTTIRILLPLTLA 526 (670)
T ss_pred ccccCCCCchhHHHHHHHHHHcCCEEEEEec-CCCcEEEEEEEechhh
Confidence 4444569999999999999999999999999 8999999999999764
No 54
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.58 E-value=3.6e-11 Score=118.59 Aligned_cols=202 Identities=16% Similarity=0.203 Sum_probs=148.3
Q ss_pred HHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHH
Q 005591 396 IHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 475 (689)
Q Consensus 396 ~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~ 475 (689)
..++.++++.+++.+.+-|-+..-.+++....-.++.. -....+.+.++.+..-|+++..+|.-- -+.-.....|.
T Consensus 248 edEr~rlaRELHDGIsQ~LVs~k~~lela~~ql~~p~~-~a~~aieKaa~aL~~Ai~EVRRiSH~L---RP~~LDDLGL~ 323 (459)
T COG4564 248 EDERARLARELHDGISQNLVSVKCALELAARQLNPPKG-GAHPAIEKAADALNGAIKEVRRISHDL---RPRALDDLGLT 323 (459)
T ss_pred hHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccCCCCCC-CCchhhhhHHHHHHHHHHHHHHhcccc---ChhhhhhhhHH
Confidence 34567788888999999999998888888765333222 112457788899999999998887621 11112244566
Q ss_pred HHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCc
Q 005591 476 IVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEF 555 (689)
Q Consensus 476 ~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~ 555 (689)
..++..++.++ +..++.++++.+.........-...+++|.++.++|.=+|++...|.+......+.
T Consensus 324 aALe~L~~~f~---~~tg~~itle~~~~p~~l~~e~~talyRv~QEaltNIErHa~Atrv~ill~~~~d~---------- 390 (459)
T COG4564 324 AALEALLEDFK---ERTGIEITLEFDTQPGKLKPEVATALYRVVQEALTNIERHAGATRVTILLQQMGDM---------- 390 (459)
T ss_pred HHHHHHHHHhh---hccCeEEEEEecCCcccCCcHHHHHHHHHHHHHHHHHHhhcCCeEEEEEeccCCcc----------
Confidence 66666666665 45788888876554323333346789999999999999999888888777654443
Q ss_pred CccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEE
Q 005591 556 YPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTF 635 (689)
Q Consensus 556 ~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~ 635 (689)
+.+.|+|||+|++.+... .+-.|+||-.+++++...||++.++|. + +||..++
T Consensus 391 ----------vql~vrDnG~GF~~~~~~---------------~~~~GiGLRNMrERma~~GG~~~v~s~-p-~GTel~v 443 (459)
T COG4564 391 ----------VQLMVRDNGVGFSVKEAL---------------QKRHGIGLRNMRERMAHFGGELEVESS-P-QGTELTV 443 (459)
T ss_pred ----------eEEEEecCCCCccchhhc---------------cCccccccccHHHHHHHhCceEEEEec-C-CCcEEEE
Confidence 999999999999876431 112599999999999999999999998 4 5999999
Q ss_pred EEEecC
Q 005591 636 LVKLGI 641 (689)
Q Consensus 636 ~lPl~~ 641 (689)
.+|...
T Consensus 444 ~Lp~~~ 449 (459)
T COG4564 444 LLPLDA 449 (459)
T ss_pred Eecchh
Confidence 999854
No 55
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=99.51 E-value=5.8e-13 Score=150.75 Aligned_cols=148 Identities=21% Similarity=0.346 Sum_probs=117.5
Q ss_pred eeeHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHH---HHHHHHHHhhcC-------------CCCc
Q 005591 471 PFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQT---ILNIVGNAVKFT-------------KEGY 534 (689)
Q Consensus 471 ~~~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qv---l~nLl~NAik~~-------------~~g~ 534 (689)
.+.+..++...-..++..+.+-|-.+++.+..... .-|+..+.++ |.|||.||++|. +.|.
T Consensus 389 MvP~~~vf~RfpR~VRdla~~lgK~V~L~ieG~~t---elDksIlE~l~dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~ 465 (716)
T COG0643 389 MVPFEQVFSRFPRMVRDLARKLGKQVELVIEGEDT---ELDKSILERLGDPLTHLVRNAVDHGIETPEERRAAGKPEEGT 465 (716)
T ss_pred ceeHHHHHhhccHHHHHHHHHhCCeeEEEEecCCe---eehHHHHHHhcccHHHHHhcchhccCCCHHHHHHcCCCCcce
Confidence 45566666666666666666666666666655532 2388877776 679999999996 3477
Q ss_pred EEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCC------------------------hhhhhcCCc
Q 005591 535 VSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQD------------------------IPLLFTKFA 590 (689)
Q Consensus 535 i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~------------------------~~~if~~f~ 590 (689)
|.++.....+. +.|+|+|+|.||+.+. ..-||.|.|
T Consensus 466 I~L~A~~~gn~--------------------ivIev~DDG~Gid~ekI~~KAiErGli~~~~a~~lSd~Ei~~LIF~PGF 525 (716)
T COG0643 466 ITLSAYHEGNN--------------------IVIEVSDDGAGIDREKIREKAIERGLITEEEAETLSDEEILNLIFAPGF 525 (716)
T ss_pred EEEEEEcCCCe--------------------EEEEEeeCCCCCCHHHHHHHHHHcCCCChHHhccCCHHHHHHHHhcCCC
Confidence 77777665443 9999999999997642 345899999
Q ss_pred ccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCC
Q 005591 591 QSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGIC 642 (689)
Q Consensus 591 ~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~ 642 (689)
++....+.-+|.|.||-+||+-++.+||+|.|+|+ +|+||+|++.||+...
T Consensus 526 STa~~VtdvSGRGVGMDVVk~~I~~LgG~I~V~S~-~G~GT~Fti~LPLTLa 576 (716)
T COG0643 526 STAEQVTDVSGRGVGMDVVKTNIEQLGGSISVSSE-PGKGTTFTIRLPLTLA 576 (716)
T ss_pred CcchhhhcccCCccCHHHHHHHHHHcCCEEEEEec-CCCCeEEEEecCcHHH
Confidence 99888877889999999999999999999999999 9999999999999753
No 56
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.48 E-value=2.6e-11 Score=119.50 Aligned_cols=195 Identities=17% Similarity=0.223 Sum_probs=139.6
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHH
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 477 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~l 477 (689)
.+..+...++|.+||-|+.|.+++.+-.+...++ ..+.+......+..|...-+.+.. . .....+...+
T Consensus 18 ~~~~ll~Ei~HRVKNnLqiIsSll~lq~r~~~~~-~~~~~~~~~~Ri~sla~~He~L~~---------s-~~~~~~~~~~ 86 (221)
T COG3920 18 EKELLLREIHHRVKNNLQIISSLLRLQARKFEDE-VLEALRESQNRIQSLALIHELLYK---------S-GDDTWDFASY 86 (221)
T ss_pred HHHHHHHHhhhhhhhHHHHHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHHHHHhc---------C-CcceEcHHHH
Confidence 3556778899999999999999988877765555 444444444444444433333321 1 2347889999
Q ss_pred HHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC----CCCcEEEEEEeecCCCCCCCCCC
Q 005591 478 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT----KEGYVSIIASVAKPESLSDWRPP 553 (689)
Q Consensus 478 l~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~----~~g~i~i~~~~~~~~~~~~~~~~ 553 (689)
++.+...+.+....+++.+....++++. .-.....-|--++.+|+.||+||+ +.|.|.|.....++++
T Consensus 87 ~~~L~~~l~~~~~~~~~~~~~~~~~~~~-l~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~------- 158 (221)
T COG3920 87 LELLASNLFPSYGGKDIRLILDSGPNVF-LDPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGG------- 158 (221)
T ss_pred HHHHHHHHHHhcCCCCceEEEecCCceE-ECchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCC-------
Confidence 9999988887654456666665555321 122235568899999999999997 3577777777765531
Q ss_pred CcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHH-HHhCCEEEEEeecCCCcEE
Q 005591 554 EFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFV-NLMGGHIWLDSEGLDKGST 632 (689)
Q Consensus 554 ~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv-~~~gG~I~i~S~~~g~Gt~ 632 (689)
...+.|.|+|.|++.+.- + ...|+|+.+++.++ +..||.+...+. .||.
T Consensus 159 -----------~~~l~v~deg~G~~~~~~------~----------~~~g~G~~Lv~~lv~~q~~g~~~~~~~---~Gt~ 208 (221)
T COG3920 159 -----------RFLLTVWDEGGGPPVEAP------L----------SRGGFGLQLVERLVPEQLGGELEDERP---DGTE 208 (221)
T ss_pred -----------eEEEEEEECCCCCCCCCC------C----------CCCCcHHHHHHHHHHHHcCCeEEEEcC---CCEE
Confidence 268899999999887621 0 13499999999999 899999999886 3999
Q ss_pred EEEEEEecC
Q 005591 633 VTFLVKLGI 641 (689)
Q Consensus 633 ~~~~lPl~~ 641 (689)
|++.+|...
T Consensus 209 ~~i~~~~~~ 217 (221)
T COG3920 209 FRLRFPLSE 217 (221)
T ss_pred EEEEEeccc
Confidence 999999864
No 57
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=99.41 E-value=2.7e-12 Score=111.94 Aligned_cols=110 Identities=36% Similarity=0.641 Sum_probs=92.3
Q ss_pred ccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcC
Q 005591 510 GDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTK 588 (689)
Q Consensus 510 ~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~ 588 (689)
+|...+.+++.|++.||++|+.. +.+.+.+...++ .+.+.|.|+|.|++++...++|.+
T Consensus 1 ~~~~~l~~~~~~l~~n~~~~~~~~~~v~i~~~~~~~--------------------~~~i~i~d~g~g~~~~~~~~~~~~ 60 (111)
T smart00387 1 GDPDRLRQVLSNLLDNAIKYTPEGGRITVTLERDGD--------------------HLEITVEDNGPGIPPEDLEKIFEP 60 (111)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEEcCC--------------------EEEEEEEeCCCCCCHHHHHHHhcC
Confidence 47889999999999999999986 667776665433 389999999999999999999999
Q ss_pred CcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEec
Q 005591 589 FAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 589 f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~ 640 (689)
++..+.......+.|+||++|+.+++.|+|++++.+. ++.|++|++.+|+.
T Consensus 61 ~~~~~~~~~~~~~~g~gl~~~~~~~~~~~g~~~~~~~-~~~g~~~~~~~~~~ 111 (111)
T smart00387 61 FFRTDGRSRKIGGTGLGLSIVKKLVELHGGEISVESE-PGGGTTFTITLPLE 111 (111)
T ss_pred eEECCCCCCCCCcccccHHHHHHHHHHcCCEEEEEec-CCCcEEEEEEeeCC
Confidence 8876532222347899999999999999999999987 78899999999973
No 58
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=99.41 E-value=2.2e-12 Score=140.41 Aligned_cols=147 Identities=18% Similarity=0.251 Sum_probs=103.1
Q ss_pred EEccHHHHHHHHHHHHHHHhhcCCCC----cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh
Q 005591 508 AVGDEKRLMQTILNIVGNAVKFTKEG----YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP 583 (689)
Q Consensus 508 v~~D~~~l~qvl~nLl~NAik~~~~g----~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~ 583 (689)
..++...+.|++.||++||++|++.+ .+.+.+...+.+ ...+.|.|+|||+||++++++
T Consensus 30 f~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~-----------------~~~~~I~V~DNG~GIp~e~l~ 92 (535)
T PRK04184 30 FDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEG-----------------KDHYRVTVEDNGPGIPPEEIP 92 (535)
T ss_pred ecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCC-----------------CcEEEEEEEcCCCCCCHHHHH
Confidence 33466889999999999999999754 355555432111 114889999999999999999
Q ss_pred hhhcCCcccCCCC---CCCCCccchHHHHHHHHHHhCCE-EEEEeecCCCcE-EEEEEEEecCCCCCCCCCCCCCccCCC
Q 005591 584 LLFTKFAQSRGSS---CQTPRAGLGLAICRRFVNLMGGH-IWLDSEGLDKGS-TVTFLVKLGICNNPGSPIHPVALKGRA 658 (689)
Q Consensus 584 ~if~~f~~~~~~~---~~~~g~GLGL~i~k~iv~~~gG~-I~i~S~~~g~Gt-~~~~~lPl~~~~~~~~~~~~~~~~~~~ 658 (689)
++|.+|+.+.... ....+.|+||++|+.+++.|+|. +++.|. ++.|+ .|++.+++......+..... .
T Consensus 93 ~iF~~f~~~SK~~~~~~s~G~~GLGLsiv~~isq~~~G~~I~V~S~-~~~g~~~~~~~l~id~~kn~g~i~~~------~ 165 (535)
T PRK04184 93 KVFGKLLYGSKFHNLRQSRGQQGIGISAAVLYAQMTTGKPVRVISS-TGGSKKAYYFELKIDTKKNEPIILER------E 165 (535)
T ss_pred HHhhhhhccccccccccCCCCCCcchHHHHHHHHHhcCCcEEEEEe-cCCCceEEEEEEEecccccCCeeccc------c
Confidence 9999986543221 12246899999999999999997 999998 78887 89999988754321111000 0
Q ss_pred CCCCCCCCCCceEEecCchh
Q 005591 659 SHGSADLTGPKPLFRDNDQI 678 (689)
Q Consensus 659 ~~~~~~~~g~~ILlvDDd~~ 678 (689)
........|.+|.|..|+..
T Consensus 166 ~~~~~~~~GT~V~V~l~~~~ 185 (535)
T PRK04184 166 EVDWDRWHGTRVELEIEGDW 185 (535)
T ss_pred ccCCCCCCCEEEEEEECCcC
Confidence 01122247888888766554
No 59
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=99.38 E-value=6.6e-11 Score=130.71 Aligned_cols=181 Identities=18% Similarity=0.186 Sum_probs=118.7
Q ss_pred HHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHH
Q 005591 406 MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLI 485 (689)
Q Consensus 406 ~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~ 485 (689)
-.|.+.|-|.+|..++..-. .+.+..++.++.++.|.... ...+..++..-+.-+.+++
T Consensus 266 ~pHfL~NtL~~I~~~~~~~~------------------~~~~~~~v~~l~~llR~~l~---~~~~~~~l~~E~~~~~kyl 324 (456)
T COG2972 266 NPHFLYNTLETIRMLAEEDD------------------PEEAAKVVKALSKLLRYSLS---NLDNIVTLEIELLLIEKYL 324 (456)
T ss_pred chHHHHhHHHHHHHHHHhcC------------------HHHHHHHHHHHHHHHHHHhh---CCCCeeeHHHHHHHHHHHH
Confidence 48999999999988854421 12222222222222221111 1112466666666677777
Q ss_pred HhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC-----CCCcEEEEEEeecCCCCCCCCCCCcCccCC
Q 005591 486 KPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT-----KEGYVSIIASVAKPESLSDWRPPEFYPVST 560 (689)
Q Consensus 486 ~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~-----~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~ 560 (689)
. +++.+++..++++.+.+.... +-..+..+++.|++||++|+ ++|.|.+.....++
T Consensus 325 ~--iq~~r~~~~le~~~~i~~~~~-~l~~p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~~~---------------- 385 (456)
T COG2972 325 E--IQKLRIGDRLEVPLPIDEELE-PLIDPKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQDD---------------- 385 (456)
T ss_pred H--HHHhccCcceEEEeccCcccc-cccCchHHHhHHHHHHHHHhcccCCCCCEEEEEEEEcCC----------------
Confidence 6 445565555554443332221 23446778999999999998 23566666655422
Q ss_pred CCceEEEEEEEecCCCCCCCChhhhhcCCcccCCCCCCCCC-ccchHHHHHHHHHHhCCE--EEEEeecCCCcEEEEEEE
Q 005591 561 DGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGSSCQTPR-AGLGLAICRRFVNLMGGH--IWLDSEGLDKGSTVTFLV 637 (689)
Q Consensus 561 ~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~~~~~~g-~GLGL~i~k~iv~~~gG~--I~i~S~~~g~Gt~~~~~l 637 (689)
.+.++|+|||+||+++....+.+.. ++ .|+||..++++++.+.|. +.++|. +++||.+++.+
T Consensus 386 ----~i~i~i~Dng~g~~~~~~~~~~~~~----------~~r~giGL~Nv~~rl~~~~g~~~~~i~s~-~~~gt~v~~~~ 450 (456)
T COG2972 386 ----VIQISISDNGPGIDEEKLEGLSTKG----------ENRSGIGLSNVKERLKLYFGEPGLSIDSQ-PGKGTFVQIII 450 (456)
T ss_pred ----EEEEEEeeCCCCCChhHHHHHHhhc----------cCcccccHHHHHHHHHHeeCCcceeEeec-CCCcEEEEEEe
Confidence 4999999999999998766553321 12 499999999999999998 589999 89999999999
Q ss_pred EecC
Q 005591 638 KLGI 641 (689)
Q Consensus 638 Pl~~ 641 (689)
|...
T Consensus 451 ~~~~ 454 (456)
T COG2972 451 PKRE 454 (456)
T ss_pred ehhh
Confidence 9753
No 60
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.28 E-value=1.3e-12 Score=151.72 Aligned_cols=240 Identities=30% Similarity=0.337 Sum_probs=199.5
Q ss_pred HHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHH
Q 005591 402 FRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREV 481 (689)
Q Consensus 402 ~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~ 481 (689)
|...++||+|+|++. +....+.....+.+++.+.......+.....+++++++.++.+.|..++...+|++..+++.+
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 999999999999988 555566667788999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCC-----CCCCC----
Q 005591 482 IKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESL-----SDWRP---- 552 (689)
Q Consensus 482 ~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~-----~~~~~---- 552 (689)
.+.+.+.+..++..+....+...|..+.+|+.++.|++.|++.||+|++..|.+...+...+.... ..|..
T Consensus 302 ~~~~~e~~~~~~~~l~~~~~~~~p~~v~~de~~~~qv~~n~v~naik~t~~~~i~~~~~~~~~~~~~~~~l~~~~~e~~~ 381 (786)
T KOG0519|consen 302 ISLLSELSQAKYAILVLDLSSGVPRNVRGDEARLRQVIANLVSNAIKFTHAGHLEESVIAREELSESNDVLLRAKEEAHM 381 (786)
T ss_pred hhhhHHHhhcCCeEEEEecCCCCcceeeccceeeeeeehhhccceecccccceEEEEEEeehhcchhhHHHHhhhhhhhh
Confidence 999999999999999998888889999999999999999999999999999998888776554321 01100
Q ss_pred --------------C--CcCccC-CCC--ceEEEEEEEecCCCCCCCChhh-hhcCCcccCCCCCC-CCCccchHHHHHH
Q 005591 553 --------------P--EFYPVS-TDG--HFYLRVQVNDSGCGVPPQDIPL-LFTKFAQSRGSSCQ-TPRAGLGLAICRR 611 (689)
Q Consensus 553 --------------~--~~~~~~-~~~--~~~v~i~V~D~G~Gi~~~~~~~-if~~f~~~~~~~~~-~~g~GLGL~i~k~ 611 (689)
+ ..+... +.. -..-.+.+.|+|.||+.+.... +|.+|.+......+ ..|+|+|+.+++.
T Consensus 382 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~~~q~~~~~~~~~~gt~~~~~i~~~ 461 (786)
T KOG0519|consen 382 AGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVMRSSNVFTSLIQADPDITRLYGGTGLGESIVFS 461 (786)
T ss_pred ccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhhhhhhHHHHHhccccccccccCCCcccchhhcc
Confidence 0 000000 000 1123567899999999998877 99999887655544 4599999999999
Q ss_pred HHHHhCCEEEEEeecCCCcEEEEEEEEecCCCC
Q 005591 612 FVNLMGGHIWLDSEGLDKGSTVTFLVKLGICNN 644 (689)
Q Consensus 612 iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~ 644 (689)
+++.++|.+.+.+. ...|++|++.+++....+
T Consensus 462 l~~l~~~~~~~~~~-~~~~~t~~~~~~~~~~~~ 493 (786)
T KOG0519|consen 462 LVELMSGEISDISC-ISLGKTFSFTLDLLTNLP 493 (786)
T ss_pred HHHHHHHHhhhhhh-hccCceeeEEEEeccCCC
Confidence 99999999999998 889999999999977654
No 61
>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=99.19 E-value=1.4e-10 Score=99.36 Aligned_cols=101 Identities=35% Similarity=0.602 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHhhcCC--CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCccc
Q 005591 515 LMQTILNIVGNAVKFTK--EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQS 592 (689)
Q Consensus 515 l~qvl~nLl~NAik~~~--~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~ 592 (689)
+.+++.++++||++|+. .+.+.+.+..... .+.|.|.|+|.|+++...+..|.++...
T Consensus 1 l~~~~~~ll~Na~~~~~~~~~~v~i~~~~~~~--------------------~~~v~i~d~g~g~~~~~~~~~~~~~~~~ 60 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPEGGGRITISVERDGD--------------------HLEIRVEDNGPGIPEEDLERIFERFSDG 60 (103)
T ss_pred CHHHHHHHHHHHHHhCcCCCCeEEEEEEecCC--------------------EEEEEEEeCCCCCCHHHHHHHhhhhhcC
Confidence 35789999999999987 4666666554332 3899999999999999999988876111
Q ss_pred CCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEE
Q 005591 593 RGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLV 637 (689)
Q Consensus 593 ~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~l 637 (689)
.......+.|+||++|+++++.|||++++.+. .+.|+++++.+
T Consensus 61 -~~~~~~~~~g~gl~~~~~~~~~~~g~~~~~~~-~~~g~~~~~~~ 103 (103)
T cd00075 61 -SRSRKGGGTGLGLSIVKKLVELHGGRIEVESE-PGGGTTFTITL 103 (103)
T ss_pred -CCCCCCCccccCHHHHHHHHHHcCCEEEEEeC-CCCcEEEEEEC
Confidence 11112247799999999999999999999987 66899888753
No 62
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=99.15 E-value=4.7e-09 Score=121.94 Aligned_cols=187 Identities=18% Similarity=0.222 Sum_probs=138.7
Q ss_pred HHHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEE--EEeccccc--ccCcc
Q 005591 186 REMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLEL--SYTLNNQI--QIGSS 261 (689)
Q Consensus 186 ~~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~--~~~~~~~~--~~~~~ 261 (689)
+..+.++++....+.+.++++.+.+..+.++++..+++.+.+.+++++|+|+++|+++..+.+ ++...... .....
T Consensus 172 ~~~~~L~~~r~~~~~L~eIs~~l~s~~dl~ell~~I~~~i~~~~~a~~~~I~L~d~~~~~L~~~aa~g~~~~~~~~~~~~ 251 (686)
T PRK15429 172 VDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYLDKQHPAHEQSE 251 (686)
T ss_pred HHHHHHHhhHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCcEEEEEecccChhhccccccc
Confidence 333334555556888999999999999999999999999999999999999999988777665 33332221 12334
Q ss_pred cccCCchhHHHhcccCceEecCCCcchhhhcc---cccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecC
Q 005591 262 VPINLPIVTDVFNSAQAMRLPYNCPLARIRLL---VGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD 338 (689)
Q Consensus 262 ~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~~---~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~ 338 (689)
++...+.++.++.++++..+.+...+...... ......+..+.+.+|| ..++.++||+.+.+.
T Consensus 252 ~~~~~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~~~~~~~~~~s~l~vPL--------------~~~~~v~GvL~l~~~ 317 (686)
T PRK15429 252 VDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPL--------------MSGDTMLGVLKLAQC 317 (686)
T ss_pred CCcccchHHHHHhcCceEEEECccCcccchhhhhhhhcccccceEEEEEeE--------------EECCEEEEEEEEeeC
Confidence 55566889999999999999765544322110 0011123456667774 445568999998777
Q ss_pred CCCccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 339 GGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALD 386 (689)
Q Consensus 339 ~~~~w~~~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~ 386 (689)
+...|++.|++++..+|+++|+|++++..+++.++..+++++.+..+.
T Consensus 318 ~~~~F~~~dl~lL~~iA~~~A~Aie~a~~~~~~~~~~~~L~~e~~~lt 365 (686)
T PRK15429 318 EEKVFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALT 365 (686)
T ss_pred CCCcCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhhHHHHHH
Confidence 788999999999999999999999999999988877777766655433
No 63
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=99.14 E-value=4.1e-10 Score=125.15 Aligned_cols=131 Identities=18% Similarity=0.204 Sum_probs=87.6
Q ss_pred cCCceEEEEeCCCCCce-EEccHHHHHHHHHHHHHHHhhcCCCCc----EEEEEEeecCCCCCCCCCCCcCccCCCCceE
Q 005591 491 CKKLSMTLIMAPELPTY-AVGDEKRLMQTILNIVGNAVKFTKEGY----VSIIASVAKPESLSDWRPPEFYPVSTDGHFY 565 (689)
Q Consensus 491 ~~~i~i~~~~~~~~p~~-v~~D~~~l~qvl~nLl~NAik~~~~g~----i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 565 (689)
.+.+.+...+..+.+.. ...|...|.+++.|||+||++|+..++ |.|.+.. .+ .+
T Consensus 22 ~~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~--~g------------------~~ 81 (795)
T PRK14868 22 QREISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEE--VG------------------DY 81 (795)
T ss_pred ccccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEE--CC------------------CE
Confidence 45666666555554432 223577899999999999999997643 4444433 22 13
Q ss_pred EEEEEEecCCCCCCCChhhhhcCCcccCC-----CCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEec
Q 005591 566 LRVQVNDSGCGVPPQDIPLLFTKFAQSRG-----SSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 566 v~i~V~D~G~Gi~~~~~~~if~~f~~~~~-----~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~ 640 (689)
+.|.|+|||+||++++++++|++|+.+.. ......|.|||++++...+ .+||.+++.|...+.+..+.+.|++.
T Consensus 82 v~I~VeDNG~GIp~EdLp~IFerf~~tSKf~~~~~srG~rG~GLglai~~sql-t~GgpI~I~S~~~~~~~g~~~~L~Id 160 (795)
T PRK14868 82 YRLVVEDNGPGITKEQIPKVFGKLLYGSRFHAREQSRGQQGIGISAAVLYSQL-TSGKPAKITSRTQGSEEAQYFELIID 160 (795)
T ss_pred EEEEEEEcCCCCCHHHHHHHhhhhcccccccccccCCCCCceehHHHHHHHHH-cCCCcEEEEeCCCCCCceeEEEEEEe
Confidence 89999999999999999999999874421 1112336666666666665 36888999998323334444555554
Q ss_pred CC
Q 005591 641 IC 642 (689)
Q Consensus 641 ~~ 642 (689)
..
T Consensus 161 ~g 162 (795)
T PRK14868 161 TD 162 (795)
T ss_pred cC
Confidence 43
No 64
>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=99.13 E-value=6.2e-10 Score=102.00 Aligned_cols=97 Identities=22% Similarity=0.346 Sum_probs=76.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~----~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
+...+.+++.|+++||++|+. ++.+.+.+...++ .+.++|.|+|.|++ ..+++|
T Consensus 36 ~~~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~--------------------~~~i~I~D~G~gi~--~~~~~~ 93 (137)
T TIGR01925 36 ELTDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDH--------------------EVYITVRDEGIGIE--NLEEAR 93 (137)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCC--------------------EEEEEEEEcCCCcC--chhHhh
Confidence 566799999999999999862 3556666655433 28999999999997 367899
Q ss_pred cCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEE
Q 005591 587 TKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLV 637 (689)
Q Consensus 587 ~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~l 637 (689)
+||++.+.. ..+.|+||+++++ +.+++++++. +++||+++++.
T Consensus 94 ~~~~~~~~~---~~~~GlGL~lv~~----~~~~l~~~~~-~~~Gt~v~i~~ 136 (137)
T TIGR01925 94 EPLYTSKPE---LERSGMGFTVMEN----FMDDVSVDSE-KEKGTKIIMKK 136 (137)
T ss_pred CCCcccCCC---CCCCcccHHHHHH----hCCcEEEEEC-CCCCeEEEEEe
Confidence 999875432 2478999998876 4579999998 89999998864
No 65
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=99.10 E-value=4.2e-10 Score=121.51 Aligned_cols=105 Identities=21% Similarity=0.336 Sum_probs=81.7
Q ss_pred EEccHHHHHHHHHHHHHHHhhcCCC-C---cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh
Q 005591 508 AVGDEKRLMQTILNIVGNAVKFTKE-G---YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP 583 (689)
Q Consensus 508 v~~D~~~l~qvl~nLl~NAik~~~~-g---~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~ 583 (689)
..++...+.+++.||++||++++.. | .+.+.+.....+ ++.++|+|||+||++++++
T Consensus 22 f~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~-------------------~~~I~V~DNG~GIp~edl~ 82 (488)
T TIGR01052 22 YSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKD-------------------HYKVTVEDNGPGIPEEYIP 82 (488)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCc-------------------eEEEEEEECCCCCCHHHHH
Confidence 4458889999999999999999864 3 355554432221 3789999999999999999
Q ss_pred hhhcCCcccCCCC---CCCCCccchHHHHHHHHHHhCCE-EEEEeecCCCcEEE
Q 005591 584 LLFTKFAQSRGSS---CQTPRAGLGLAICRRFVNLMGGH-IWLDSEGLDKGSTV 633 (689)
Q Consensus 584 ~if~~f~~~~~~~---~~~~g~GLGL~i~k~iv~~~gG~-I~i~S~~~g~Gt~~ 633 (689)
++|++|+.+.... ....+.|+||++++.+.+.|+|+ +++.|. .+ |..+
T Consensus 83 ~iF~rf~~tsK~~~~~~s~G~~GlGLs~~~~isq~~~G~~i~V~S~-~~-g~~~ 134 (488)
T TIGR01052 83 KVFGKMLAGSKFHRIIQSRGQQGIGISGAVLYSQMTTGKPVKVISS-TG-GEIY 134 (488)
T ss_pred hhhhhccccCccccccccCCCccEehhHHHHHHHHcCCceEEEEEe-cC-CceE
Confidence 9999987654322 12247899999999999999998 999998 44 5555
No 66
>PRK03660 anti-sigma F factor; Provisional
Probab=99.08 E-value=1.5e-09 Score=100.75 Aligned_cols=103 Identities=22% Similarity=0.321 Sum_probs=79.6
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC----CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE----GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~----g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
|...+.+++.|++.||++|+.. +.+.+.....++ .+.++|.|+|.|+++ ..+.|
T Consensus 36 ~~~~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~~--------------------~l~i~I~D~G~g~~~--~~~~~ 93 (146)
T PRK03660 36 ELTEIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEEE--------------------ELEITVRDEGKGIED--IEEAM 93 (146)
T ss_pred HHHhHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECCC--------------------EEEEEEEEccCCCCh--HHHhh
Confidence 5677999999999999998632 456666544332 389999999999976 56788
Q ss_pred cCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCC
Q 005591 587 TKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICN 643 (689)
Q Consensus 587 ~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~ 643 (689)
+++++..... .+.|+||+++++ +.+++++++. ++.||+|++++++....
T Consensus 94 ~~~~~~~~~~---~~~GlGL~i~~~----~~~~i~~~~~-~~~Gt~~~i~~~~~~~~ 142 (146)
T PRK03660 94 QPLYTTKPEL---ERSGMGFTVMES----FMDEVEVESE-PGKGTTVRMKKYLKKSK 142 (146)
T ss_pred CCCcccCCCC---CCccccHHHHHH----hCCeEEEEec-CCCcEEEEEEEEecccc
Confidence 8888754321 367999998774 5678999998 78999999999987543
No 67
>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=99.06 E-value=1.1e-09 Score=86.94 Aligned_cols=65 Identities=37% Similarity=0.656 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHhc-CCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 005591 399 RNDFRAVMNHEMRTLMHAIIALSSLLLE-TDLTPEQ-RVMIETVLKSSNLLTTLVDDVLDLSRLEDG 463 (689)
Q Consensus 399 ~~~~~~~~sHelr~PL~~I~~~~~~L~~-~~~~~e~-~~~l~~i~~~~~~l~~li~~ll~~sr~~~~ 463 (689)
+++|++.++||+||||++|.++++++.+ ...++++ +++++.+..+++++..++++++++++.+.|
T Consensus 2 ~~~~~~~isHelr~PL~~i~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~sr~~~G 68 (68)
T PF00512_consen 2 KGEFLASISHELRNPLTAIRGYLELLERDSDLDPEQLREYLDRIRSAADRLNELINDLLDFSRIESG 68 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCC-HHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred HHHHHHHHhHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 6789999999999999999999999999 7888887 999999999999999999999999998765
No 68
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=99.04 E-value=2.4e-08 Score=115.51 Aligned_cols=160 Identities=15% Similarity=0.123 Sum_probs=132.0
Q ss_pred HHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccc--ccccCcccccCCchhHHHhccc
Q 005591 199 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN--QIQIGSSVPINLPIVTDVFNSA 276 (689)
Q Consensus 199 ~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~v~~v~~~~ 276 (689)
..++++++.+.++.+.+++|+.+++.+.+.++++.|+||+.|+++..+.+....+. .......++.+.+.++.+..++
T Consensus 3 ~~L~eIs~~L~s~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~geGi~G~Va~tg 82 (748)
T PRK11061 3 TRLREIVEKVASAPRLNEALDILVTETCLAMDTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDEGIVGLVGRLA 82 (748)
T ss_pred HHHHHHHHHHhccCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCcchHHHHhccC
Confidence 45789999999999999999999999999999999999999988877665544432 2223345677889999999999
Q ss_pred CceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHH
Q 005591 277 QAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVAD 356 (689)
Q Consensus 277 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~ 356 (689)
+++.+++...++++.........+.++.+.+||. .++..+||+.+.+..++.|++++.+++..+|.
T Consensus 83 ~pV~V~Dv~~dprf~~~~~~~~~~~~S~L~VPL~--------------~~geVIGVL~v~~~~~~~Fs~~d~~lL~~LA~ 148 (748)
T PRK11061 83 EPINLADAQKHPSFKYIPSVKEERFRAFLGVPII--------------YRRQLLGVLVVQQRELRQFDESEESFLVTLAT 148 (748)
T ss_pred ceEEECCcccCcccccCccccCccceEEEEEEEe--------------eCCEEEEEEEEeeCCCCCCCHHHHHHHHHHHH
Confidence 9999999998887753333334556788888864 33457999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q 005591 357 QVAVALSHAAILEDSM 372 (689)
Q Consensus 357 ~~aval~~a~l~~~~~ 372 (689)
++++++.++...+...
T Consensus 149 ~aAiAL~na~l~~~~~ 164 (748)
T PRK11061 149 QLAAILSQSQLTALFG 164 (748)
T ss_pred HHHHHHHHHhhccccc
Confidence 9999999998877663
No 69
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=99.03 E-value=1.5e-09 Score=120.82 Aligned_cols=111 Identities=19% Similarity=0.329 Sum_probs=86.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCC----cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhc
Q 005591 512 EKRLMQTILNIVGNAVKFTKEG----YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFT 587 (689)
Q Consensus 512 ~~~l~qvl~nLl~NAik~~~~g----~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~ 587 (689)
...|.+++.||++||++++..+ .+.+.+.....+ ++.+.|.|||+||++++++++|+
T Consensus 34 ~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~-------------------~~~I~V~DNG~GIp~e~l~~iFe 94 (659)
T PRK14867 34 LRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSD-------------------HYKVAVEDNGPGIPPEFVPKVFG 94 (659)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCc-------------------EEEEEEEeeCeeCCHHHHhhhhc
Confidence 3445699999999999998653 455555432221 38899999999999999999999
Q ss_pred CCcccCCCC---CCCCCccchHHHHHHHHHHh-CCEEEEEeecCCCcEEEEEEEEecCC
Q 005591 588 KFAQSRGSS---CQTPRAGLGLAICRRFVNLM-GGHIWLDSEGLDKGSTVTFLVKLGIC 642 (689)
Q Consensus 588 ~f~~~~~~~---~~~~g~GLGL~i~k~iv~~~-gG~I~i~S~~~g~Gt~~~~~lPl~~~ 642 (689)
+|+.+.... ....+.|+||+++..+.+.+ ||.+++.|. ++.|++|++.+|+...
T Consensus 95 rF~atSK~~~~~qS~G~rG~GLa~a~~vsql~~G~pI~I~S~-~g~G~~f~i~L~i~i~ 152 (659)
T PRK14867 95 KMLAGSKMHRLIQSRGQQGIGAAGVLLFSQITTGKPLKITTS-TGDGKIHEMEIKMSVE 152 (659)
T ss_pred cccccCcccceeccCCCCcccHHHHHHHHHHhcCCcEEEEEE-cCCCEEEEEEEEEEec
Confidence 987654321 12236899999999999876 556999998 8999999999999764
No 70
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=98.93 E-value=1.2e-08 Score=95.90 Aligned_cols=107 Identities=17% Similarity=0.211 Sum_probs=80.3
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC----CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE----GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~----g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
+...+..++.+++.||++|+.+ +.+.+.+...++ .+.+.|+|+|.|++++.....|
T Consensus 39 ~~~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~--------------------~l~i~V~D~G~g~d~~~~~~~~ 98 (161)
T PRK04069 39 DIEDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYED--------------------RLEIVVADNGVSFDYETLKSKL 98 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECC--------------------EEEEEEEECCcCCChHHhcccc
Confidence 4566888999999999999853 456666655433 3999999999999988888888
Q ss_pred cCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCCCC
Q 005591 587 TKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICNNP 645 (689)
Q Consensus 587 ~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~~~ 645 (689)
.|++....... ..+.|+||.+++++++. +.+.+. .|+++++.-.+...+.+
T Consensus 99 ~p~~~~~~~~~-~~~~G~GL~li~~l~d~----v~~~~~---~G~~v~~~k~~~~~~~~ 149 (161)
T PRK04069 99 GPYDISKPIED-LREGGLGLFLIETLMDD----VTVYKD---SGVTVSMTKYINREQVE 149 (161)
T ss_pred CCCCCCCcccc-cCCCceeHHHHHHHHHh----EEEEcC---CCcEEEEEEEcCchhcc
Confidence 88876543321 23669999999999886 666643 58888888777655543
No 71
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=98.87 E-value=3.9e-07 Score=92.47 Aligned_cols=189 Identities=19% Similarity=0.256 Sum_probs=132.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC---c-cccceeeeHHHHHHHHHHHHHhhhhcCCc---eEEEEeCCCCC
Q 005591 433 QRVMIETVLKSSNLLTTLVDDVLDLSRLEDGS---L-ELDNGPFNLQIVLREVIKLIKPVASCKKL---SMTLIMAPELP 505 (689)
Q Consensus 433 ~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~---~-~l~~~~~~L~~ll~~~~~~~~~~~~~~~i---~i~~~~~~~~p 505 (689)
.+..|+....+--.++-++++=+-+....... . -.-...+++.++++++.+..+..|..+=+ ++.++-.....
T Consensus 173 iqyFLdr~y~sRIsiRMLv~qh~~l~~~~kp~~~~~iG~I~~~c~v~~vi~~a~e~ar~lCd~yy~~sPel~i~~~~a~~ 252 (414)
T KOG0787|consen 173 IQYFLDRFYMSRISIRMLVNQHLLLFASGKPDHPRHIGIIDPRCSVKKVIKDASENARFLCDQYYLNSPELIIEGHNALS 252 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhheecCCCCCCcceeeeeCCCCCHHHHHHHHHHHHHHHHHHhccCCCeeEecCccccc
Confidence 35567776666656666777644443311111 1 01123589999999999999988765432 33333333333
Q ss_pred ceEEccHHHHHHHHHHHHHHHhhcC-----CCCc----EEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCC
Q 005591 506 TYAVGDEKRLMQTILNIVGNAVKFT-----KEGY----VSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCG 576 (689)
Q Consensus 506 ~~v~~D~~~l~qvl~nLl~NAik~~-----~~g~----i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~G 576 (689)
..| .-+..|..++.+|+.||++++ ..+. |.|.+...+++ +.|.|+|.|.|
T Consensus 253 ~~v-yvPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeD--------------------l~ikISDrGGG 311 (414)
T KOG0787|consen 253 FTV-YVPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDED--------------------LLIKISDRGGG 311 (414)
T ss_pred Ccc-ccchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcc--------------------eEEEEecCCCC
Confidence 222 268899999999999999865 2333 66666554443 78889999999
Q ss_pred CCCCChhhhhcCCcccCCCCC-----CC--CCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCC
Q 005591 577 VPPQDIPLLFTKFAQSRGSSC-----QT--PRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICN 643 (689)
Q Consensus 577 i~~~~~~~if~~f~~~~~~~~-----~~--~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~ 643 (689)
|+.++.+++|+-.+++.+... .. .|.|.||.|+|.-++..||++.+.|- +|-||-+.+.+......
T Consensus 312 V~~~~~drlf~Y~ySTa~~~~~d~~~~~plaGfG~GLPisrlYa~yf~Gdl~L~Sl-eG~GTD~yI~Lk~ls~~ 384 (414)
T KOG0787|consen 312 VPHRDIDRLFSYMYSTAPAPSSDNNRTAPLAGFGFGLPISRLYARYFGGDLKLQSL-EGIGTDVYIYLKALSME 384 (414)
T ss_pred cChhHHHHHHhhhcccCCCCCCCCCCcCcccccccCCcHHHHHHHHhCCCeeEEee-eccccceEEEeccCCcc
Confidence 999999999998887633211 11 38899999999999999999999998 89999999988765433
No 72
>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=98.79 E-value=2.9e-07 Score=104.02 Aligned_cols=158 Identities=13% Similarity=0.161 Sum_probs=123.8
Q ss_pred hHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEE-EecccccccCcccccCCchhHHHhccc
Q 005591 198 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELS-YTLNNQIQIGSSVPINLPIVTDVFNSA 276 (689)
Q Consensus 198 ~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~v~~v~~~~ 276 (689)
+..++++++.+.+..|++++++.+++.+.+.++++.|+|++.++++.....+ +++.........++.+.+.++.++.++
T Consensus 4 L~~L~~is~~l~~~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~~~l~~aa~g~~~~~~~~~~~~~~~gi~g~v~~~~ 83 (534)
T TIGR01817 4 LAALYEISKILSAPTRLEKTLANVLNVLSNDLGMRHGLITLSDSEGEPLLVAAIGWSEEGFAPIRYRVGEGAIGQIVATG 83 (534)
T ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCCCEEEEEEeCCChhhcccccccCCccHHHHHHhcC
Confidence 4568899999999999999999999999999999999999998877654443 333222222245667788999999999
Q ss_pred CceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCC-CCccccchHHHHHHHH
Q 005591 277 QAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-GRKWRDHELELIDVVA 355 (689)
Q Consensus 277 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~-~~~w~~~e~~ll~~va 355 (689)
+++++.+...+.++.........+..+.+++||. .++..+||+.+.+.. .+.|++.++++++.+|
T Consensus 84 ~pvii~Dv~~d~~~~~~~~~~~~~~~S~l~VPL~--------------~~g~viGvL~v~s~~~~~~ft~~d~~lL~~lA 149 (534)
T TIGR01817 84 NSLVVPDVAAEPLFLDRLSLYDPGPVPFIGVPIK--------------ADSETIGVLAADRDFRSRERLEEEVRFLEMVA 149 (534)
T ss_pred CeEEecccccCchhhhccccccCCcceEEEEEEc--------------CCCEEEEEEEEEeccccccccHHHHHHHHHHH
Confidence 9999999888776643222234456788899953 455679999998875 4668999999999999
Q ss_pred HHHHHHHHHHHHHH
Q 005591 356 DQVAVALSHAAILE 369 (689)
Q Consensus 356 ~~~aval~~a~l~~ 369 (689)
.++++++..+..+.
T Consensus 150 ~~ia~aI~~~~~~~ 163 (534)
T TIGR01817 150 NLIGQTVRLHRLVA 163 (534)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999997666554
No 73
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=98.72 E-value=1.9e-07 Score=83.98 Aligned_cols=129 Identities=22% Similarity=0.344 Sum_probs=99.3
Q ss_pred ChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccCcccccCCchhHHHhcccCceEecCCCcchhhhc
Q 005591 213 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRL 292 (689)
Q Consensus 213 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~ 292 (689)
|++++++.++..+.+.++++.++||+.++++..+...+.++........++...+.+..++.++++...++.....
T Consensus 1 dl~~l~~~i~~~l~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~---- 76 (129)
T PF13492_consen 1 DLDELLERILELLRELLGADRAALFLLDEDGNRLRVVAGWGGDPRLSESLPEDDPLIGRALETGEPVSVPDIDERD---- 76 (129)
T ss_dssp -HHHHHHHHHHHHHHHST-SEEEEEEEETTCECEEEEEEESS-GCGHHCEETTSHHHHHHHHHTS-EEESTCCC-T----
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEEeCCCccccccCCCCccHHHHHHhhCCeEEeccccccc----
Confidence 5789999999999999999999999999998888888777443333336678888999999999887766533321
Q ss_pred ccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHHHHHHHHHH
Q 005591 293 LVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSH 364 (689)
Q Consensus 293 ~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~aval~~ 364 (689)
..+....+.+|+. .++..+|++.+....++.|+..++++++.+|++++++++|
T Consensus 77 -----~~~~~s~~~vPl~--------------~~~~~~Gvl~~~~~~~~~~~~~d~~~l~~~a~~~a~alen 129 (129)
T PF13492_consen 77 -----FLGIRSLLVVPLR--------------SRDRVIGVLCLDSREPEEFSDEDLQLLESLANQLAIALEN 129 (129)
T ss_dssp -----TTTTCEEEEEEEE--------------ETTEEEEEEEEEECTTCG-SHHHHHHHHHHHHHHHHHHH-
T ss_pred -----CCCCCEEEEEEEe--------------ECCEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHhCC
Confidence 1445677888854 3446799999988888899999999999999999999964
No 74
>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=98.66 E-value=2.5e-07 Score=86.77 Aligned_cols=104 Identities=19% Similarity=0.230 Sum_probs=76.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCC----CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhc
Q 005591 512 EKRLMQTILNIVGNAVKFTKE----GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFT 587 (689)
Q Consensus 512 ~~~l~qvl~nLl~NAik~~~~----g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~ 587 (689)
...+..++.+++.||++|+.+ +.+.+.+...++ .+.+.|+|+|.|++++..+..|.
T Consensus 40 ~~~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~--------------------~l~i~V~D~G~gfd~~~~~~~~~ 99 (159)
T TIGR01924 40 IEDLKIAVSEACTNAVKHAYKEGENGEIGISFHIYED--------------------RLEIIVSDQGDSFDMDTFKQSLG 99 (159)
T ss_pred HHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCC--------------------EEEEEEEEcccccCchhhccccC
Confidence 345788999999999999843 567776665433 29999999999999988887777
Q ss_pred CCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEecCCC
Q 005591 588 KFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLGICN 643 (689)
Q Consensus 588 ~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~~~~ 643 (689)
++....... ...+.|+||++++++++ ++.+.+. .|+++++...+...+
T Consensus 100 ~~~~~~~~~-~~~~~G~GL~Li~~L~D----~v~~~~~---~G~~l~l~k~~~~~~ 147 (159)
T TIGR01924 100 PYDGSEPID-DLREGGLGLFLIETLMD----EVEVYED---SGVTVAMTKYLNREQ 147 (159)
T ss_pred CCCCCCCcc-cCCCCccCHHHHHHhcc----EEEEEeC---CCEEEEEEEEEcccc
Confidence 765543332 12356999999999988 5777664 468888877665443
No 75
>PF01590 GAF: GAF domain; InterPro: IPR003018 This domain is present in phytochromes and cGMP-specific phosphodiesterases. cGMP-dependent 3',5'-cyclic phosphodiesterase (3.1.4.17 from EC) catalyses the conversion of guanosine 3',5'-cyclic phosphate to guanosine 5'-phosphate. A phytochrome is a regulatory photoreceptor which exists in 2 forms that are reversibly interconvertible by light, the PR form that absorbs maximally in the red region of the spectrum, and the PFR form that absorbs maximally in the far-red region. This domain is also found in NifA, a transcriptional activator which is required for activation of most Nif operons which are directly involved in nitrogen fixation. NifA interacts with sigma-54.; GO: 0005515 protein binding; PDB: 2Y8H_A 3DBA_B 3CI6_A 3E0Y_B 2W3G_B 2W3D_A 2W3E_A 2Y79_B 2W3H_A 2W3F_A ....
Probab=98.59 E-value=3e-07 Score=85.42 Aligned_cols=136 Identities=19% Similarity=0.234 Sum_probs=105.1
Q ss_pred ChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccccc--ccCcccccCCchhHHHhcccCceEecCCCcchhh
Q 005591 213 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI--QIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 290 (689)
Q Consensus 213 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~ 290 (689)
|++++++.+++.+.+.+++++|+|++.+.++......+...... ......+...+...+++.+++++.+++....+.+
T Consensus 1 Dl~~~l~~~~~~l~~~l~~~~~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~~~~~~ 80 (154)
T PF01590_consen 1 DLDELLQRILRELAELLGADRASIFLLDPDGNRLYSVAGVGLPDPPPGGRRLSMDESICGQVLQSREPIVISDVAADPRF 80 (154)
T ss_dssp SHHHHHHHHHHHHHHHHTESEEEEEEEETTTTEEEEEEEEEGGGSEHHHEEEETTSSHHHHHHHHTSCEEESSSGGSTTS
T ss_pred CHHHHHHHHHHHHHHHHCCCEEEEEEEecCCCeEEEEEeecccccccccccccccccHHHHHHhCCCeEeeccccccccc
Confidence 67899999999999999999999999999988887766655432 2334555567889999999999999988777654
Q ss_pred hccccc---C------------CCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCC-CccccchHHHHHHH
Q 005591 291 RLLVGR---Y------------VPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGG-RKWRDHELELIDVV 354 (689)
Q Consensus 291 ~~~~~~---~------------~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~-~~w~~~e~~ll~~v 354 (689)
...... . ..+..+.+.+|+ ..++..+|++.+.+..+ +.|++.|+++++.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi--------------~~~g~~~G~l~l~~~~~~~~~~~~d~~ll~~~ 146 (154)
T PF01590_consen 81 APQIAAQSALRALSSAERPFLAEYGVRSYLCVPI--------------ISGGRLIGVLSLYRTRPGRPFTEEDLALLESF 146 (154)
T ss_dssp SCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEE--------------EETTEEEEEEEEEEESSSSS--HHHHHHHHHH
T ss_pred cccccccccccccccccccccccccCceeeEeee--------------ecccCcEEEEEEEECCCCCCcCHHHHHHHHHH
Confidence 322111 1 456677788884 44556799999998887 99999999999999
Q ss_pred HHHHHHHH
Q 005591 355 ADQVAVAL 362 (689)
Q Consensus 355 a~~~aval 362 (689)
|.+++++|
T Consensus 147 a~~~a~ai 154 (154)
T PF01590_consen 147 AQQLAIAI 154 (154)
T ss_dssp HHHHHHHH
T ss_pred HHHHHhhC
Confidence 99999886
No 76
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=98.54 E-value=3.4e-06 Score=90.10 Aligned_cols=154 Identities=18% Similarity=0.218 Sum_probs=132.2
Q ss_pred HHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEE--EEecccccccCcccccCCchhHHHhcccCc
Q 005591 201 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLEL--SYTLNNQIQIGSSVPINLPIVTDVFNSAQA 278 (689)
Q Consensus 201 l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~ 278 (689)
++++-+...+.+++.+-|+.++.++......+.|+||+.+.++..+++ +.+++....+...+..+.+.|+.+..+.++
T Consensus 5 Lr~i~E~va~~~~~qe~Ld~iVr~i~~aM~tEVCSvYl~~~d~~~leL~ATeGLnk~av~~~~l~~~eGLVG~v~~~aeP 84 (756)
T COG3605 5 LRRIVEKVASALELQEALDIIVRDIALAMVTEVCSVYLLRADRRVLELMATEGLNKPAVHLVQLAFGEGLVGLVGRSAEP 84 (756)
T ss_pred HHHHHHHHhcccCHHHHHHHHHHHHHHHhhhhheeEEEEcCCCcEEEEEeccccCccccceEEecCCCchhhhhhhccCC
Confidence 667777788899999999999999999999999999999988865444 667776666667788899999999999999
Q ss_pred eEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHHHH
Q 005591 279 MRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQV 358 (689)
Q Consensus 279 ~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~ 358 (689)
+.+.+.+..++|.+.+...+..-++.+.+|+++ ....+||+++.+...|.|.+.|.+++.++|-|+
T Consensus 85 lNLsdAqsHPsF~Y~petgEE~Y~sFLGvPIi~--------------~~r~lGVLVVQqk~~R~y~E~Eve~L~T~A~~l 150 (756)
T COG3605 85 LNLADAQSHPSFKYLPETGEERYHSFLGVPIIR--------------RGRLLGVLVVQQRELRQYDEDEVEFLVTLAMQL 150 (756)
T ss_pred CChhhhhhCCccccccccchHHHHHhhccceee--------------cCceeEEEEEecccccccchHHHHHHHHHHHHH
Confidence 999999999999876666666666777777554 345699999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 005591 359 AVALSHAAIL 368 (689)
Q Consensus 359 aval~~a~l~ 368 (689)
|..++++.+.
T Consensus 151 A~iva~~el~ 160 (756)
T COG3605 151 AEIVAQSQLT 160 (756)
T ss_pred HHHHHhhhhh
Confidence 9999988776
No 77
>PF14501 HATPase_c_5: GHKL domain
Probab=98.48 E-value=2.8e-06 Score=73.07 Aligned_cols=95 Identities=23% Similarity=0.333 Sum_probs=65.0
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~----~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
|+..+..+|.||++||++++. +..+.+.+...++ .+.|.|++.-.+ +. +.++
T Consensus 2 ~~~dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~~--------------------~~~i~i~N~~~~---~~-~~~~ 57 (100)
T PF14501_consen 2 DDLDLCRILGNLLDNAIEACKKYEDKRFISISIREENG--------------------FLVIIIENSCEK---EI-EKLE 57 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecCC--------------------EEEEEEEECCCC---cc-cccc
Confidence 556788999999999999874 3345555554433 388999888544 11 2211
Q ss_pred cCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEE
Q 005591 587 TKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 587 ~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
+. .....+.|+||.+++++++.++|++.++.+ +.-.++++.||
T Consensus 58 ----~~---~~~~~~~G~GL~~v~~i~~~y~g~~~~~~~--~~~f~~~i~ip 100 (100)
T PF14501_consen 58 ----SS---SSKKKGHGIGLKNVKKILEKYNGSLSIESE--DGIFTVKIVIP 100 (100)
T ss_pred ----cc---ccCCCCCCcCHHHHHHHHHHCCCEEEEEEE--CCEEEEEEEEC
Confidence 11 122357899999999999999999999887 34445555554
No 78
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=98.42 E-value=1.2e-05 Score=90.32 Aligned_cols=165 Identities=16% Similarity=0.184 Sum_probs=119.0
Q ss_pred HHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccCcccccCC-chhHHHhcccC
Q 005591 199 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINL-PIVTDVFNSAQ 277 (689)
Q Consensus 199 ~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~v~~v~~~~~ 277 (689)
..++++++.|.+++|.+++|+.+++.+.+.++++.|+|.+++.+......+++..... .....+.++ |.+..++.++.
T Consensus 4 ~~l~eis~~L~~s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~~l~~~as~gl~~~~-~~~~~~~geGP~l~av~~~g~ 82 (509)
T PRK05022 4 DALLPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGDQLVPLAIDGLSPDV-LGRRFALEEHPRLEAILRAGD 82 (509)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHcCCCEEEEEecCCCcEEEEEEcCCChHh-hCCccCCCcchHHHHHHhcCC
Confidence 3588999999999999999999999999999999999998875433333333332222 222444444 46788888788
Q ss_pred ceEecCCCcchhh-hcc-cc-cCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHH
Q 005591 278 AMRLPYNCPLARI-RLL-VG-RYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVV 354 (689)
Q Consensus 278 ~~~l~~~~~~~~~-~~~-~~-~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~v 354 (689)
++.+++....+.+ ... .. ....+..+.+++||. .++..+|++.++...+..|++.+.+++..+
T Consensus 83 ~v~v~~~~~~p~~~~~~~~~~~~~~gi~S~l~vPL~--------------~~~~~~GvL~l~~~~~~~f~~~~~~~l~~~ 148 (509)
T PRK05022 83 PVRFPADSELPDPYDGLIPGVQESLPVHDCMGLPLF--------------VDGRLIGALTLDALDPGQFDAFSDEELRAL 148 (509)
T ss_pred eEEEecCCCCCcccccccccccccCCcceEEEEEEE--------------ECCEEEEEEEEeeCCCCcCCHHHHHHHHHH
Confidence 8888866544332 101 11 122345678888853 345579999999988889999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 355 ADQVAVALSHAAILEDSMRARNQL 378 (689)
Q Consensus 355 a~~~aval~~a~l~~~~~~~~~~L 378 (689)
|.+++.|+.++..+++.++..+++
T Consensus 149 a~~~a~Al~~a~~~~~l~~~~~~~ 172 (509)
T PRK05022 149 AALAAATLRNALLIEQLESQAELP 172 (509)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999998777665444333
No 79
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.41 E-value=8.4e-06 Score=94.98 Aligned_cols=171 Identities=11% Similarity=0.064 Sum_probs=125.2
Q ss_pred hHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccccc---ccCcccccCCchhHHHhc
Q 005591 198 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI---QIGSSVPINLPIVTDVFN 274 (689)
Q Consensus 198 ~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~v~~v~~ 274 (689)
...+.++++.+.+..|+++.+..+...+.+.+.++++.|.++|+....+.+ +...... ..........+.++.+++
T Consensus 8 ~~~l~~is~~~~~~~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~~~~~~-~~~~~~~~~~~~~~~~~~~~g~~g~vl~ 86 (686)
T PRK15429 8 QQGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASY-YASREKGTPVKYEDETVLAHGPVRRILS 86 (686)
T ss_pred HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcccceEEEEEEcCCCCeeee-eeccccccchhccchhhhccCcceEEee
Confidence 345888999999999999999999999999999999999999987766654 3322211 111233356777888999
Q ss_pred ccCceEecCCCcchhhhcc-cccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHH
Q 005591 275 SAQAMRLPYNCPLARIRLL-VGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDV 353 (689)
Q Consensus 275 ~~~~~~l~~~~~~~~~~~~-~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~ 353 (689)
++++..+++..-..++... .....++-.....+| +..++.++|++++....++.|+++|.+++..
T Consensus 87 ~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~lgvP--------------l~~~~~v~G~l~l~~~~~~~Ft~~d~~ll~~ 152 (686)
T PRK15429 87 RPDTLHCSYEEFCETWPQLAAGGLYPKFGHYCLMP--------------LAAEGHIFGGCEFIRYDDRPWSEKEFNRLQT 152 (686)
T ss_pred cCceEEEchHHhhhccHHHhhcccccCccceEEec--------------eeeCCeeEEEEEEEEcCCCCCCHHHHHHHHH
Confidence 9999988764433322211 112223333344466 4446668999999887789999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 354 VADQVAVALSHAAILEDSMRARNQLMEQNV 383 (689)
Q Consensus 354 va~~~aval~~a~l~~~~~~~~~~L~e~~~ 383 (689)
+|.++++|+++++.+++.++..+.|+.+..
T Consensus 153 la~~a~~aie~~~~~e~~~~~~~~L~~~r~ 182 (686)
T PRK15429 153 FTQIVSVVTEQIQSRVVNNVDYELLCRERD 182 (686)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence 999999999999999888877777644433
No 80
>smart00065 GAF Domain present in phytochromes and cGMP-specific phosphodiesterases. Mutations within these domains in PDE6B result in autosomal recessive inheritance of retinitis pigmentosa.
Probab=98.29 E-value=1.7e-05 Score=71.57 Aligned_cols=142 Identities=23% Similarity=0.262 Sum_probs=97.8
Q ss_pred ChhhHHHHHHHHHHhhcCCCeEEEEcccCC-CCeEEEEEecccc-cccCcccccCCchhHHHhcccCceEecCCCcchhh
Q 005591 213 DRHTILKTTLVELGRTLGLEECALWMPSRT-GLNLELSYTLNNQ-IQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 290 (689)
Q Consensus 213 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~ 290 (689)
|.++++..++..+.+.+++++|+|++.+++ ..........+.. .......+...+....++.++++..+++.......
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDRGELVLVAADGLTLPLLGLRYPLGEGLAGRVAETGRPLNIPDVEADPVF 80 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCCCcEEEEEecCCCcccceEEecCCCChHHHHHHcCCeEEeechhhCCcc
Confidence 457889999999999999999999999973 3343333322221 12233456666888899999988887765543311
Q ss_pred hcccccCC-CCCceEEeeccccccCccccCCCCcCcccceEEEEEeecC-CCCccccchHHHHHHHHHHHHHHHHHHHHH
Q 005591 291 RLLVGRYV-PPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GGRKWRDHELELIDVVADQVAVALSHAAIL 368 (689)
Q Consensus 291 ~~~~~~~~-~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~-~~~~w~~~e~~ll~~va~~~aval~~a~l~ 368 (689)
. ...... .+..+.+.+|+. .++..+|++.+... .++.|+.+++++++.++++++.++++....
T Consensus 81 ~-~~~~~~~~~~~s~~~~Pl~--------------~~~~~~G~l~~~~~~~~~~~~~~~~~~l~~~~~~i~~~l~~~~~~ 145 (149)
T smart00065 81 A-LDLLGRYQGVRSFLAVPLV--------------ADGELVGVLALHNKDSPRPFTEEDEELLQALANQLAIALANAQLY 145 (149)
T ss_pred c-cccccceeceeeEEEeeee--------------ecCEEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 011111 124566666743 34456888888876 789999999999999999999999877655
Q ss_pred H
Q 005591 369 E 369 (689)
Q Consensus 369 ~ 369 (689)
+
T Consensus 146 ~ 146 (149)
T smart00065 146 E 146 (149)
T ss_pred H
Confidence 4
No 81
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=98.25 E-value=6.4e-06 Score=64.03 Aligned_cols=63 Identities=44% Similarity=0.682 Sum_probs=56.0
Q ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 005591 399 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLE 461 (689)
Q Consensus 399 ~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~ 461 (689)
+.++...++||+||||+.|.++++.+.+...+++....++.+.+.++++..++++++++++.+
T Consensus 2 ~~~~~~~i~Hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~ 64 (66)
T smart00388 2 KREFLANLSHELRTPLTAIRGYLELLEDTELSEEQREYLETILRSAERLLRLINDLLDLSRIE 64 (66)
T ss_pred HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 457889999999999999999999988766666678899999999999999999999998865
No 82
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=98.20 E-value=1e-05 Score=72.61 Aligned_cols=93 Identities=27% Similarity=0.319 Sum_probs=65.4
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC----CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE----GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~----g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
+...+..++.+++.||++|+.. +.+.+.+....+ .+.+.|.|+|.|+++.....-.
T Consensus 28 ~~~~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~--------------------~l~i~v~D~G~~~d~~~~~~~~ 87 (125)
T PF13581_consen 28 DRDDLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPD--------------------RLRISVRDNGPGFDPEQLPQPD 87 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCC--------------------EEEEEEEECCCCCChhhccCcc
Confidence 4457888999999999999975 345555444433 2999999999998887543221
Q ss_pred cCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEE
Q 005591 587 TKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFL 636 (689)
Q Consensus 587 ~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~ 636 (689)
..-. ......|+||.+++++++.. .+ + .+.|++++++
T Consensus 88 ~~~~------~~~~~~G~Gl~li~~l~D~~----~~-~--~~~gn~v~l~ 124 (125)
T PF13581_consen 88 PWEP------DSLREGGRGLFLIRSLMDEV----DY-R--EDGGNTVTLR 124 (125)
T ss_pred cccC------CCCCCCCcCHHHHHHHHcEE----EE-E--CCCeEEEEEE
Confidence 1000 12236699999999999875 45 3 3679988875
No 83
>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=98.19 E-value=1.5e-05 Score=73.26 Aligned_cols=134 Identities=19% Similarity=0.238 Sum_probs=88.9
Q ss_pred ChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccCcc--cccCCc---------hhHHHhcccCceEe
Q 005591 213 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSS--VPINLP---------IVTDVFNSAQAMRL 281 (689)
Q Consensus 213 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~---------~v~~v~~~~~~~~l 281 (689)
+.+++++.+++.+.+.++++.++||+.|+++......+........... .+...+ ....++.+++++.+
T Consensus 3 ~~~ell~~~~~~~~~~~~~~~~~i~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (148)
T PF13185_consen 3 DLEELLQQILDALLELTGADAGAIYLYDPDGQLLPVAASGDPSEFLKEEIPLPPPPDEPPAYAAVGLWEGVLRTGEPIII 82 (148)
T ss_dssp HHHHHHHHHHHHHHHHHS-SEEEEEEEETTSEEEEEEEESSSCTSTCCECCCCCCCESCHHHCCEETTSHHHHHTS-EEE
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEECCCcEEEEEEeCCchhhhhhhcccCcccccccchhhhhHHHHHHhcCceEEE
Confidence 6788999999999999999999999998887555555544332211111 222211 11223888899888
Q ss_pred c-CCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHHHHHH
Q 005591 282 P-YNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAV 360 (689)
Q Consensus 282 ~-~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~av 360 (689)
+ +..... ........+..+.+.+||. .++..+|++.+.+..++.|+++++++++.+|+++++
T Consensus 83 ~~~~~~~~---~~~~~~~~~~~s~l~vPl~--------------~~~~~~Gvl~l~~~~~~~f~~~~~~~l~~la~~~a~ 145 (148)
T PF13185_consen 83 NDDDSSFP---PWELARHPGIRSILCVPLR--------------SGGEVIGVLSLYSKEPNAFSEEDLELLEALADQIAI 145 (148)
T ss_dssp SCCCGGGS---TTHHHCCTT-SEEEEEEEE--------------ETTEEEEEEEEEESSTT---HHHHHHHHHHHHHHHH
T ss_pred eCcccccc---chhhhccccCCEEEEEEEe--------------ECCEEEEEEEEeeCCCCCcCHHHHHHHHHHHHHHHH
Confidence 8 221111 1234455677888899964 344679999999988899999999999999999999
Q ss_pred HHH
Q 005591 361 ALS 363 (689)
Q Consensus 361 al~ 363 (689)
||+
T Consensus 146 aie 148 (148)
T PF13185_consen 146 AIE 148 (148)
T ss_dssp HHH
T ss_pred HhC
Confidence 984
No 84
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=98.10 E-value=1.6e-05 Score=82.91 Aligned_cols=115 Identities=20% Similarity=0.352 Sum_probs=84.9
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC----cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKEG----YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~g----~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
-...|.+++.+|++|+++++... .|.+.+...+.+ ++++.|.|||+|||++.++++|
T Consensus 33 p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d-------------------~y~v~veDNGpGIP~e~IPkvF 93 (538)
T COG1389 33 PIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKD-------------------HYKVIVEDNGPGIPEEQIPKVF 93 (538)
T ss_pred chhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCc-------------------eEEEEEecCCCCCChhHhHHHH
Confidence 34579999999999999998753 345555444322 5899999999999999999999
Q ss_pred cCCcccCCC-CC--CCCCccchHHHHHHHHHHhCCE-EEEEeecCCCcEEEEEEEEecCCCC
Q 005591 587 TKFAQSRGS-SC--QTPRAGLGLAICRRFVNLMGGH-IWLDSEGLDKGSTVTFLVKLGICNN 644 (689)
Q Consensus 587 ~~f~~~~~~-~~--~~~g~GLGL~i~k~iv~~~gG~-I~i~S~~~g~Gt~~~~~lPl~~~~~ 644 (689)
-.++-+... .. ...-.|+|.+.|--..++.-|+ +.|.|...+.++.+.+.+.+.....
T Consensus 94 Gk~LygSKfh~~~QsRGqqGiGis~avLysQmTtGkPv~V~s~T~~s~~~~~~~l~id~~kN 155 (538)
T COG1389 94 GKMLYGSKFHRNIQSRGQQGIGISAAVLYSQMTTGKPVRVISSTGDSGTAYEYELKIDVQKN 155 (538)
T ss_pred HHHhccchhhhhhhccccccccHHHHHHHHHhcCCCceEEEecCCCCcceEEEEEEecCCCC
Confidence 655433221 11 1124599999999999999887 7888774556888888888876554
No 85
>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=97.89 E-value=7.9e-05 Score=78.16 Aligned_cols=97 Identities=19% Similarity=0.248 Sum_probs=66.3
Q ss_pred HHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCccc
Q 005591 513 KRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQS 592 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~ 592 (689)
..+.+++.||+.||+++.. ..|.+.+.. ++ ...|+|.|||.||++++++++|++|+++
T Consensus 21 ~~~~~~l~eLi~Na~dA~a-~~I~i~~~~--~~-------------------~~~i~V~DnG~Gi~~~~l~~~~~~~~ts 78 (312)
T TIGR00585 21 ERPASVVKELVENSLDAGA-TRIDVEIEE--GG-------------------LKLIEVSDNGSGIDKEDLPLACERHATS 78 (312)
T ss_pred hhHHHHHHHHHHHHHHCCC-CEEEEEEEe--CC-------------------EEEEEEEecCCCCCHHHHHHHhhCCCcC
Confidence 4578999999999999754 556665532 22 2569999999999999999999999997
Q ss_pred CCCCC------C-CCCccchHHHHHHHHHHhCCEEEEEeec-CCCcEEEEEE
Q 005591 593 RGSSC------Q-TPRAGLGLAICRRFVNLMGGHIWLDSEG-LDKGSTVTFL 636 (689)
Q Consensus 593 ~~~~~------~-~~g~GLGL~i~k~iv~~~gG~I~i~S~~-~g~Gt~~~~~ 636 (689)
+.... . .+-.|.||+....+ +++++.|.. .+.+..+.+.
T Consensus 79 k~~~~~~~~~~~~~G~rG~al~si~~~-----s~~~i~S~~~~~~~~~~~~~ 125 (312)
T TIGR00585 79 KIQSFEDLERIETLGFRGEALASISSV-----SRLTITTKTSAADGLAWQAL 125 (312)
T ss_pred CCCChhHhhcccccCccchHHHHHHhh-----CcEEEEEeecCCCcceEEEE
Confidence 65431 0 11236677655433 368888862 1344444443
No 86
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=97.84 E-value=0.0002 Score=65.75 Aligned_cols=89 Identities=22% Similarity=0.341 Sum_probs=65.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC-----CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE-----GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLL 585 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~-----g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~i 585 (689)
+-.++.-++.+++.|+++|+.+ |.|.+.+....+. +.+.|.|.|+|+ +..+..
T Consensus 37 ~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~--------------------~~i~i~D~G~~~--~~~~~~ 94 (146)
T COG2172 37 DIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGK--------------------LEIRIWDQGPGI--EDLEES 94 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCe--------------------EEEEEEeCCCCC--CCHHHh
Confidence 6778999999999999999865 7788877766553 999999999765 445666
Q ss_pred hcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCC
Q 005591 586 FTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDK 629 (689)
Q Consensus 586 f~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~ 629 (689)
+.|.+...+.. ...|+||.++++++. ++.+++. .+.
T Consensus 95 ~~~~~~~~~~~---~~~G~Gl~l~~~~~D----~~~~~~~-~~~ 130 (146)
T COG2172 95 LGPGDTTAEGL---QEGGLGLFLAKRLMD----EFSYERS-EDG 130 (146)
T ss_pred cCCCCCCCccc---ccccccHHHHhhhhe----eEEEEec-cCC
Confidence 66664433322 234999999998774 5888866 444
No 87
>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=97.83 E-value=0.00011 Score=56.38 Aligned_cols=62 Identities=40% Similarity=0.539 Sum_probs=53.0
Q ss_pred HHHHHHHHHHHHhhchHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005591 398 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDL-TPEQRVMIETVLKSSNLLTTLVDDVLDLSR 459 (689)
Q Consensus 398 ~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~-~~e~~~~l~~i~~~~~~l~~li~~ll~~sr 459 (689)
.+..+...++||+++|++.+.+.++.+.+... .++....++.+.+.++++..++++++++++
T Consensus 3 ~~~~~~~~~~hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 65 (65)
T cd00082 3 AKGEFLANVSHELRTPLTAIRGALELLEEELLDDEEQREYLERIREEAERLLRLINDLLDLSR 65 (65)
T ss_pred HHHHHHHHHhHHhcchHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 35678889999999999999999999886533 566678889999999999999999998764
No 88
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=97.62 E-value=0.0018 Score=69.26 Aligned_cols=176 Identities=19% Similarity=0.202 Sum_probs=129.6
Q ss_pred hHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccccc--ccCcccccCCchhHHHhcc
Q 005591 198 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI--QIGSSVPINLPIVTDVFNS 275 (689)
Q Consensus 198 ~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~v~~v~~~ 275 (689)
.+.+.+++..+....+.++.+..+...+...++++.+++..++.++.....+.+...+. ..........+.+.+++++
T Consensus 33 ~~~l~el~~~l~~~~~~e~ll~~v~~~l~~~~~~~~~~ll~~d~~~l~~~~~~gl~~~~~~~~~~~~~~~~~~l~~i~~~ 112 (550)
T COG3604 33 IRILVELTNALLSPLRLERLLAEVAKELHSLFGCDASALLRLDSKNLIPLATDGLSKDHLGREQRFVVEGHPLLEQILKA 112 (550)
T ss_pred hHHHHHhhhhhcCchhHHHHHHHHHHHHHHHhcCCeeEEEEecccccchhhhhcccccccccccccccCcchHHHHHHhC
Confidence 34678888888888899999999999999999999999999988774444444444331 1123455678899999999
Q ss_pred cCceEe-cCCCcchhhh--cccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHH
Q 005591 276 AQAMRL-PYNCPLARIR--LLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELID 352 (689)
Q Consensus 276 ~~~~~l-~~~~~~~~~~--~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~ 352 (689)
+.++++ +.++..+.-. ........+..+.+.+| +..++..+|++.+....+..++..-.+.+.
T Consensus 113 ~~p~~~~~~d~~~~~~~~~l~~~~~~~~~~a~i~~P--------------L~~~~~~~G~Ltld~~~~~~f~~~~~~~lr 178 (550)
T COG3604 113 GRPLVFHPADSLFPDPYDGLLPDTEGNKKHACIGVP--------------LKSGDKLIGALTLDHTEPDQFDEDLDEELR 178 (550)
T ss_pred CCcEEEecCCcccCCcccccccCccCCcceeEEeee--------------eeeCCeeeeeEEeeeecccccchhHHHHHH
Confidence 999888 4433332111 11122222357777777 556677899999999888889888888999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 353 VVADQVAVALSHAAILEDSMRARNQLMEQNVALDS 387 (689)
Q Consensus 353 ~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~ 387 (689)
.++..++.+..++.+.++....++++.+++.+++.
T Consensus 179 ~La~~a~la~~~~~l~~~l~~~~~~l~~e~~~~~~ 213 (550)
T COG3604 179 FLAALAALAVANALLHRELSSLKERLEEENLALEE 213 (550)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 99999999999999988888777777766555543
No 89
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=97.29 E-value=0.00034 Score=65.21 Aligned_cols=158 Identities=22% Similarity=0.287 Sum_probs=101.8
Q ss_pred HHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCC--eEEEEEeccc---c-cccCccc-ccCCchhHH
Q 005591 199 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGL--NLELSYTLNN---Q-IQIGSSV-PINLPIVTD 271 (689)
Q Consensus 199 ~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~--~~~~~~~~~~---~-~~~~~~~-~~~~~~v~~ 271 (689)
..+..+++.+....+.+++++.+++.+.+.++.+.+.||..+.+.. ...+.+.... . ....... +........
T Consensus 4 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (175)
T COG2203 4 ALLNELAAKIAQDLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEAAEAGLEQLIDELFGLVILPACLIGI 83 (175)
T ss_pred HHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHHhcchhhhhHHHHhcccCcchhhhhh
Confidence 3567788889999999999999999999999999999999887753 1111110000 0 0000011 111223445
Q ss_pred HhcccCceEecCCCcchhhhcccccCCCC-CceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCC-ccccchHH
Q 005591 272 VFNSAQAMRLPYNCPLARIRLLVGRYVPP-DIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGR-KWRDHELE 349 (689)
Q Consensus 272 v~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~-~w~~~e~~ 349 (689)
+...++...+.+................+ -.+.+.+|+. .++..+|++.+...... .|++++++
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~vPl~--------------~~~~~~G~l~~~~~~~~~~~~~~e~~ 149 (175)
T COG2203 84 ALREGRPVVVEDILQDPRFRDNPLVLLEPPIRSYLGVPLI--------------AQGELLGLLCVHDSEPRRQWSEEELE 149 (175)
T ss_pred hhcCCceEEeeccccCcccccCHHHHHHHHHHHheeeeee--------------ECCEeeEEeeeeccCCCCCCCHHHHH
Confidence 55666677777666555443211111111 3455566643 33356788888777666 69999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 005591 350 LIDVVADQVAVALSHAAILED 370 (689)
Q Consensus 350 ll~~va~~~aval~~a~l~~~ 370 (689)
+++.+|.++++++.++..+++
T Consensus 150 ll~~la~~~a~ai~~~~~~~~ 170 (175)
T COG2203 150 LLEELAEQVAIAIERARLYEE 170 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999988877765
No 90
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=97.27 E-value=0.0012 Score=75.69 Aligned_cols=86 Identities=23% Similarity=0.339 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCccc
Q 005591 513 KRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQS 592 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~ 592 (689)
.++..++.+||+||+++. +..|.|.+. +++ ...|+|.|||.||++++++.+|.++.++
T Consensus 21 ~~~~svvkElveNsiDAg-at~I~v~i~--~~g-------------------~~~i~V~DnG~Gi~~~~~~~~~~~~~ts 78 (617)
T PRK00095 21 ERPASVVKELVENALDAG-ATRIDIEIE--EGG-------------------LKLIRVRDNGCGISKEDLALALARHATS 78 (617)
T ss_pred cCHHHHHHHHHHHHHhCC-CCEEEEEEE--eCC-------------------eEEEEEEEcCCCCCHHHHHHHhhccCCC
Confidence 357889999999999965 566666663 222 2689999999999999999999988877
Q ss_pred CCCCC------CCCC-ccchHHHHHHHHHHhCCEEEEEee
Q 005591 593 RGSSC------QTPR-AGLGLAICRRFVNLMGGHIWLDSE 625 (689)
Q Consensus 593 ~~~~~------~~~g-~GLGL~i~k~iv~~~gG~I~i~S~ 625 (689)
+-... .+.| .|-||+.+..+ +++++.|.
T Consensus 79 Ki~~~~dl~~~~t~GfrGeAL~sI~~v-----s~l~i~s~ 113 (617)
T PRK00095 79 KIASLDDLEAIRTLGFRGEALPSIASV-----SRLTLTSR 113 (617)
T ss_pred CCCChhHhhccccCCcchhHHHhhhhc-----eEEEEEEe
Confidence 64331 1112 35666655543 46788876
No 91
>PRK13558 bacterio-opsin activator; Provisional
Probab=97.26 E-value=0.01 Score=69.36 Aligned_cols=144 Identities=14% Similarity=0.072 Sum_probs=96.5
Q ss_pred HHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccc-ccccCccccc-CCchhHHHhcc--
Q 005591 200 HVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN-QIQIGSSVPI-NLPIVTDVFNS-- 275 (689)
Q Consensus 200 ~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~v~~v~~~-- 275 (689)
.+..+++.+....+..++++.+++.+.+..+.+.++|+.+++++..+......+. .........+ .......++.+
T Consensus 289 ll~~v~~~l~~~~~~~~l~~~v~~~l~~~~~~~~awi~~~d~~~~~l~~~~~~g~~~~~~~~~~~~~~~~p~~~a~~~~~ 368 (665)
T PRK13558 289 LVNDVTSALVRATDREEIEAAVCDRVGAGGEYDGAWIGEYDPTSGTITVAEAAGGCDGADGDVLDLAAAGPAAAALQSVV 368 (665)
T ss_pred hHHHHHHHHHhcCCHHHHHHHHHHHHHhccCcceEEEeeecCCCCeEeeeecccCCcccccccccccccCchHHHHHhcc
Confidence 4567788888889999999999999999999999999999887776644332221 1111111111 12233444444
Q ss_pred cCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHH
Q 005591 276 AQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVA 355 (689)
Q Consensus 276 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va 355 (689)
++...+.+........ .....+.+.+| |..++..+|++.++...++.|+.+++++++.+|
T Consensus 369 ~~~~~~~~~~~~~~~~------~~~~~s~~~vP--------------L~~~g~~~GvL~v~~~~~~~f~~~e~~ll~~la 428 (665)
T PRK13558 369 AETEAVESTDVDGVSG------TVDGSAVAAVP--------------LVYRETTYGVLVVYTAEPDEIDDRERVVLEALG 428 (665)
T ss_pred CceEEecCCCcccccc------ccCCceEEEEe--------------EEECCEEEEEEEEeeCCCCCCCHHHHHHHHHHH
Confidence 4444443322111100 00111666777 455667899999999999999999999999999
Q ss_pred HHHHHHHH
Q 005591 356 DQVAVALS 363 (689)
Q Consensus 356 ~~~aval~ 363 (689)
.+++.+|.
T Consensus 429 ~~ia~aI~ 436 (665)
T PRK13558 429 RAVGAAIN 436 (665)
T ss_pred HHHHHHHH
Confidence 99999994
No 92
>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=97.13 E-value=0.00012 Score=66.74 Aligned_cols=100 Identities=20% Similarity=0.229 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccCCC
Q 005591 516 MQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSRGS 595 (689)
Q Consensus 516 ~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~~~ 595 (689)
..++.+||.||+++. ...|.|.+...+.+. -.|.|.|||.||+.+++...|....+.+..
T Consensus 4 ~~al~ElI~Ns~DA~-a~~I~I~i~~~~~~~-------------------~~i~I~DnG~Gm~~~~l~~~~~~g~s~k~~ 63 (137)
T PF13589_consen 4 EDALRELIDNSIDAG-ATNIKISIDEDKKGE-------------------RYIVIEDNGEGMSREDLESFFRIGRSSKKS 63 (137)
T ss_dssp THHHHHHHHHHHHHH-HHHEEEEEEEETTTT-------------------TEEEEEESSS---HHHHHHHTTCHHTHHHH
T ss_pred HHHHHHHHHHHHHcc-CCEEEEEEEcCCCCC-------------------cEEEEEECCcCCCHHHHHHhccccCCCCCc
Confidence 468899999999965 344777776654221 479999999999999999987766654431
Q ss_pred ---CCCCCCccch--HHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEEec
Q 005591 596 ---SCQTPRAGLG--LAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVKLG 640 (689)
Q Consensus 596 ---~~~~~g~GLG--L~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lPl~ 640 (689)
.......|+| +++. .++.++.|.|...+....+++..+.-
T Consensus 64 ~~~~~~~G~~G~G~k~A~~-----~~~~~~~v~S~~~~~~~~~~~~~~~~ 108 (137)
T PF13589_consen 64 EKDRQSIGRFGIGLKLAIF-----SLGDRVEVISKTNGESFTYTIDYDWI 108 (137)
T ss_dssp HHHGGGGGGGTSGCGGGGG-----GTEEEEEEEEESTTSSSEEEEEEEEE
T ss_pred hhhhhcCCCcceEHHHHHH-----HhcCEEEEEEEECCCCcEEEEEEecc
Confidence 1111234666 3332 46788999998566667777777653
No 93
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=95.79 E-value=0.0082 Score=68.65 Aligned_cols=60 Identities=23% Similarity=0.342 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccC
Q 005591 514 RLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSR 593 (689)
Q Consensus 514 ~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~ 593 (689)
+..-|+.+||+||+++.. ..|.+..++++. -.|.|+|||+||++++++..+.++.++|
T Consensus 23 rPaSVVKELVENSlDAGA---t~I~I~ve~gG~-------------------~~I~V~DNG~Gi~~~Dl~la~~rHaTSK 80 (638)
T COG0323 23 RPASVVKELVENSLDAGA---TRIDIEVEGGGL-------------------KLIRVRDNGSGIDKEDLPLALLRHATSK 80 (638)
T ss_pred cHHHHHHHHHhcccccCC---CEEEEEEccCCc-------------------cEEEEEECCCCCCHHHHHHHHhhhcccc
Confidence 567799999999998654 445555555541 3599999999999999999999999876
Q ss_pred CC
Q 005591 594 GS 595 (689)
Q Consensus 594 ~~ 595 (689)
-.
T Consensus 81 I~ 82 (638)
T COG0323 81 IA 82 (638)
T ss_pred CC
Confidence 54
No 94
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=95.71 E-value=0.022 Score=65.29 Aligned_cols=83 Identities=22% Similarity=0.321 Sum_probs=54.4
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhh-----
Q 005591 511 DEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPL----- 584 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~----- 584 (689)
+...+.+++.++|.||++.+..| .-.|.+....++ .|+|.|||+|||.+..+.
T Consensus 34 ~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg---------------------~I~V~DnGrGIP~~~~~~~~~~~ 92 (631)
T PRK05559 34 DTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADG---------------------SVSVRDNGRGIPVGIHPEEGKSG 92 (631)
T ss_pred CCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCC---------------------cEEEEEcCCCCCcccccccCCcc
Confidence 45679999999999999975433 233333333222 588999999999998887
Q ss_pred ---hhcCCcccCCCCC----CCCC-ccchHHHHHHHHH
Q 005591 585 ---LFTKFAQSRGSSC----QTPR-AGLGLAICRRFVN 614 (689)
Q Consensus 585 ---if~~f~~~~~~~~----~~~g-~GLGL~i~k~iv~ 614 (689)
+|.....+..-.. ...| .|.|++.+..+-+
T Consensus 93 ~E~v~t~lhagsKf~~~~yk~SgGl~GvGls~vNalS~ 130 (631)
T PRK05559 93 VEVILTKLHAGGKFSNKAYKFSGGLHGVGVSVVNALSS 130 (631)
T ss_pred hheeeeeccccCccCCccccccCcccccchhhhhhhee
Confidence 7766443221111 1122 5899988877744
No 95
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=95.38 E-value=0.04 Score=63.21 Aligned_cols=81 Identities=19% Similarity=0.337 Sum_probs=50.5
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC---cEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhh---
Q 005591 511 DEKRLMQTILNIVGNAVKFTKEG---YVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPL--- 584 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~g---~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~--- 584 (689)
+..-+.+++.++|.||++...+| .|.|.+. .++ .|+|.|||+|||.+..+.
T Consensus 34 ~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~--~~g---------------------~I~V~DnG~GIp~~~h~~~ki 90 (638)
T PRK05644 34 GERGLHHLVYEIVDNSIDEALAGYCDHIEVTIN--EDG---------------------SITVTDNGRGIPVDIHPKTGK 90 (638)
T ss_pred ChhhHHhhhHHhhhcccccccCCCCCEEEEEEe--CCC---------------------cEEEEEeCccccCCccCCCCC
Confidence 45678999999999999944444 4555443 222 589999999999874432
Q ss_pred -----hhcCCcccCCCCC-----CCCCccchHHHHHHHHH
Q 005591 585 -----LFTKFAQSRGSSC-----QTPRAGLGLAICRRFVN 614 (689)
Q Consensus 585 -----if~~f~~~~~~~~-----~~~g~GLGL~i~k~iv~ 614 (689)
+|.....+..-.. ...-.|.|++.+..+-+
T Consensus 91 ~~~e~i~~~lhag~kfd~~~yk~s~G~~G~Gls~vnalS~ 130 (638)
T PRK05644 91 PAVEVVLTVLHAGGKFGGGGYKVSGGLHGVGVSVVNALST 130 (638)
T ss_pred CchHHheeeecccCccCCCcccccCCccccchhhhhheec
Confidence 4433322211110 11134889988877665
No 96
>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=94.88 E-value=0.47 Score=45.20 Aligned_cols=125 Identities=11% Similarity=0.033 Sum_probs=88.8
Q ss_pred cChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEecccccccCcccccCCchhHHHhcccCceEecCCCcchhhh
Q 005591 212 LDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIR 291 (689)
Q Consensus 212 ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~ 291 (689)
.+..+..+.+++.+.+.+++ .++| ++....++|.......+... + -.....+++.+++.....+.... .+.
T Consensus 52 ~~~~~~A~~~aeII~~~t~~-aVaI-----TDr~~ILA~~G~g~d~~~~~-~-is~~t~~~i~~gk~~~~~~~~~~-~i~ 122 (180)
T TIGR02851 52 GELGDFAKEYAESLYQSLGH-IVLI-----TDRDTVIAVAGVSKKEYLNK-P-ISDELEDTMEERKTVILSDTKDG-PIE 122 (180)
T ss_pred cchHHHHHHHHHHHHHHhCC-EEEE-----ECCCcEEEEECCChhhcCCC-c-cCHHHHHHHHcCCEEEecCCccc-eec
Confidence 45677888899999999999 8887 66777777776655443334 5 66678889999999887754310 011
Q ss_pred cccc-cCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCC--ccccchHHHHHHHHHHHHHHH
Q 005591 292 LLVG-RYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGR--KWRDHELELIDVVADQVAVAL 362 (689)
Q Consensus 292 ~~~~-~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~--~w~~~e~~ll~~va~~~aval 362 (689)
+. ...++..+++.+|+.. .+.++|.+.++ ...+ .+++.+.++.+.+|.-++..+
T Consensus 123 --c~~~~~~~l~s~ii~Pl~~--------------~g~viGtLkly-~k~~~~~~~~~e~~la~glA~lLS~QL 179 (180)
T TIGR02851 123 --IIDGQEFEYTSQVIAPIIA--------------EGDPIGAVIIF-SKEPGEKLGEVEQKAAETAAAFLGKQM 179 (180)
T ss_pred --cccCCCCCcceEEEEEEEE--------------CCeEEEEEEEE-ECCccCCCCHHHHHHHHHHHHHHHHhh
Confidence 22 3445678889999643 33468888887 5555 889999999999988776554
No 97
>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=94.67 E-value=0.39 Score=38.68 Aligned_cols=72 Identities=17% Similarity=0.261 Sum_probs=58.3
Q ss_pred HHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHH
Q 005591 406 MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLI 485 (689)
Q Consensus 406 ~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~ 485 (689)
++|.+||-|..|.+++.+-.....+++.+..+..+......+..+-+.+..- -....+++.+++++++..+
T Consensus 2 ~~HRVkNnLq~i~sll~lq~~~~~~~e~~~~L~~~~~RI~aia~vh~~L~~~---------~~~~~v~l~~yl~~L~~~l 72 (76)
T PF07568_consen 2 LHHRVKNNLQIISSLLRLQARRSEDPEAREALEDAQNRIQAIALVHEQLYQS---------EDLSEVDLREYLEELCEDL 72 (76)
T ss_pred hHHhHHhHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHhcC---------CCCCeecHHHHHHHHHHHH
Confidence 6899999999999999998888888888888888888888877766655321 1234799999999998876
Q ss_pred H
Q 005591 486 K 486 (689)
Q Consensus 486 ~ 486 (689)
.
T Consensus 73 ~ 73 (76)
T PF07568_consen 73 R 73 (76)
T ss_pred H
Confidence 5
No 98
>COG5385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=94.59 E-value=3.6 Score=37.69 Aligned_cols=192 Identities=14% Similarity=0.104 Sum_probs=104.5
Q ss_pred HHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHH
Q 005591 402 FRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREV 481 (689)
Q Consensus 402 ~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~ 481 (689)
+.+.+.||+-.|...|.+-+++|.+...+++. ++.|+.++..++ ..++|.|+.-|..-..-..+|-.+.=+-+
T Consensus 18 LcsRvCHDiISPvgAInnGLeLLdeg~addDA---m~LIrsSArnas----~rLqFaR~AFGAsgSag~~iDtgeaek~A 90 (214)
T COG5385 18 LCSRVCHDIISPVGAINNGLELLDEGGADDDA---MDLIRSSARNAS----VRLQFARLAFGASGSAGASIDTGEAEKAA 90 (214)
T ss_pred HHHHHHhhccCcHHHhhchhhhhccCCccHHH---HHHHHHHhhhHH----HHHHHHHHHhcccccccccccchhHHHHH
Confidence 55668999999999999999999987666443 455665555544 34567776544322222345554443333
Q ss_pred HHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-cEEEEEEeecCCCCCCCCCCCcCccCC
Q 005591 482 IKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEFYPVST 560 (689)
Q Consensus 482 ~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~~~~~~ 560 (689)
.+.+. ...-++..+.+.. .. .+.+. ..+.||+.-|-..-+.| .+.+.+.....+
T Consensus 91 ~~~~a----~ekpe~~W~g~r~----~~-~Kn~v-kllLNl~lia~~aiPrGG~~~vtle~~e~d--------------- 145 (214)
T COG5385 91 QDFFA----NEKPELTWNGPRA----IL-PKNRV-KLLLNLFLIAYGAIPRGGSLVVTLENPETD--------------- 145 (214)
T ss_pred HHHHh----ccCCcccccCChh----hc-CcchH-HHHHHHHHHHcccCCCCCeeEEEeecCCcC---------------
Confidence 33332 2223444432221 11 33333 35667776666666654 444444333222
Q ss_pred CCceEEEEEEEecCCCC--CCCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEE
Q 005591 561 DGHFYLRVQVNDSGCGV--PPQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLV 637 (689)
Q Consensus 561 ~~~~~v~i~V~D~G~Gi--~~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~l 637 (689)
-+|+|.-.|+-+ +|+.++ -. ........-.+...-=+...-+++.-|++|.++.. +.-..|+-..
T Consensus 146 -----~rfsi~akG~m~Rvppk~le----l~-~G~~~eE~vdahsVQpyYt~lLa~eAgm~I~v~~~--~e~iv~~A~v 212 (214)
T COG5385 146 -----ARFSIIAKGRMMRVPPKFLE----LH-SGEPPEEAVDAHSVQPYYTLLLAEEAGMTISVHAT--AERIVFTAWV 212 (214)
T ss_pred -----ceEEEEecCccccCCHHHHh----hh-cCCCccccCCCccccHHHHHHHHHHcCCeEEEEec--cceEEEEEec
Confidence 466666666533 333222 11 11111111123344556667788999999999987 4445555443
No 99
>PRK05218 heat shock protein 90; Provisional
Probab=94.50 E-value=0.099 Score=59.85 Aligned_cols=55 Identities=15% Similarity=0.246 Sum_probs=34.0
Q ss_pred EEEEEecCCCCCCCChhhhhcCCcccC------------C-CCCCCCCccchHHHHHHHHHHhCCEEEEEee
Q 005591 567 RVQVNDSGCGVPPQDIPLLFTKFAQSR------------G-SSCQTPRAGLGLAICRRFVNLMGGHIWLDSE 625 (689)
Q Consensus 567 ~i~V~D~G~Gi~~~~~~~if~~f~~~~------------~-~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~ 625 (689)
.|.|+|||.||+.+++...+....++. . .....+-.|+|+..|- +.+-++.|.|.
T Consensus 74 ~i~I~DnG~GMt~eel~~~l~~ia~Sg~~~f~~k~~~~~~~~~~~iG~fGiGf~S~f----~va~~v~V~Sr 141 (613)
T PRK05218 74 TLTISDNGIGMTREEVIENLGTIAKSGTKEFLEKLKGDQKKDSQLIGQFGVGFYSAF----MVADKVTVITR 141 (613)
T ss_pred eEEEEECCCCCCHHHHHHHHHhhccccchhHHHHhhcccccccccccccCcCchhhh----hccCEEEEEEc
Confidence 489999999999999887653332220 0 1111124588886432 33456777776
No 100
>PF11849 DUF3369: Domain of unknown function (DUF3369); InterPro: IPR021800 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 170 amino acids in length.
Probab=94.50 E-value=2.3 Score=40.41 Aligned_cols=150 Identities=16% Similarity=0.202 Sum_probs=86.6
Q ss_pred HHhhhhchhHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcc------cCC--CCeEEEEEeccccccc
Q 005591 187 EMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMP------SRT--GLNLELSYTLNNQIQI 258 (689)
Q Consensus 187 ~~~~~~~~~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~------~~~--~~~~~~~~~~~~~~~~ 258 (689)
.+..+.+..+-++.+-.-+..|-+..+.++....++.++...++++..+++.. +.. +....++....-....
T Consensus 10 di~~Ie~~R~GLe~Ii~as~~L~~~~sl~~fa~gvL~Ql~~Ll~~~~~~l~~~~~~~~~~~~~~~~~~VlaatG~f~~~~ 89 (174)
T PF11849_consen 10 DIRTIERNRQGLEKIIEASASLFQIRSLQEFASGVLTQLSALLGLEDDGLYCSVRSAFPDDSDDNEFRVLAATGRFESLI 89 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhCCCCCeEEEecccccCCCCCCCCEEEEEEeccchhhc
Confidence 34444555555666777788888889999999999999999999998777661 111 1122223222211111
Q ss_pred Cccc-ccCCch----hHHHhcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEE
Q 005591 259 GSSV-PINLPI----VTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVL 333 (689)
Q Consensus 259 ~~~~-~~~~~~----v~~v~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl 333 (689)
+..+ .+.++. +.+++.+++...-++ ......| .....-+++
T Consensus 90 ~~~~~~~~~~~i~~~~~~a~~~~~~~~~~~------------------~~~ly~~----------------~~~g~~~~i 135 (174)
T PF11849_consen 90 GQPLDDLLPPEIRAALQQALSSKRSIFEED------------------HFVLYFP----------------SSSGRESLI 135 (174)
T ss_pred CCcccccCCHHHHHHHHHHHHcCCeEecCC------------------eEEEEEe----------------cCCCCEEEE
Confidence 1111 112222 233344433322111 1111111 111223344
Q ss_pred EeecCCCCccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 334 MLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSM 372 (689)
Q Consensus 334 ~~~~~~~~~w~~~e~~ll~~va~~~aval~~a~l~~~~~ 372 (689)
++... +..++.|.++++..+..+++++++..++++..
T Consensus 136 yl~~~--~~l~~~d~~LlevF~~Nvs~afdNv~L~~~l~ 172 (174)
T PF11849_consen 136 YLEGD--RPLSETDRQLLEVFCNNVSIAFDNVSLNEELE 172 (174)
T ss_pred EEeCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444 57899999999999999999999999887754
No 101
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=94.14 E-value=0.13 Score=58.91 Aligned_cols=79 Identities=18% Similarity=0.302 Sum_probs=51.0
Q ss_pred HHHHHHHHHHHHHhh---cCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCC--------h
Q 005591 514 RLMQTILNIVGNAVK---FTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQD--------I 582 (689)
Q Consensus 514 ~l~qvl~nLl~NAik---~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~--------~ 582 (689)
...+++.++|.||++ +.....|.|.+. .++ .|+|.|||.|||.+. .
T Consensus 30 ~~~~lv~ElvdNsiDE~~ag~a~~I~V~i~--~d~---------------------~I~V~DnGrGIp~~~h~~~g~~~~ 86 (625)
T TIGR01055 30 RPNHLVQEVIDNSVDEALAGFASIIMVILH--QDQ---------------------SIEVFDNGRGMPVDIHPKEGVSAV 86 (625)
T ss_pred CcceeehhhhhcccchhhcCCCCEEEEEEe--CCC---------------------eEEEEecCCccCcccccccCCcHH
Confidence 457889999999999 433455555553 222 589999999999988 6
Q ss_pred hhhh-cCCcccCCCCC---CCC-CccchHHHHHHHHHH
Q 005591 583 PLLF-TKFAQSRGSSC---QTP-RAGLGLAICRRFVNL 615 (689)
Q Consensus 583 ~~if-~~f~~~~~~~~---~~~-g~GLGL~i~k~iv~~ 615 (689)
+-+| ....+++-... ... -.|.|++.+..+-+.
T Consensus 87 e~v~t~lhagsK~~~~~~~~SgG~~GvGls~vnalS~~ 124 (625)
T TIGR01055 87 EVILTTLHAGGKFSNKNYHFSGGLHGVGISVVNALSKR 124 (625)
T ss_pred HHhhhcccccCCCCCCcceecCCCcchhHHHHHHhcCe
Confidence 6677 33322222111 111 258999988887764
No 102
>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=93.97 E-value=0.16 Score=58.72 Aligned_cols=81 Identities=17% Similarity=0.324 Sum_probs=49.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC---CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh----
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE---GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP---- 583 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~---g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~---- 583 (689)
++.-+.+++.++|.||++...+ ..|.|.+ ..++ .|+|.|||+|||.+..+
T Consensus 27 ~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i--~~~g---------------------~I~V~DnG~GIp~~~h~~~ki 83 (654)
T TIGR01059 27 GETGLHHLVYEVVDNSIDEAMAGYCDTINVTI--NDDG---------------------SVTVEDNGRGIPVDIHPEEGI 83 (654)
T ss_pred CcchHHhhhHHhhhccccccccCCCCEEEEEE--eCCC---------------------cEEEEEeCCCcCccccCcCCC
Confidence 4567899999999999994433 4444444 3332 39999999999986432
Q ss_pred ----hhhcCCcccCCCC-----CCCCCccchHHHHHHHHH
Q 005591 584 ----LLFTKFAQSRGSS-----CQTPRAGLGLAICRRFVN 614 (689)
Q Consensus 584 ----~if~~f~~~~~~~-----~~~~g~GLGL~i~k~iv~ 614 (689)
.+|.....+.... ....-.|.|++.+..+-+
T Consensus 84 ~~~e~i~~~l~ag~kf~~~~~k~s~G~~G~gl~~inalS~ 123 (654)
T TIGR01059 84 SAVEVVLTVLHAGGKFDKDSYKVSGGLHGVGVSVVNALSE 123 (654)
T ss_pred CchHHheeeecccCccCCCcceecCCccchhHHHHHHhcC
Confidence 2343322211110 011125889888776654
No 103
>PTZ00272 heat shock protein 83 kDa (Hsp83); Provisional
Probab=93.77 E-value=0.049 Score=62.61 Aligned_cols=20 Identities=25% Similarity=0.370 Sum_probs=16.6
Q ss_pred EEEEEEecCCCCCCCChhhh
Q 005591 566 LRVQVNDSGCGVPPQDIPLL 585 (689)
Q Consensus 566 v~i~V~D~G~Gi~~~~~~~i 585 (689)
..+.|.|||+||+.+++.+-
T Consensus 72 ~~L~I~DnGiGMt~edl~~~ 91 (701)
T PTZ00272 72 KTLTVEDNGIGMTKADLVNN 91 (701)
T ss_pred CEEEEEECCCCCCHHHHHHH
Confidence 47899999999999886543
No 104
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=93.70 E-value=2.5 Score=38.74 Aligned_cols=123 Identities=11% Similarity=0.098 Sum_probs=85.0
Q ss_pred hHHHHHHHHHHhhcC-CCeEEEEcccCCCCeEEEEEecccccccCcccccCCchhHHHhcccCceEecCCCcchhhhccc
Q 005591 216 TILKTTLVELGRTLG-LEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLV 294 (689)
Q Consensus 216 ~il~~~~~~l~~~l~-~~~~~i~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~~~~~~~~l~~~~~~~~~~~~~ 294 (689)
.-+..+...+.+.+. +.-+.+|+.+ +.++.+.-- .....-..+|.+.+.++.+..+++.+++.+....+. .
T Consensus 35 anlan~sall~~~l~~~nW~GFYl~~--~~~LvLgPF--qG~~acv~I~~GkGVCg~A~~~~~t~~V~DV~~~~g----h 106 (163)
T COG1956 35 ANLANASALLKERLPDVNWVGFYLLE--GDELVLGPF--QGKVACVRIPFGKGVCGTAAATGETVRVDDVHAFPG----H 106 (163)
T ss_pred HHHHHHHHHHHhhccCCceEEEEEec--CCeEEEecc--cCCcceEEeccCcchhHHHHhcCCeEEecccccCCC----c
Confidence 334444444444443 6778888887 333333211 111334578889999999999999999998877542 1
Q ss_pred ccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCccccchHHHHHHHHHHHHH
Q 005591 295 GRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAV 360 (689)
Q Consensus 295 ~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~av 360 (689)
....+...+.+.+|+. .++..+||+=+.+....+|++.+...++.+++.++-
T Consensus 107 iaCD~as~SEIVvPi~--------------~~g~~iGvlDiDS~~~~~Fd~~D~~~Le~~~~~l~~ 158 (163)
T COG1956 107 IACDAASNSEIVVPIF--------------KDGKLIGVLDIDSPTPGRFDEEDEAGLEKLAALLEK 158 (163)
T ss_pred cccccccCceEEEEEE--------------ECCEEEEEEecCCCCcccCCHHHHHHHHHHHHHHHH
Confidence 2223445677888854 355679999999999999999999999988887653
No 105
>COG0326 HtpG Molecular chaperone, HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=93.34 E-value=0.11 Score=57.97 Aligned_cols=45 Identities=18% Similarity=0.339 Sum_probs=31.0
Q ss_pred HHHHHHHHhhcCC---------------CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh
Q 005591 519 ILNIVGNAVKFTK---------------EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP 583 (689)
Q Consensus 519 l~nLl~NAik~~~---------------~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~ 583 (689)
+.+||+||.++.. .+...|++....+. =.++|+|||+||+.+++.
T Consensus 32 LRELISNAsDAidKlr~~al~~~~~~~~~~~~~I~i~~Dk~~--------------------kTLtI~DNGIGMT~~Ev~ 91 (623)
T COG0326 32 LRELISNASDAIDKLRFEALSDPELGEGDSDLRIRISFDKDN--------------------KTLTISDNGIGMTKDEVI 91 (623)
T ss_pred HHHHHhhhHHHHHHHHHHhccCccccCCCCCceEEEEEcccC--------------------CEEEEEeCCCCCCHHHHH
Confidence 5688899877641 12455666555443 378999999999987654
No 106
>PRK14083 HSP90 family protein; Provisional
Probab=93.08 E-value=0.048 Score=61.82 Aligned_cols=49 Identities=18% Similarity=0.286 Sum_probs=34.6
Q ss_pred HHHHHHHHHHhhcCCC---------CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhh
Q 005591 517 QTILNIVGNAVKFTKE---------GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLF 586 (689)
Q Consensus 517 qvl~nLl~NAik~~~~---------g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if 586 (689)
..+.+|+.||.++... +.|.|.+. ..+. -.|.|+|||+||+.+++.+.|
T Consensus 26 iflrELiqNA~DA~~~~~~~~~~~~~~I~I~~~-d~~~--------------------~~l~I~DnGiGmt~eel~~~l 83 (601)
T PRK14083 26 VYVRELLQNAVDAITARRALDPTAPGRIRIELT-DAGG--------------------GTLIVEDNGIGLTEEEVHEFL 83 (601)
T ss_pred HHHHHHHHhHHHHHHhhhccCCCCCceEEEEEc-cCCC--------------------cEEEEEeCCCCCCHHHHHHHH
Confidence 4578999999887532 34555442 2221 578999999999999988765
No 107
>COG5381 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=91.53 E-value=0.31 Score=43.36 Aligned_cols=31 Identities=29% Similarity=0.306 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEeecCC
Q 005591 515 LMQTILNIVGNAVKFTKEGYVSIIASVAKPE 545 (689)
Q Consensus 515 l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~ 545 (689)
+.-+..+|++||+||...|.|+|..+..+..
T Consensus 64 vgYl~NELiENAVKfra~geIvieasl~s~~ 94 (184)
T COG5381 64 VGYLANELIENAVKFRATGEIVIEASLYSHK 94 (184)
T ss_pred HHHHHHHHHHhhhcccCCCcEEEEEEeccce
Confidence 4557789999999999999999988776543
No 108
>smart00433 TOP2c TopoisomeraseII. Eukaryotic DNA topoisomerase II, GyrB, ParE
Probab=90.96 E-value=0.3 Score=55.81 Aligned_cols=76 Identities=21% Similarity=0.323 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHhhcCCC---CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh--------
Q 005591 515 LMQTILNIVGNAVKFTKE---GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP-------- 583 (689)
Q Consensus 515 l~qvl~nLl~NAik~~~~---g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~-------- 583 (689)
|.+++.++|.||++..-. ..|.|.+ ..++ .|+|.|||.|||.+..+
T Consensus 2 L~~~v~ElvdNAiD~~~~g~at~I~V~i--~~~g---------------------~I~V~DnG~GIp~~~h~~~~~~~~e 58 (594)
T smart00433 2 LHHLVDEIVDNAADEALAGYMDTIKVTI--DKDN---------------------SISVEDNGRGIPVEIHPKEKKYAPE 58 (594)
T ss_pred ceEEEeeehhcccchhccCCCCEEEEEE--eCCC---------------------eEEEEEeCCceeCCccCcCCCCcHH
Confidence 345678899999997633 3444444 3221 58999999999976543
Q ss_pred hhhcCCcccCCCCC-----CCCCccchHHHHHHHH
Q 005591 584 LLFTKFAQSRGSSC-----QTPRAGLGLAICRRFV 613 (689)
Q Consensus 584 ~if~~f~~~~~~~~-----~~~g~GLGL~i~k~iv 613 (689)
.+|.....+..-.+ ...-.|.|++.+..+-
T Consensus 59 ~v~~~lhag~kfd~~~~k~s~G~~G~Gls~vnalS 93 (594)
T smart00433 59 VIFTVLHAGGKFDDDAYKVSGGLHGVGASVVNALS 93 (594)
T ss_pred HhhhhhcccCCCCCCCccccCCcccchHHHHHHhc
Confidence 23433322211111 1113488998887663
No 109
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=90.94 E-value=2.1 Score=42.48 Aligned_cols=162 Identities=12% Similarity=0.120 Sum_probs=85.5
Q ss_pred HHHHHHHHHHHHHhhhhch----hHHhHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEe
Q 005591 176 FLKNRADELDREMGLILTQ----EETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYT 251 (689)
Q Consensus 176 ~~~~~a~~l~~~~~~~~~~----~~~~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~ 251 (689)
.++++.++|+.+++.+... +.....+..++.++-+..+.++++......+.+.++++.+.+++.+.........
T Consensus 51 ~LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~~l~l~LL~a~sl~~l~~~L~~~l~~~f~~~~v~L~L~~~~~~~~~~~-- 128 (225)
T PF04340_consen 51 RLRERNRQLEEQLEELIENARENEAIFQRLHRLVLALLAARSLQELLQALDDGLREDFDVDAVRLRLFDDDAAPGPSL-- 128 (225)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--SHHHHHHHHHHHHHHTS--SEEEEEEE-SS---SEE---
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCeEEEEeeccccccccch--
Confidence 3556666666666655444 3345568888899999999999999999999999999999999987544321000
Q ss_pred cccccccCcccccCCchhHHH----hcccCceEecCCCcchhhhcccccCCCCCceEEeeccccccCccccCCCCcCccc
Q 005591 252 LNNQIQIGSSVPINLPIVTDV----FNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKS 327 (689)
Q Consensus 252 ~~~~~~~~~~~~~~~~~v~~v----~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~ 327 (689)
.. .+.........+ +..+.+.. ............+ ....+..+.-.+|| . .+
T Consensus 129 -~~------~~~~~~~~~~~~~~~~l~~~~p~~-G~~~~~~~~~lF~-~~~~~v~S~AlipL--------------~-~~ 184 (225)
T PF04340_consen 129 -TD------HVWLSRDAFAQVFIDLLGLQQPYC-GRLSEEEAALLFG-DEAAQVGSVALIPL--------------G-SG 184 (225)
T ss_dssp ------------E-HHHHHHHHCCCHTT---CC-CS--HHHHHHHHH-HCHCC-SEEEEEEE--------------E-SS
T ss_pred -hh------cccccHHHHHHHHHHHhCCCCcee-CCCCcchhHHhcC-CCCccccchheeec--------------c-CC
Confidence 00 000001111111 11111111 1111110000000 01123344445554 2 33
Q ss_pred ceEEEEEeecCCCCcccc-chHHHHHHHHHHHHHHHH
Q 005591 328 YAVMVLMLPTDGGRKWRD-HELELIDVVADQVAVALS 363 (689)
Q Consensus 328 ~~i~vl~~~~~~~~~w~~-~e~~ll~~va~~~aval~ 363 (689)
..+|++.+.+..+.+|++ ....+++.+|..++.++.
T Consensus 185 ~~~G~LalGS~D~~rF~p~mgT~fL~~La~vv~~~L~ 221 (225)
T PF04340_consen 185 RPIGLLALGSRDPDRFQPDMGTDFLEQLAEVVSAALE 221 (225)
T ss_dssp SEEEEEEEEESSTTCCCSTTTTHHHHHHHHHHHHHGG
T ss_pred CceEEEEecCCChhhCCCCccHHHHHHHHHHHHHHHh
Confidence 468999998887777754 567889999998887763
No 110
>PTZ00130 heat shock protein 90; Provisional
Probab=90.79 E-value=0.24 Score=57.42 Aligned_cols=18 Identities=22% Similarity=0.486 Sum_probs=15.3
Q ss_pred EEEEEecCCCCCCCChhh
Q 005591 567 RVQVNDSGCGVPPQDIPL 584 (689)
Q Consensus 567 ~i~V~D~G~Gi~~~~~~~ 584 (689)
.|+|+|||+||+.+++..
T Consensus 136 tLtI~DnGIGMT~eEl~~ 153 (814)
T PTZ00130 136 ILSITDTGIGMTKEDLIN 153 (814)
T ss_pred EEEEEECCCCCCHHHHHH
Confidence 689999999999987653
No 111
>PF10090 DUF2328: Uncharacterized protein conserved in bacteria (DUF2328); InterPro: IPR018762 Members of this family of hypothetical bacterial proteins have no known function.
Probab=90.20 E-value=18 Score=34.62 Aligned_cols=169 Identities=12% Similarity=0.084 Sum_probs=96.4
Q ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHHhhhhcCCce
Q 005591 416 AIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLS 495 (689)
Q Consensus 416 ~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~~~~~~~~i~ 495 (689)
+|.+.+++|.++..+++ +..++.|.+++..+..-+ .|.|+--|.-.. -..++..+.-+-+..++ ...+++
T Consensus 3 AI~NGLELL~~~~~~~~-~~~~~LI~~Sa~~A~aRl----~F~RlAFGaag~-~~~i~~~e~~~~~~~~~----~~~r~~ 72 (182)
T PF10090_consen 3 AINNGLELLDDEGDPEM-RPAMELIRESARNASARL----RFFRLAFGAAGS-GQQIDLGEARSVLRGYF----AGGRIT 72 (182)
T ss_pred chhhhHHHHcCCCCccc-hHHHHHHHHHHHHHHHHH----HHHHHHcCCCCC-CCCCCHHHHHHHHHHHH----hCCceE
Confidence 57778888887655333 337888888888876655 345543333222 34677666544444433 334455
Q ss_pred EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecC
Q 005591 496 MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSG 574 (689)
Q Consensus 496 i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~~~-g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G 574 (689)
+..+.+.. . . ++. .-+++.|++-=+....+. |.+.|......++ ..+.|.=+|
T Consensus 73 l~W~~~~~--~-~--~k~-~vklllnl~l~a~~alprGG~i~V~~~~~~~~--------------------~~~~v~a~G 126 (182)
T PF10090_consen 73 LDWQVERD--L-L--PKP-EVKLLLNLLLCAEDALPRGGEITVSIEGSEGD--------------------GGWRVRAEG 126 (182)
T ss_pred EEccCccc--c-C--CHH-HHHHHHHHHHHHHhhcCCCCEEEEEEeccCCC--------------------ceEEEEEec
Confidence 55544333 1 1 222 337778887777776664 6666664444333 456666667
Q ss_pred CCCC--CCChhhhhcCCcccCCCCCCCCCccchHHHHHHHHHHhCCEEEEEee
Q 005591 575 CGVP--PQDIPLLFTKFAQSRGSSCQTPRAGLGLAICRRFVNLMGGHIWLDSE 625 (689)
Q Consensus 575 ~Gi~--~~~~~~if~~f~~~~~~~~~~~g~GLGL~i~k~iv~~~gG~I~i~S~ 625 (689)
..+. ++...-+ . . ......-.....=.+....+++..|++|.++..
T Consensus 127 ~~~~~~~~~~~~L-~---g-~~~~~~l~~~~VQ~~~~~~la~~~G~~l~~~~~ 174 (182)
T PF10090_consen 127 PRARLDPDLWAAL-A---G-EDPEEDLDPRNVQFYLLPLLAREAGRRLSVEAT 174 (182)
T ss_pred cccCCCHHHHHHh-c---C-CCCCCCCCHHhHHHHHHHHHHHHcCCeEEEEec
Confidence 6543 3322221 1 1 111111123456688899999999999999886
No 112
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=88.33 E-value=0.43 Score=55.48 Aligned_cols=46 Identities=22% Similarity=0.367 Sum_probs=33.7
Q ss_pred HHHHHHHHHHHHHHhhcCCC---CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCC
Q 005591 513 KRLMQTILNIVGNAVKFTKE---GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQD 581 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~~~---g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~ 581 (689)
.-|.+++.++|+||++-.-+ ..|.|.+ ..++ .|+|.|||.|||.+.
T Consensus 36 ~GLhhlv~EivdNaiDE~~AG~a~~I~V~i--~~dg---------------------sIsV~DnGrGIPvd~ 84 (756)
T PRK14939 36 TGLHHMVYEVVDNAIDEALAGHCDDITVTI--HADG---------------------SVSVSDNGRGIPTDI 84 (756)
T ss_pred cchhhhhhHhhcccccccccCCCCEEEEEE--cCCC---------------------eEEEEEcCCcccCCc
Confidence 45899999999999994433 3444444 3222 589999999999874
No 113
>KOG1979 consensus DNA mismatch repair protein - MLH1 family [Replication, recombination and repair]
Probab=87.92 E-value=0.68 Score=50.65 Aligned_cols=60 Identities=23% Similarity=0.414 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccC
Q 005591 514 RLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSR 593 (689)
Q Consensus 514 ~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~ 593 (689)
+...++.+|++|++++. ...|.+...+++- =.+.|+|||.||..++++-+.++|.+++
T Consensus 27 RP~NAlKEliENSLDA~---ST~I~V~vk~GGL-------------------KLlQisDnG~GI~reDl~ilCeRftTSK 84 (694)
T KOG1979|consen 27 RPVNALKELIENSLDAN---STSIDVLVKDGGL-------------------KLLQISDNGSGIRREDLPILCERFTTSK 84 (694)
T ss_pred chHHHHHHHHhccccCC---CceEEEEEecCCe-------------------EEEEEecCCCccchhhhHHHHHHhhhhh
Confidence 45567889999999764 3445555555541 3467889999999999999999998876
Q ss_pred CC
Q 005591 594 GS 595 (689)
Q Consensus 594 ~~ 595 (689)
-.
T Consensus 85 L~ 86 (694)
T KOG1979|consen 85 LT 86 (694)
T ss_pred cc
Confidence 43
No 114
>KOG1978 consensus DNA mismatch repair protein - MLH2/PMS1/Pms2 family [Replication, recombination and repair]
Probab=86.79 E-value=0.68 Score=51.84 Aligned_cols=57 Identities=21% Similarity=0.308 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCcccC
Q 005591 515 LMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQSR 593 (689)
Q Consensus 515 l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~~ 593 (689)
+.-++.+|++|+++... ..|.+.+ .+-+ .=.|+|+|||+||++.+.+-+-.++++++
T Consensus 21 l~sAVKELvENSiDAGA-T~I~I~~--kdyG-------------------~d~IEV~DNG~GI~~~n~~~l~lkh~TSK 77 (672)
T KOG1978|consen 21 LVSAVKELVENSIDAGA-TAIDIKV--KDYG-------------------SDSIEVSDNGSGISATDFEGLALKHTTSK 77 (672)
T ss_pred HHHHHHHHHhcCcccCC-ceeeEec--CCCC-------------------cceEEEecCCCCCCccchhhhhhhhhhhc
Confidence 45789999999998643 3344444 3322 13699999999999988877766666654
No 115
>PRK10963 hypothetical protein; Provisional
Probab=86.25 E-value=37 Score=33.61 Aligned_cols=65 Identities=18% Similarity=0.203 Sum_probs=49.4
Q ss_pred HHHHHHHHHHHHHhhhhchhHH----hHHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccC
Q 005591 176 FLKNRADELDREMGLILTQEET----GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSR 241 (689)
Q Consensus 176 ~~~~~a~~l~~~~~~~~~~~~~----~~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~ 241 (689)
.++++..+|+.++..+-...+. ...+..++.++-...+.++++.+.. .+.+.++++.+++++.++
T Consensus 48 ~LR~r~~~Le~~l~~Li~~A~~Ne~l~~~~~~l~l~Ll~a~~~~~l~~~L~-~~~~~f~~~~v~l~L~~~ 116 (223)
T PRK10963 48 RQRNHIHVLEEEMTLLMEQAIANEDLFYRLLPLQSRLAAADSLQDMLMRLH-RWARDLGLAGAKIRLFPD 116 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHH-HHHHHcCCCceEEEEecc
Confidence 4566677777776655444443 4557788888888889999999885 789999999999988764
No 116
>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=0.97 Score=51.89 Aligned_cols=48 Identities=27% Similarity=0.393 Sum_probs=33.4
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC---CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCC
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE---GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQD 581 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~---g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~ 581 (689)
++.-|.+++.++|.||++-.-. ..|.|.+. .+ -.++|.|||.|||.+.
T Consensus 31 ~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~--~d---------------------gsitV~DnGrGIPv~~ 81 (637)
T TIGR01058 31 DSKGLHHLVWEIVDNSVDEVLAGYADNITVTLH--KD---------------------NSITVQDDGRGIPTGI 81 (637)
T ss_pred CcchhheehhhhhcchhhhhhcCCCcEEEEEEc--CC---------------------CeEEEEECCCcccCcc
Confidence 4566888999999999984432 34444443 22 2589999999999754
No 117
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=83.74 E-value=5.3 Score=30.66 Aligned_cols=44 Identities=18% Similarity=0.191 Sum_probs=31.3
Q ss_pred HHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 005591 403 RAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTL 450 (689)
Q Consensus 403 ~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~l 450 (689)
++..-||+.|-|+.|.|++++ ...++..++++.+.+..+..+.+
T Consensus 16 lR~~RHD~~NhLqvI~gllql----g~~~~a~eYi~~~~~~~~~~s~l 59 (62)
T PF14689_consen 16 LRAQRHDFLNHLQVIYGLLQL----GKYEEAKEYIKELSKDLQQESEL 59 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHT----T-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHHHHHHHH
Confidence 344579999999999999876 33456677777777766665443
No 118
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=83.57 E-value=32 Score=38.82 Aligned_cols=48 Identities=17% Similarity=0.252 Sum_probs=41.6
Q ss_pred HHhcccChhhHHHHHHHHHHhhcCCCeEEEEcccCCCCeEEEEEeccc
Q 005591 207 EIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN 254 (689)
Q Consensus 207 ~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~~~~~~~~~~ 254 (689)
.+++..+..+++..+++++++++|.|++.+|-.++++....++..-..
T Consensus 141 ~lq~a~~l~~l~~~~tqeVr~~tGfDRVMlYrF~~d~~G~VIAEak~e 188 (750)
T COG4251 141 RLQSAANLRDLLSRTTQEVRRMTGFDRVMLYRFDEDGSGEVIAEAKRE 188 (750)
T ss_pred HHhcCccHHHHHHHHHHHHHHhcCCceEEEEeecCCCCccEEeccccc
Confidence 688888999999999999999999999999999999887666654433
No 119
>PTZ00108 DNA topoisomerase 2-like protein; Provisional
Probab=79.21 E-value=2.5 Score=52.35 Aligned_cols=101 Identities=17% Similarity=0.220 Sum_probs=54.3
Q ss_pred HHHHHHHHHHHHHhhcCC-----CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh-----
Q 005591 514 RLMQTILNIVGNAVKFTK-----EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP----- 583 (689)
Q Consensus 514 ~l~qvl~nLl~NAik~~~-----~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~----- 583 (689)
-|..++.++|.||++... +..-.|.+....+. =.|+|.|||.|||-+..+
T Consensus 57 GL~ki~dEIldNAvDe~~r~~~~g~~~~I~V~i~~d~--------------------g~IsV~dnGrGIPv~~h~~~~~~ 116 (1388)
T PTZ00108 57 GLYKIFDEILVNAADNKARDKGGHRMTYIKVTIDEEN--------------------GEISVYNDGEGIPVQIHKEHKIY 116 (1388)
T ss_pred hhhhhHHHHhhhhhhhhcccCCCCCccEEEEEEeccC--------------------CeEEEEecCCcccCCCCCCCCCc
Confidence 577788888888877542 22233333333321 158999999999976543
Q ss_pred ---hhhcCCcccCCCCCC-----CCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEE
Q 005591 584 ---LLFTKFAQSRGSSCQ-----TPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 584 ---~if~~f~~~~~~~~~-----~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
-+|....++...... ++-.|.|.+.|+-+-+. +.++......|-.|..++-
T Consensus 117 ~pElIft~L~aGgkfdd~~yKvSGGlhGVGasvvNalS~~----f~Vev~r~~~gk~y~q~f~ 175 (1388)
T PTZ00108 117 VPEMIFGHLLTSSNYDDTEKRVTGGRNGFGAKLTNIFSTK----FTVECVDSKSGKKFKMTWT 175 (1388)
T ss_pred cceEEEEEeeccccCCCCceeeecccccCCccccccccce----EEEEEEECCCCCEEEEEec
Confidence 244444333222111 12348888777655443 4444431223555555554
No 120
>KOG1977 consensus DNA mismatch repair protein - MLH3 family [Replication, recombination and repair]
Probab=78.22 E-value=2.5 Score=47.41 Aligned_cols=58 Identities=24% Similarity=0.341 Sum_probs=45.7
Q ss_pred HHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcCCccc
Q 005591 513 KRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTKFAQS 592 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~f~~~ 592 (689)
..+.|++.+|+-|++++.. ..|.|.+..+ ...+.|.|+|.|+..+++..+-++++++
T Consensus 20 ~sla~~VeElv~NSiDA~A-t~V~v~V~~~----------------------t~sv~ViDdG~G~~rdDl~~lg~ry~TS 76 (1142)
T KOG1977|consen 20 SSLAQCVEELVLNSIDAEA-TCVAVRVNME----------------------TFSVQVIDDGFGMGRDDLEKLGNRYFTS 76 (1142)
T ss_pred HHHHHHHHHHHhhccccCc-eEEEEEecCc----------------------eeEEEEEecCCCccHHHHHHHHhhhhhh
Confidence 3578999999999998643 4455554332 2789999999999999999999988886
Q ss_pred C
Q 005591 593 R 593 (689)
Q Consensus 593 ~ 593 (689)
+
T Consensus 77 K 77 (1142)
T KOG1977|consen 77 K 77 (1142)
T ss_pred h
Confidence 4
No 121
>PLN03237 DNA topoisomerase 2; Provisional
Probab=75.98 E-value=4.7 Score=49.96 Aligned_cols=82 Identities=20% Similarity=0.270 Sum_probs=47.3
Q ss_pred HHHHHHHHHHHHHHhhcC-C---CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh-----
Q 005591 513 KRLMQTILNIVGNAVKFT-K---EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP----- 583 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~-~---~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~----- 583 (689)
.-|..++.++|.||++.. . ...|.|.+...+ =.|+|.|||.|||-+..+
T Consensus 76 pGL~kifdEIldNAvDe~~r~g~~~~I~V~I~~~~----------------------gsIsV~DnGRGIPV~iH~~eg~~ 133 (1465)
T PLN03237 76 PGLYKIFDEILVNAADNKQRDPKMDSLRVVIDVEQ----------------------NLISVYNNGDGVPVEIHQEEGVY 133 (1465)
T ss_pred chhhhhHHHHhhhhHhHHhhcCCCCEEEEEEEcCC----------------------CEEEEEecCccccCCCCCCCCCc
Confidence 346777888888887754 2 234444443222 258999999999976443
Q ss_pred ---hhhcCCcccCCCCC-----CCCCccchHHHHHHHHHHh
Q 005591 584 ---LLFTKFAQSRGSSC-----QTPRAGLGLAICRRFVNLM 616 (689)
Q Consensus 584 ---~if~~f~~~~~~~~-----~~~g~GLGL~i~k~iv~~~ 616 (689)
-||....++....+ .++-.|.|.+.|+-+-+.+
T Consensus 134 ~pElIft~LhAGgkFdd~~yKvSGGlhGVGasvvNaLS~~f 174 (1465)
T PLN03237 134 VPEMIFGHLLTSSNYDDNEKKTTGGRNGYGAKLTNIFSTEF 174 (1465)
T ss_pred cceEEEEeeeccccCCCCcceeeccccccCccccccccCee
Confidence 24444433322211 1123488888777665543
No 122
>PHA02569 39 DNA topoisomerase II large subunit; Provisional
Probab=73.49 E-value=2.4 Score=48.40 Aligned_cols=50 Identities=22% Similarity=0.372 Sum_probs=28.9
Q ss_pred EEEEEecCCCCCCCChh-----------hhhcCCcccCCC----CCCCCCccchHHHHHHHHHHh
Q 005591 567 RVQVNDSGCGVPPQDIP-----------LLFTKFAQSRGS----SCQTPRAGLGLAICRRFVNLM 616 (689)
Q Consensus 567 ~i~V~D~G~Gi~~~~~~-----------~if~~f~~~~~~----~~~~~g~GLGL~i~k~iv~~~ 616 (689)
.++|.|||.|||.+..+ -+|.....+..- ...+.-.|.|.+.++-+-+.+
T Consensus 80 sisV~dnGrGIPv~~h~~~~g~~~~~~E~i~t~LhaGgkFd~~ykvSGGlhGVG~svvNaLS~~~ 144 (602)
T PHA02569 80 QVTVSDNGRGIPQAMVTTPEGEEIPGPVAAWTRTKAGSNFDDTNRVTGGMNGVGSSLTNFFSVLF 144 (602)
T ss_pred EEEEEECCCcccCCcccccccccccceEEEEEeeccccccCCcceeeCCcCCccceeeeccchhh
Confidence 58999999999986542 123222221111 111224588988887766554
No 123
>PLN03128 DNA topoisomerase 2; Provisional
Probab=71.12 E-value=6.2 Score=48.33 Aligned_cols=102 Identities=17% Similarity=0.235 Sum_probs=53.2
Q ss_pred HHHHHHHHHHHHHHhhcC-C-CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh-------
Q 005591 513 KRLMQTILNIVGNAVKFT-K-EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP------- 583 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~-~-~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~------- 583 (689)
.-|.+++.++|.||++.. . +..-.|.+....++ =.|+|.|||.|||-+..+
T Consensus 51 pGL~ki~dEIldNAvDe~~~~g~~~~I~V~i~~~d--------------------gsIsV~DnGrGIPv~ih~~~g~~~~ 110 (1135)
T PLN03128 51 PGLYKIFDEILVNAADNKQRDPSMDSLKVDIDVEQ--------------------NTISVYNNGKGIPVEIHKEEGVYVP 110 (1135)
T ss_pred hhHHHHHHHHHHHHHHHhhhcCCCcEEEEEEEcCC--------------------CeEEEEecCccccCCCCCCCCCccc
Confidence 357788888888888855 2 22223333333221 258999999999976433
Q ss_pred -hhhcCCcccCCCCCC-----CCCccchHHHHHHHHHHhCCEEEEEeecCCCcEEEEEEEE
Q 005591 584 -LLFTKFAQSRGSSCQ-----TPRAGLGLAICRRFVNLMGGHIWLDSEGLDKGSTVTFLVK 638 (689)
Q Consensus 584 -~if~~f~~~~~~~~~-----~~g~GLGL~i~k~iv~~~gG~I~i~S~~~g~Gt~~~~~lP 638 (689)
-+|....++..-... ++-.|.|.+.|+-+-+. +.++......|..|..++-
T Consensus 111 ElIft~LhaGgkFdd~~ykvSGGlhGvGasvvNaLS~~----f~Vev~d~r~gk~y~q~f~ 167 (1135)
T PLN03128 111 ELIFGHLLTSSNFDDNEKKTTGGRNGYGAKLANIFSTE----FTVETADGNRGKKYKQVFT 167 (1135)
T ss_pred eEEEEeeccccccCCccceeeccccCCCCeEEEeecCe----EEEEEEECCCCeEEEEEeC
Confidence 234333332221111 11247787766544333 4444421123555555553
No 124
>PF07694 5TM-5TMR_LYT: 5TMR of 5TMR-LYT; InterPro: IPR011620 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 transmembrane region of the 5TM-Lyt (5TM Receptors of the LytS-YhcK type) histidine kinase []. The two-component regulatory system LytS/LytT probably regulates genes involved in cell wall metabolism. ; GO: 0000155 two-component sensor activity, 0004673 protein histidine kinase activity, 0000160 two-component signal transduction system (phosphorelay), 0007047 cellular cell wall organization, 0016021 integral to membrane
Probab=70.47 E-value=35 Score=31.88 Aligned_cols=75 Identities=5% Similarity=-0.012 Sum_probs=40.1
Q ss_pred HHHHHhhHHHHHHHHHhhcCC--CchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 83 IALAYFSIPVELIYFVQKSAF--FPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALML 160 (689)
Q Consensus 83 ia~ay~~ip~~l~yf~~~~~~--~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~l 160 (689)
.++....+.+..+++.++.+. .+.++....+.++ .++..+++.++.+.. +......++..+..++.+.+.++.
T Consensus 85 ~~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~l--~~~i~~~~~~~~~~~---~~~~~~~~~~~i~~~~~~~~~~~~ 159 (169)
T PF07694_consen 85 AFIIIILIGILAGLISRFFRRKSKKIKLLYLFLLSL--VISIISMLIILLLIP---PFSNALSLVSTILLPYIVINVLGI 159 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcchhccHHHHHHHHH--HHHHHHHHHHHHHhC---cHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555443332 3555555544444 777777777776654 233344555555555555555554
Q ss_pred HH
Q 005591 161 VH 162 (689)
Q Consensus 161 ~~ 162 (689)
+.
T Consensus 160 ~l 161 (169)
T PF07694_consen 160 LL 161 (169)
T ss_pred HH
Confidence 43
No 125
>PF07730 HisKA_3: Histidine kinase; InterPro: IPR011712 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Signal transducing histidine kinases are the key elements in two-component signal transduction systems, which control complex processes such as the initiation of development in microorganisms [, ]. Examples of histidine kinases are EnvZ, which plays a central role in osmoregulation [], and CheA, which plays a central role in the chemotaxis system []. Histidine kinases usually have an N-terminal ligand-binding domain and a C-terminal kinase domain, but other domains may also be present. The kinase domain is responsible for the autophosphorylation of the histidine with ATP, the phosphotransfer from the kinase to an aspartate of the response regulator, and (with bifunctional enzymes) the phosphotransfer from aspartyl phosphate back to ADP or to water []. The kinase core has a unique fold, distinct from that of the Ser/Thr/Tyr kinase superfamily. HKs can be roughly divided into two classes: orthodox and hybrid kinases [, ]. Most orthodox HKs, typified by the Escherichia coli EnvZ protein, function as periplasmic membrane receptors and have a signal peptide and transmembrane segment(s) that separate the protein into a periplasmic N-terminal sensing domain and a highly conserved cytoplasmic C-terminal kinase core. Members of this family, however, have an integral membrane sensor domain. Not all orthodox kinases are membrane bound, e.g., the nitrogen regulatory kinase NtrB (GlnL) is a soluble cytoplasmic HK []. Hybrid kinases contain multiple phosphodonor and phosphoacceptor sites and use multi-step phospho-relay schemes instead of promoting a single phosphoryl transfer. In addition to the sensor domain and kinase core, they contain a CheY-like receiver domain and a His-containing phosphotransfer (HPt) domain. This entry represetns the dimerisation and phosphoacceptor domain of a sub-family of histidine kinases. It shares sequence similarity with IPR003661 from INTERPRO and IPR011102 from INTERPRO.; GO: 0000155 two-component sensor activity, 0046983 protein dimerization activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane; PDB: 3GIE_B 3GIG_A 3EHJ_B 3EHH_B 3GIF_B 3EHF_B 3EHG_A.
Probab=68.94 E-value=42 Score=25.76 Aligned_cols=56 Identities=14% Similarity=0.081 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHhhchHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 399 RNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDV 454 (689)
Q Consensus 399 ~~~~~~~~sHelr~PL~~I~~~~~~L~~~--~~~~e~~~~l~~i~~~~~~l~~li~~l 454 (689)
+.+++..+++++-+.|.++...++.+... ..+++.++.++.+.+.+.....-+.++
T Consensus 2 R~rIAreLHD~v~q~L~~i~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~R~~ 59 (68)
T PF07730_consen 2 RRRIARELHDGVGQSLTAIKMQLEALRRRLADDPEEAREELEEIRELLREALQELRRI 59 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTT-HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56788889999999999999999888854 233455555555555554444443333
No 126
>COG5393 Predicted membrane protein [Function unknown]
Probab=67.97 E-value=69 Score=27.74 Aligned_cols=51 Identities=10% Similarity=0.195 Sum_probs=27.9
Q ss_pred hHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 107 RWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHI 163 (689)
Q Consensus 107 ~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~l~~~ 163 (689)
-..-.+|++|- +.+ .-.+.+|.+| |.|..-..+-..+++..++.+.++|++
T Consensus 54 ~gLtl~fa~~~-lms-L~vLvi~~f~----~tyRl~a~~a~~~vl~vl~~i~ciW~l 104 (131)
T COG5393 54 AGLTLLFAAFG-LMS-LMVLVIWAFD----PTYRLNAMIATTAVLLVLALIGCIWTL 104 (131)
T ss_pred HHHHHHHHHHH-HHH-HHHHHHHHcC----cHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444455552 122 2345667788 445554444555556666666778874
No 127
>PTZ00109 DNA gyrase subunit b; Provisional
Probab=63.87 E-value=1.5 Score=51.38 Aligned_cols=49 Identities=29% Similarity=0.445 Sum_probs=31.9
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC---CcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCCh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKE---GYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDI 582 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~---g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~ 582 (689)
|..-|.+++.++|.||++-.-. ..|.|.+ ..++ .++|+|||.|||-+..
T Consensus 126 ~~~GLhhLv~EIlDNSVDE~laG~~~~I~V~i--~~Dg---------------------sItV~DnGRGIPvd~h 177 (903)
T PTZ00109 126 DEKGLHQLLFEILDNSVDEYLAGECNKITVVL--HKDG---------------------SVEISDNGRGIPCDVS 177 (903)
T ss_pred CCCcceEEEEEEeeccchhhccCCCcEEEEEE--cCCC---------------------eEEEEeCCcccccccc
Confidence 3445677778888888884433 3344443 2222 5899999999997544
No 128
>PF06018 CodY: CodY GAF-like domain; InterPro: IPR010312 This family consists of several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; GO: 0003677 DNA binding, 0005525 GTP binding; PDB: 2HGV_A 2GX5_D 2B0L_C 2B18_A.
Probab=63.80 E-value=1.4e+02 Score=28.41 Aligned_cols=40 Identities=18% Similarity=0.225 Sum_probs=26.4
Q ss_pred cccceEEEEEeecCCCCccccchHHHHHHHHHHHHHHHHHH
Q 005591 325 AKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHA 365 (689)
Q Consensus 325 ~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~aval~~a 365 (689)
.++..+|.+++... ...|+++|+-+.+-.|..++.-+.++
T Consensus 117 g~GeRLGTLvl~r~-~~~F~ddDLILaEY~ATVVGmEiLr~ 156 (177)
T PF06018_consen 117 GGGERLGTLVLARF-DKEFTDDDLILAEYGATVVGMEILRS 156 (177)
T ss_dssp ETTEEEEEEEEEES-S----HHHHHHHHHHHHHHHHHHHHH
T ss_pred eCCeEEEEEEEEEc-CCCCChhhhHHHHHHHHHHHHHHHHH
Confidence 34445778777764 34799999999998888888777444
No 129
>PRK10263 DNA translocase FtsK; Provisional
Probab=62.71 E-value=3.4e+02 Score=34.13 Aligned_cols=16 Identities=19% Similarity=0.521 Sum_probs=11.1
Q ss_pred HHHHHHHhhHHHHHHH
Q 005591 81 ILIALAYFSIPVELIY 96 (689)
Q Consensus 81 ~~ia~ay~~ip~~l~y 96 (689)
.+++++.|.+|+.+++
T Consensus 77 ~LFGl~AYLLP~LL~~ 92 (1355)
T PRK10263 77 FIFGVMAYTIPVIIVG 92 (1355)
T ss_pred HHHhHHHHHHHHHHHH
Confidence 3567788888876643
No 130
>COG0187 GyrB Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit [DNA replication, recombination, and repair]
Probab=58.35 E-value=2 Score=48.03 Aligned_cols=79 Identities=16% Similarity=0.338 Sum_probs=46.1
Q ss_pred HHHHHHHHHHHHHHhhcCC---CCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChh------
Q 005591 513 KRLMQTILNIVGNAVKFTK---EGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIP------ 583 (689)
Q Consensus 513 ~~l~qvl~nLl~NAik~~~---~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~------ 583 (689)
.-|.+++.+.++||++-+= ...|.|.+. .++ .++|.|||.|||-+..+
T Consensus 35 ~GLhHlv~EVvDNsiDEalaG~~~~I~V~l~--~d~---------------------sisV~DnGRGIPvdiH~~~~~~~ 91 (635)
T COG0187 35 RGLHHLVWEVVDNSIDEALAGYADRIDVTLH--EDG---------------------SISVEDNGRGIPVDIHPKEKVSA 91 (635)
T ss_pred CcceeeEeEeeechHhHHhhCcCcEEEEEEc--CCC---------------------eEEEEECCCCCccccCCCCCCCc
Confidence 5677777888888877442 244445443 222 58999999999987643
Q ss_pred --hhhcCCcccCCCCC-----CCCCccchHHHHHHHHH
Q 005591 584 --LLFTKFAQSRGSSC-----QTPRAGLGLAICRRFVN 614 (689)
Q Consensus 584 --~if~~f~~~~~~~~-----~~~g~GLGL~i~k~iv~ 614 (689)
-+|.....+..-.. .+.-.|.|.+.|+.+-+
T Consensus 92 vEvI~T~LHAGGKFd~~~YkvSGGLHGVG~SVVNALS~ 129 (635)
T COG0187 92 VEVIFTVLHAGGKFDNDSYKVSGGLHGVGVSVVNALST 129 (635)
T ss_pred eEEEEEeeccCcccCCCccEeecCCCccceEEEecccc
Confidence 34544433211111 11234788777765543
No 131
>COG1620 LldP L-lactate permease [Energy production and conversion]
Probab=57.86 E-value=39 Score=37.37 Aligned_cols=76 Identities=11% Similarity=0.173 Sum_probs=57.9
Q ss_pred hHHHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHH
Q 005591 80 DILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALM 159 (689)
Q Consensus 80 d~~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~ 159 (689)
-...++.++.||+.++++.-..|+..-.|-+.+++++ .|..++++..+...+ .+-..+.+++|......
T Consensus 183 ~~~l~~~~~~iP~~lv~~~d~~kgi~e~~p~~lvag~--sfti~q~l~a~~lGP---------elPdIig~lvsl~i~~~ 251 (522)
T COG1620 183 GRQLPILSLLIPFLLVFLMDGWKGIKEVWPAILVAGL--SFTIPQFLLANFLGP---------ELPDIIGGLVSLGILAL 251 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--HHHHHHHHHHHhccc---------ccHHHHHHHHHHHHHHH
Confidence 3456889999999999999888888888999999998 899999999998864 23356666776665544
Q ss_pred HHH-Hhhh
Q 005591 160 LVH-IIPD 166 (689)
Q Consensus 160 l~~-~ip~ 166 (689)
..+ +.|+
T Consensus 252 flk~~~PK 259 (522)
T COG1620 252 FLKKWQPK 259 (522)
T ss_pred HHHhhCCc
Confidence 333 3444
No 132
>PF07851 TMPIT: TMPIT-like protein; InterPro: IPR012926 A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this. ; GO: 0016021 integral to membrane
Probab=57.83 E-value=2.4e+02 Score=29.62 Aligned_cols=68 Identities=12% Similarity=0.154 Sum_probs=45.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 005591 390 REAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 459 (689)
Q Consensus 390 ~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr 459 (689)
+.+++..+.++...+.++|.-+. |..+...++.++.. .+++..+.++.+++...+....+.|+-.+.-
T Consensus 25 qKleel~~lQ~~C~ssI~~Qkkr-Lk~L~~sLk~~~~~-~~~e~~~~i~~L~~~Ik~r~~~l~DmEa~LP 92 (330)
T PF07851_consen 25 QKLEELSKLQDKCSSSISHQKKR-LKELKKSLKRCKKS-LSAEERELIEKLEEDIKERRCQLFDMEAFLP 92 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhccC-CChhHHHHHHHHHHHHHHHHhhHHHHHhhCC
Confidence 34444455667777888888775 34444333333332 5667888889999998888888888775543
No 133
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=54.73 E-value=1.5e+02 Score=25.90 Aligned_cols=9 Identities=33% Similarity=0.538 Sum_probs=4.7
Q ss_pred HHHHHhhcC
Q 005591 94 LIYFVQKSA 102 (689)
Q Consensus 94 l~yf~~~~~ 102 (689)
.+..+++++
T Consensus 19 ii~~vr~~~ 27 (115)
T PF10066_consen 19 IIRLVRKRK 27 (115)
T ss_pred HHHHHHHhh
Confidence 344456655
No 134
>PF14248 DUF4345: Domain of unknown function (DUF4345)
Probab=53.77 E-value=95 Score=27.41 Aligned_cols=65 Identities=25% Similarity=0.178 Sum_probs=43.2
Q ss_pred HHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHH
Q 005591 83 IALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACA 150 (689)
Q Consensus 83 ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta 150 (689)
.+-.|+.+++.++|..++.+. .+..+...+.++...|...++.++.-..|+ +..+...++....+
T Consensus 50 ~~G~~~g~Gl~~l~~~~~~~~--~~~al~~l~~~~~~~~lgRlis~~~dG~p~-~~~~~~l~~Elv~~ 114 (124)
T PF14248_consen 50 YGGLYLGLGLLLLWAAFKPEY--RRPALRLLALFIGGGGLGRLISLALDGPPS-PFLWVALIFELVLA 114 (124)
T ss_pred HHHHHHHHHHHHHHHHccHhH--HHHHHHHHHHHHHHHHHHHHHHHHHcCCCc-hHHHHHHHHHHHHH
Confidence 466788888888887765543 444555567778889999999999876554 33334444444333
No 135
>PF02652 Lactate_perm: L-lactate permease; InterPro: IPR003804 L-lactate permease is an integral membrane protein probably involved in L-lactate transport.; GO: 0015129 lactate transmembrane transporter activity, 0015727 lactate transport
Probab=53.67 E-value=57 Score=36.74 Aligned_cols=79 Identities=6% Similarity=0.166 Sum_probs=54.3
Q ss_pred HHHHhhhHHHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHH
Q 005591 74 RYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVS 153 (689)
Q Consensus 74 ~~~~vsd~~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs 153 (689)
++...+-....+..+.+|+.++++...+|...-.|.+.+++++ .++.++.+..+...+ .+...++++++
T Consensus 175 ~l~~~~a~~~~~~~~~ip~~~v~~~~g~k~~r~~~p~~L~~g~--~~~~~~~~~a~~~gp---------el~~i~g~l~~ 243 (522)
T PF02652_consen 175 ELSSMVALQLPVLSLLIPFLMVWLVGGWKGVREVWPFALVAGL--SFAIPQWLVANFLGP---------ELPGILGGLVG 243 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHH--HHHHHHHHHHHHccc---------ccchHHHHHHH
Confidence 3334444555677888999999998888877777888777777 777777776666543 34456666666
Q ss_pred HHHHHHHHHH
Q 005591 154 CITALMLVHI 163 (689)
Q Consensus 154 ~~ta~~l~~~ 163 (689)
+...+.+.++
T Consensus 244 l~~~~~~~r~ 253 (522)
T PF02652_consen 244 LAVLVLFLRF 253 (522)
T ss_pred HHHHHHHHHH
Confidence 6666666664
No 136
>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=52.94 E-value=50 Score=26.95 Aligned_cols=69 Identities=17% Similarity=0.205 Sum_probs=41.9
Q ss_pred HHHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHH
Q 005591 406 MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLI 485 (689)
Q Consensus 406 ~sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~ 485 (689)
|.|.+||-++.+.++...-.+...+.+ ++.+.+.....-|..-- +++ . .-....++|.++++..+.-+
T Consensus 2 L~HRvKN~lavv~ai~~~t~r~~~s~~--~~~~~~~~Rl~ALa~a~-~ll--~-------~~~~~~~~L~~lv~~~l~p~ 69 (83)
T PF07536_consen 2 LNHRVKNLLAVVQAIARQTARSAASVE--EFAEAFSGRLQALARAH-DLL--S-------RSDWEGVSLRDLVEAELAPY 69 (83)
T ss_pred chhHHHHHHHHHHHHHHHHcccCCCHH--HHHHHHHHHHHHHHHHH-HHH--h-------cCCCCCccHHHHHHHHHHhc
Confidence 579999999999999988876544433 22222322222222221 121 1 12234789999999888876
Q ss_pred H
Q 005591 486 K 486 (689)
Q Consensus 486 ~ 486 (689)
.
T Consensus 70 ~ 70 (83)
T PF07536_consen 70 G 70 (83)
T ss_pred c
Confidence 5
No 137
>PRK05415 hypothetical protein; Provisional
Probab=51.85 E-value=2.6e+02 Score=29.54 Aligned_cols=83 Identities=13% Similarity=0.070 Sum_probs=40.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHHHHHHHH---------HHhhhhch---hHHhHHHHHHHHHHhcc
Q 005591 144 IAKMACAFVSCITALMLVHIIPDLLSVKTRELFLKNRADELDR---------EMGLILTQ---EETGRHVRMLTHEIRST 211 (689)
Q Consensus 144 ~~k~~ta~vs~~ta~~l~~~ip~~l~~~~~e~~~~~~a~~l~~---------~~~~~~~~---~~~~~~l~~lt~~i~~~ 211 (689)
..-++.+++..+.+..+++..-.+.+++..+.. ++.+.++-. -.+.+.++ .+..+......+.+...
T Consensus 102 ~~~~~~~~~~~~~~~~~~rE~~~l~rL~~~~~~-r~~a~~l~~~~~~~~a~~~~~~l~~~~~~~~~~~~~~r~~~~~~~~ 180 (341)
T PRK05415 102 GAAVVGALIVLAGLGIVVREWRRLRRLRQRAHL-RDEARALLHSHDVGEARAFCEKLAKQAGIPQLHPALQRWQASLHET 180 (341)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHhcCChhhHHHHHHHHHHHhCCCcccHHHHHHHHhhccc
Confidence 334445555555666667777777777665553 222333221 11111111 12333344555556666
Q ss_pred cChhhHHHHHHHHHHh
Q 005591 212 LDRHTILKTTLVELGR 227 (689)
Q Consensus 212 ld~~~il~~~~~~l~~ 227 (689)
.|..+++.-.-.++..
T Consensus 181 ~~~~e~l~L~e~~vl~ 196 (341)
T PRK05415 181 HNDAELLRLYEREVLP 196 (341)
T ss_pred CCHHHHHHHHHHHhhH
Confidence 6666666555444433
No 138
>COG3462 Predicted membrane protein [Function unknown]
Probab=51.34 E-value=1.2e+02 Score=25.88 Aligned_cols=62 Identities=16% Similarity=0.083 Sum_probs=32.9
Q ss_pred chhHHHHHHHHHHHHhhhhhHhHh-hhccccch----hHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 005591 105 PYRWVLMQFGSFIILCGLTHFISL-WTFTVHSK----AVAVVMTIAKMACAFVSCITALMLVHIIPD 166 (689)
Q Consensus 105 ~~~~~~~~f~~fi~~cg~thl~~i-~~~~~~~~----~~~~~~~~~k~~ta~vs~~ta~~l~~~ip~ 166 (689)
.|-|++.-++|.|...++..+..- +++|+..| +-+..+.++.-+-++++++-.+...-++-.
T Consensus 7 n~~w~ligliavi~~v~li~~~~~gg~~y~~gy~gm~GG~yGm~lImpI~~~vvli~lvvfm~~~~g 73 (117)
T COG3462 7 NFAWLLIGLIAVIAVVGLIPSGFHGGAFYPGGYRGMMGGLYGMWLIMPIFWAVVLIFLVVFMFYILG 73 (117)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccccCcccCCCccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777777766666665544 45655444 112223355555555555544443333333
No 139
>COG4587 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=48.40 E-value=1.2e+02 Score=30.25 Aligned_cols=80 Identities=15% Similarity=0.153 Sum_probs=48.6
Q ss_pred HHHHHHhhhHHHHHHH---hhHHHHHHHHHhhcC--CCchhHHHHHHHHHHHHhhhh-hHhHhhhccccchhHHHHHHHH
Q 005591 72 LVRYQYISDILIALAY---FSIPVELIYFVQKSA--FFPYRWVLMQFGSFIILCGLT-HFISLWTFTVHSKAVAVVMTIA 145 (689)
Q Consensus 72 ~~~~~~vsd~~ia~ay---~~ip~~l~yf~~~~~--~~~~~~~~~~f~~fi~~cg~t-hl~~i~~~~~~~~~~~~~~~~~ 145 (689)
.+|.|..+|....++- |.+|+.++++...-. -++-.|.+.+|..++ +||.+ .+..=+++.-.++...+++++-
T Consensus 103 ~l~~~~a~~~~~~~~~~lp~~~vL~lifa~l~~~~~~~l~~~~l~~~~l~l-a~~~~~~F~i~f~~~~~aFwt~~as~l~ 181 (268)
T COG4587 103 YLFHELAAHLGERASRGLPFLLVLLLIFALLYGAILQFLSPWTLYLFVLAL-ALLFLLRFLIQFTFGLFAFWTERASSLG 181 (268)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhHHhhcCCHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhhccchhhHH
Confidence 4689999999998887 788988888865542 334455555555543 55533 2222244433334445666776
Q ss_pred HHHHHHH
Q 005591 146 KMACAFV 152 (689)
Q Consensus 146 k~~ta~v 152 (689)
|.+=.++
T Consensus 182 ~~~~~l~ 188 (268)
T COG4587 182 KFWWLLY 188 (268)
T ss_pred HHHHHHH
Confidence 7644443
No 140
>COG3159 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.00 E-value=2e+02 Score=27.97 Aligned_cols=64 Identities=19% Similarity=0.342 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHhhhhchhHHh----HHHHHHHHHHhcccChhhHHHHHHHHHHhhcCCCeEEEEccc
Q 005591 177 LKNRADELDREMGLILTQEETG----RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPS 240 (689)
Q Consensus 177 ~~~~a~~l~~~~~~~~~~~~~~----~~l~~lt~~i~~~ld~~~il~~~~~~l~~~l~~~~~~i~l~~ 240 (689)
++++..+++.++..+....... .-+..++..+.+..+.+++++++-....+-++++.+.|.+..
T Consensus 50 ~R~~~~~Le~~l~~L~~~A~~N~~lf~r~~~lq~~Ll~a~sl~d~l~~v~~~~a~~f~l~~a~l~L~~ 117 (218)
T COG3159 50 LRNRIRELEEELAALMENARANERLFYRLHALQLDLLDARSLDDLLRRVDRSWARDFGLAAASLRLFQ 117 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhCCCceEEEEec
Confidence 5566777777766655554443 346778888888889999999999989999999998887654
No 141
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=45.52 E-value=1.7e+02 Score=24.04 Aligned_cols=53 Identities=13% Similarity=0.191 Sum_probs=21.9
Q ss_pred HHHHHHhhhhhhhccHHHHHHHHHHHHHHHHhhhhchhHH-hHHHHHHHHHHhc
Q 005591 158 LMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEET-GRHVRMLTHEIRS 210 (689)
Q Consensus 158 ~~l~~~ip~~l~~~~~e~~~~~~a~~l~~~~~~~~~~~~~-~~~l~~lt~~i~~ 210 (689)
+..+.+++.+.++...-....+...+++++++.+.++-.. ....+.+...+..
T Consensus 12 vLvi~l~~~l~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~~ 65 (90)
T PF06103_consen 12 VLVIFLIKVLKKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVNE 65 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334444444444333223333444555555443333222 3334444444443
No 142
>PF10011 DUF2254: Predicted membrane protein (DUF2254); InterPro: IPR018723 Members of this family of proteins comprises various hypothetical and putative membrane proteins. Their exact function, has not, as yet, been defined.
Probab=45.02 E-value=3.1e+02 Score=29.42 Aligned_cols=106 Identities=12% Similarity=0.146 Sum_probs=54.7
Q ss_pred HHHhhhHHHHHHHhhHHHHHHHHHhhcC------------CCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHH
Q 005591 75 YQYISDILIALAYFSIPVELIYFVQKSA------------FFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVM 142 (689)
Q Consensus 75 ~~~vsd~~ia~ay~~ip~~l~yf~~~~~------------~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~ 142 (689)
+-.++-.+|+++.|+..++++-+-.-.. |-..+++++.|.+=++.| +.=+..+-.-...+.|
T Consensus 51 Lstia~smitv~~~~fSi~~val~~assq~sPR~l~~f~~d~~~q~vLg~Figtfvy~-l~~l~~i~~~~~~~~p----- 124 (371)
T PF10011_consen 51 LSTIAGSMITVTGFVFSITLVALQLASSQFSPRLLRNFMRDRVTQVVLGTFIGTFVYS-LLVLIAIRSGDYGSVP----- 124 (371)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcccchHHHHHHHhCchHHHHHHHHHHHHHHH-HHHHHHccccccccCc-----
Confidence 3567888888998888887776543322 445677777776644344 2223333222221122
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhhccHHHHHHHHHHHHHH
Q 005591 143 TIAKMACAFVSCITALMLVHIIPDLLSVKTRELFLKNRADELDR 186 (689)
Q Consensus 143 ~~~k~~ta~vs~~ta~~l~~~ip~~l~~~~~e~~~~~~a~~l~~ 186 (689)
.+.-.++.++.++..+.++.+|-.+...-......++...+..+
T Consensus 125 ~~~~~~a~~l~i~~v~~li~fI~~i~~~iqv~~ii~~i~~~~~~ 168 (371)
T PF10011_consen 125 RLSVFIALALAILSVVLLIYFIHHIARSIQVSNIIARIEEDARK 168 (371)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 12223333444445555666665555544444444444444433
No 143
>PF10131 PTPS_related: 6-pyruvoyl-tetrahydropterin synthase related domain; membrane protein; InterPro: IPR018776 This entry is found in various bacterial and archaeal hypothetical membrane proteins, as well as in tetratricopeptide TPR_2 repeat protein. Its function has not yet been established, though it shows similarity to 6-pyruvoyl-tetrahydropterin synthase.
Probab=43.85 E-value=1.8e+02 Score=33.75 Aligned_cols=56 Identities=21% Similarity=0.315 Sum_probs=34.4
Q ss_pred HHHHHhhhHHHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhh
Q 005591 73 VRYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLW 129 (689)
Q Consensus 73 ~~~~~vsd~~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~ 129 (689)
...+.=+++--++|+..+|+.+.+..+..+..+.++++.+..++ .+..+||++..+
T Consensus 69 ~~~y~rgni~e~lA~~llPlvll~~~~~~~~~~~r~~~~lAl~~-all~lsHll~~l 124 (616)
T PF10131_consen 69 RNIYWRGNIPETLAFALLPLVLLFLYRFIKKRKYRYWILLALSM-ALLALSHLLSTL 124 (616)
T ss_pred HHHHhcchHHHHHHHHHHHHHHHHHHHHHhcCCchhHHHHHHHH-HHHHHHhHHHHH
Confidence 34455577788889999999886655544333455555444443 355677855443
No 144
>PF07495 Y_Y_Y: Y_Y_Y domain; InterPro: IPR011123 This region is mostly found at the end of the beta propellers (IPR011110 from INTERPRO) in a family of two component regulators. However they are also found tandemly repeated in Q891H4 from SWISSPROT without other signal conduction domains being present. It is named after the conserved tyrosines found in the alignment. The exact function is not known.; PDB: 3V9F_D 3VA6_B 3OTT_B 4A2M_D 4A2L_B.
Probab=42.93 E-value=33 Score=26.16 Aligned_cols=44 Identities=23% Similarity=0.359 Sum_probs=30.2
Q ss_pred CCCCCceEEeeccccccCccc--------cCCCCcCcccceEEEEEeecCCC
Q 005591 297 YVPPDIVAVRVPLLHLSNFQI--------NDWPELPAKSYAVMVLMLPTDGG 340 (689)
Q Consensus 297 ~~~~~~~~i~~pl~~~~~~~~--------~~~~~l~~~~~~i~vl~~~~~~~ 340 (689)
+..+....+++.|.+.++-|. ..+++|++|.|.+.|.+....+.
T Consensus 2 y~~~~~~~Y~Y~l~g~d~~W~~~~~~~~~~~~~~L~~G~Y~l~V~a~~~~~~ 53 (66)
T PF07495_consen 2 YSNPENIRYRYRLEGFDDEWITLGSYSNSISYTNLPPGKYTLEVRAKDNNGK 53 (66)
T ss_dssp TTCCTTEEEEEEEETTESSEEEESSTS-EEEEES--SEEEEEEEEEEETTS-
T ss_pred CCCCCceEEEEEEECCCCeEEECCCCcEEEEEEeCCCEEEEEEEEEECCCCC
Confidence 345566777777766655433 35788999999999999888773
No 145
>PF14965 BRI3BP: Negative regulator of p53/TP53
Probab=42.69 E-value=1.5e+02 Score=27.88 Aligned_cols=35 Identities=14% Similarity=0.237 Sum_probs=22.5
Q ss_pred HHhhhhhhhccHHHHHHHHHHHHHHHHhhhhchhH
Q 005591 162 HIIPDLLSVKTRELFLKNRADELDREMGLILTQEE 196 (689)
Q Consensus 162 ~~ip~~l~~~~~e~~~~~~a~~l~~~~~~~~~~~~ 196 (689)
.++-.....+.+.-.++++.+.|++++++++++++
T Consensus 142 ~~l~g~~gs~~~~~~LE~kv~~LE~qvr~L~~R~~ 176 (177)
T PF14965_consen 142 CFLTGLVGSYWRSASLEAKVRHLERQVRELNIRQR 176 (177)
T ss_pred HHHccccCCCCCcccHHHHHHHHHHHHHHHHHHhc
Confidence 34444444444445677788888888888877654
No 146
>TIGR00799 mtp Golgi 4-transmembrane spanning transporter. The proteins of the MET family have 4 TMS regions and are located in late endosomal or lysosomal membranes. Substrates of the mouse MTP transporter include thymidine, both nucleoside and nucleobase analogues, antibiotics, anthracyclines, ionophores and steroid hormones. MET transporters may be involved in the subcellular compartmentation of steroid hormones and other compounds.Drug sensitivity by mouse MET was regulated by compounds that inhibit lysosomal function, interface with intracellular cholesterol transport, or modulate the multidrug resistance phenotype of mammalian cells. Thus, MET family members may compartmentalize diverse hydrophobic molecules, thereby affecting cellular drug sensitivity,nucleoside/nucleobase availability and steroid hormone responses.
Probab=42.13 E-value=2e+02 Score=28.24 Aligned_cols=88 Identities=22% Similarity=0.296 Sum_probs=54.1
Q ss_pred HHHHHhhhHHHHHHHhhHHHHHHHHHhhcC-CCchhHHHHHHHHHHHHhhhhhHhHhhh-c-------------cccchh
Q 005591 73 VRYQYISDILIALAYFSIPVELIYFVQKSA-FFPYRWVLMQFGSFIILCGLTHFISLWT-F-------------TVHSKA 137 (689)
Q Consensus 73 ~~~~~vsd~~ia~ay~~ip~~l~yf~~~~~-~~~~~~~~~~f~~fi~~cg~thl~~i~~-~-------------~~~~~~ 137 (689)
.--+++|.++..-+.|.|.+.+++++-+++ ..-+.....++.-|+ +| +.|+++.+. + |. -|
T Consensus 56 ~ia~~~ss~~~~~~l~~~slsll~gvI~~r~~~l~pfl~~Qi~D~~-~c-ll~~~g~yie~pa~l~~~~~~~~~~l--iP 131 (258)
T TIGR00799 56 RIADLYSSFLLINALFIISVSLLMGVVKNREKYLYPFLSLQIMDFL-LC-LLTLLGSYIELPAYLKLARPRPGPSK--IP 131 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceeeHHHHHHHHHHH-HH-HHHHhhhhhcchhhhhhccccCcccc--ch
Confidence 455788887777788999999999976665 344555666677663 23 344554443 1 11 12
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 005591 138 VAVVMTIAKMACAFVSCITALMLVHIIPDLL 168 (689)
Q Consensus 138 ~~~~~~~~k~~ta~vs~~ta~~l~~~ip~~l 168 (689)
+. -..+.--..++.||++....+|..+
T Consensus 132 Ff----clQifDF~Ls~Lta~ss~~ylp~y~ 158 (258)
T TIGR00799 132 LM----TLQLLDFCLSILTLCSSYMEVPTYL 158 (258)
T ss_pred HH----HHHHHHHHHHHHHHhhhheechHHH
Confidence 11 1134444577888888888787543
No 147
>PF15449 Retinal: Retinal protein
Probab=41.29 E-value=5.6e+02 Score=31.27 Aligned_cols=46 Identities=20% Similarity=0.319 Sum_probs=30.8
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhh
Q 005591 511 DEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLL 585 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~i 585 (689)
-..+|.++|..|=.-|..|...|. .+ .-+.-+|.|+|.+.|-+...
T Consensus 323 ~de~llr~l~~le~~a~g~~~p~~---------~~--------------------~~L~SEDSGiGadneS~~~~ 368 (1287)
T PF15449_consen 323 VDERLLRALGQLESLASGHGDPGV---------QD--------------------LPLCSEDSGIGADNESVQSV 368 (1287)
T ss_pred HHHHHHHHHHHHHHHhccCCCCCC---------CC--------------------CccccccccCCccchhhhhh
Confidence 455777888777777777776551 11 45666899999887765443
No 148
>KOG0355 consensus DNA topoisomerase type II [Chromatin structure and dynamics]
Probab=41.28 E-value=41 Score=39.10 Aligned_cols=63 Identities=21% Similarity=0.245 Sum_probs=41.2
Q ss_pred cHHHHHHHHHHHHHHHhh-cCCCCcEEEEEEeecCCCCCCCCCCCcCccCCCCceEEEEEEEecCCCCCCCCh-------
Q 005591 511 DEKRLMQTILNIVGNAVK-FTKEGYVSIIASVAKPESLSDWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDI------- 582 (689)
Q Consensus 511 D~~~l~qvl~nLl~NAik-~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~------- 582 (689)
-..-+.+|+.+++.||.+ -.+++.-++.+....+. -.++|.|||.|||-+..
T Consensus 50 ~~pGl~ki~dEilvNaadk~rd~~m~~i~v~i~~e~--------------------~~isv~nnGkGIPv~~H~~ek~yv 109 (842)
T KOG0355|consen 50 YVPGLYKIFDEILVNAADKQRDPKMNTIKVTIDKEK--------------------NEISVYNNGKGIPVTIHKVEKVYV 109 (842)
T ss_pred cCCcHHHHHHHHhhcccccccCCCcceeEEEEccCC--------------------CEEEEEeCCCcceeeecccccccc
Confidence 344588999999999998 33444444444443333 47999999999987654
Q ss_pred -hhhhcCCcccC
Q 005591 583 -PLLFTKFAQSR 593 (689)
Q Consensus 583 -~~if~~f~~~~ 593 (689)
+-+|...+++.
T Consensus 110 pelifg~Lltss 121 (842)
T KOG0355|consen 110 PELIFGNLLTSS 121 (842)
T ss_pred hHHHHhhhhhcc
Confidence 33555555543
No 149
>PF03591 AzlC: AzlC protein; InterPro: IPR011606 Some proteins in this entry are encoded by a gene, which is a part of the azl operon. This operon is involved in branched-chain amino acid transport []. Overexpression of this gene results in resistance to a leucine analogue, 4-azaleucine. The protein has 5 potential transmembrane motifs.
Probab=40.89 E-value=2.8e+02 Score=25.19 Aligned_cols=48 Identities=17% Similarity=0.418 Sum_probs=36.5
Q ss_pred HHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccc
Q 005591 83 IALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTV 133 (689)
Q Consensus 83 ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~ 133 (689)
|+++|+.+++..+...... -|.|....+...++..|..|++.+-.+.-
T Consensus 3 i~lg~~~~G~~fG~la~~~---G~~~~~~~~mS~lvfaGa~Qf~~~~l~~~ 50 (143)
T PF03591_consen 3 IALGYIPFGIAFGVLAVEA---GFSWWEAILMSLLVFAGAAQFVAVGLLAA 50 (143)
T ss_pred chHHHHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHhhHHHHHHHHHHHc
Confidence 4678999998888766443 36666666788888999999998876543
No 150
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=39.87 E-value=1.3e+02 Score=23.03 Aligned_cols=15 Identities=13% Similarity=0.178 Sum_probs=6.8
Q ss_pred HHHHHHHHhhhhchh
Q 005591 181 ADELDREMGLILTQE 195 (689)
Q Consensus 181 a~~l~~~~~~~~~~~ 195 (689)
..+++++++.++++.
T Consensus 50 ~~~~~k~l~~le~e~ 64 (68)
T PF06305_consen 50 IRRLRKELKKLEKEL 64 (68)
T ss_pred HHHHHHHHHHHHHHH
Confidence 444455444444433
No 151
>PF06580 His_kinase: Histidine kinase; InterPro: IPR010559 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 family represents a region within bacterial histidine kinase enzymes. Two-component signal transduction systems such as those mediated by histidine kinase are integral parts of bacterial cellular regulatory processes, and are used to regulate the expression of genes involved in virulence. Members of this family often contain IPR003594 from INTERPRO and/or IPR003660 from INTERPRO.; GO: 0000155 two-component sensor activity, 0000160 two-component signal transduction system (phosphorelay), 0016021 integral to membrane
Probab=39.53 E-value=1.7e+02 Score=23.71 Aligned_cols=60 Identities=13% Similarity=0.108 Sum_probs=36.3
Q ss_pred HHHhhchHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccceeeeHHHHHHHHHHHHH
Q 005591 407 NHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIK 486 (689)
Q Consensus 407 sHelr~PL~~I~~~~~~L~~~~~~~e~~~~l~~i~~~~~~l~~li~~ll~~sr~~~~~~~l~~~~~~L~~ll~~~~~~~~ 486 (689)
.|-+-|-|++|..++.. ..+...+++..+.++-|..- ......+.+.+-++.+..++.
T Consensus 11 PHFl~NtLn~I~~l~~~-------------------~~~~~~~~i~~ls~~lRy~l---~~~~~~v~l~~El~~i~~Yl~ 68 (82)
T PF06580_consen 11 PHFLFNTLNSISWLARI-------------------DPEKASEMILSLSDLLRYSL---SSKEEFVTLEEELEFIENYLE 68 (82)
T ss_pred hHHHHHHHHHHHHHHHc-------------------CHHHHHHHHHHHHHHHHHHh---CCCCCeeeHHHHHHHHHHHHH
Confidence 79999999999887332 13333333333333333221 222336889999888888877
Q ss_pred hh
Q 005591 487 PV 488 (689)
Q Consensus 487 ~~ 488 (689)
-.
T Consensus 69 i~ 70 (82)
T PF06580_consen 69 IQ 70 (82)
T ss_pred HH
Confidence 54
No 152
>PF11177 DUF2964: Protein of unknown function (DUF2964); InterPro: IPR021347 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=38.02 E-value=1.2e+02 Score=23.34 Aligned_cols=29 Identities=38% Similarity=0.519 Sum_probs=24.4
Q ss_pred chhHHHHHHHHHHHHhhhhhHhHhhhccc
Q 005591 105 PYRWVLMQFGSFIILCGLTHFISLWTFTV 133 (689)
Q Consensus 105 ~~~~~~~~f~~fi~~cg~thl~~i~~~~~ 133 (689)
++|-++..++.||-+.|+.-.+..+.+-.
T Consensus 5 ~~RivlAtiavFiaLagl~~~I~GlLfD~ 33 (62)
T PF11177_consen 5 EYRIVLATIAVFIALAGLAAVIHGLLFDE 33 (62)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhhhhhccc
Confidence 57889999999999999888888877763
No 153
>PF10966 DUF2768: Protein of unknown function (DUF2768); InterPro: IPR020076 This entry contains proteins with no known function.
Probab=34.46 E-value=72 Score=24.07 Aligned_cols=36 Identities=22% Similarity=0.303 Sum_probs=24.6
Q ss_pred HHHHHHHhhHHHHHHHHHhhc-CCCchhHHHHHHHHHH
Q 005591 81 ILIALAYFSIPVELIYFVQKS-AFFPYRWVLMQFGSFI 117 (689)
Q Consensus 81 ~~ia~ay~~ip~~l~yf~~~~-~~~~~~~~~~~f~~fi 117 (689)
.+.++..+.|...+.|+.|++ +..-++++.. +.||+
T Consensus 5 S~~~iglMfisv~~i~~sR~Klk~~~lk~i~~-~vAy~ 41 (58)
T PF10966_consen 5 SFGAIGLMFISVILIYFSRYKLKGKFLKFIVS-LVAYI 41 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhChHHHHHHH-HHHHH
Confidence 356777888888899999865 4435666666 44553
No 154
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=33.29 E-value=5.1e+02 Score=25.94 Aligned_cols=37 Identities=24% Similarity=0.363 Sum_probs=27.0
Q ss_pred ceEEEEEeecCCCCccccchHHHHHHHHHHHHHHHHHH
Q 005591 328 YAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHA 365 (689)
Q Consensus 328 ~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~aval~~a 365 (689)
..+|.+++...+ ..|+.+|+-+.+-.|..++.-+.+.
T Consensus 119 ~RLGTl~l~r~~-~~F~~dDliLaEy~aTVVG~Eilr~ 155 (251)
T TIGR02787 119 ERLGTLILARSD-KEFNDDDLVLAEYAATVVGMELLRA 155 (251)
T ss_pred ceeEEEEEEEcC-CCCCcccchhhhhHhHHHHHHHHHH
Confidence 347777776643 4799999988888888887766443
No 155
>PF10086 DUF2324: Putative membrane peptidase family (DUF2324); InterPro: IPR011397 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are predicted to be integral membrane proteins (with several transmembrane segments).
Probab=32.53 E-value=1.8e+02 Score=28.78 Aligned_cols=37 Identities=11% Similarity=0.283 Sum_probs=22.9
Q ss_pred HhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhh
Q 005591 87 YFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLT 123 (689)
Q Consensus 87 y~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~t 123 (689)
.+.+|+.+.++.+||+....+..++=..+|+++....
T Consensus 2 ~~~~pi~l~~~~rk~~~~~~~~f~~Ga~~F~v~~~vl 38 (223)
T PF10086_consen 2 SILLPILLFIYFRKRKKISWKPFILGALVFFVFAQVL 38 (223)
T ss_pred eehHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHH
Confidence 3578988887777776555555554445555555444
No 156
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=32.45 E-value=3.4e+02 Score=31.38 Aligned_cols=22 Identities=18% Similarity=0.175 Sum_probs=10.5
Q ss_pred hHHHHHHHhhHHHHHHHHHhhc
Q 005591 80 DILIALAYFSIPVELIYFVQKS 101 (689)
Q Consensus 80 d~~ia~ay~~ip~~l~yf~~~~ 101 (689)
|.-|++-+.+=.+..+++.++.
T Consensus 376 ~~~~~~~~l~s~~~~~~~l~~~ 397 (700)
T COG1480 376 NSEIALIALLSSFSALVLLRKM 397 (700)
T ss_pred hHHHHHHHHHHHHHHHHHHhhh
Confidence 3334444444445555555543
No 157
>PRK09695 glycolate transporter; Provisional
Probab=30.96 E-value=1.5e+02 Score=33.71 Aligned_cols=72 Identities=11% Similarity=0.146 Sum_probs=50.3
Q ss_pred hHHHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHH
Q 005591 80 DILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALM 159 (689)
Q Consensus 80 d~~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~ 159 (689)
-....+-.+.+|+.+++++-..|...-.|-+.+++++ .++.++++..+.+.+ .+...+.++++++..+.
T Consensus 196 ~~~l~~~~~~ipf~lv~~~~g~k~~~~~~p~~L~~g~--~f~~~~~~~a~~~gp---------eL~~ii~~lv~l~~~~l 264 (560)
T PRK09695 196 GRQLPFLSVLVPFWLVAMMDGWKGVKETWPAALVAGG--SFAVTQFFTSNYIGP---------ELPDITSALVSIVSLAL 264 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH--HHHHHHHHHHHHcCc---------chHHHHHHHHHHHHHHH
Confidence 3344455688999999888766666667777778887 778888877776653 44566677777666666
Q ss_pred HHH
Q 005591 160 LVH 162 (689)
Q Consensus 160 l~~ 162 (689)
+.+
T Consensus 265 ~~k 267 (560)
T PRK09695 265 FLK 267 (560)
T ss_pred HHH
Confidence 666
No 158
>PF06211 BAMBI: BMP and activin membrane-bound inhibitor (BAMBI) N-terminal domain; InterPro: IPR009345 This family consists of several eukaryotic BMP and activin membrane-bound inhibitor (BAMBI) proteins. Members of the transforming growth factor-beta (TGF-beta) superfamily, including TGF-beta, bone morphogenetic proteins (BMPs), activins and nodals, are vital for regulating growth and differentiation. BAMBI is related to TGF-beta-family type I receptors but lacks an intracellular kinase domain. BAMBI is co-expressed with the ventralising morphogen BMP4 during Xenopus embryogenesis and requires BMP signalling for its expression. The protein stably associates with TGF-beta-family receptors and inhibits BMP and activin as well as TGF-beta signalling [].
Probab=30.84 E-value=44 Score=28.28 Aligned_cols=28 Identities=21% Similarity=0.304 Sum_probs=21.5
Q ss_pred chhhHHHHHHHHHHHHHhhhcCCCCCCCcc
Q 005591 33 CLISCFTLYSLAILSYWLRQLLDMESCDCI 62 (689)
Q Consensus 33 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (689)
+++|.|.++-|-..+.+.+.++. ||+|+
T Consensus 3 ~~~s~w~qlelc~m~~lltkGEI--RCYCn 30 (107)
T PF06211_consen 3 SFISIWLQLELCAMAVLLTKGEI--RCYCN 30 (107)
T ss_pred chhhHHHHHHHHHHHHHHhcCce--EEecC
Confidence 56788888777777777777776 88887
No 159
>PTZ00271 hypoxanthine-guanine phosphoribosyltransferase; Provisional
Probab=30.39 E-value=1.1e+02 Score=29.93 Aligned_cols=20 Identities=0% Similarity=0.041 Sum_probs=14.2
Q ss_pred EccHHHHHHHHHHHHHHHhh
Q 005591 509 VGDEKRLMQTILNIVGNAVK 528 (689)
Q Consensus 509 ~~D~~~l~qvl~nLl~NAik 528 (689)
.-+...+.+.+..|-....+
T Consensus 27 lis~e~I~~~i~~LA~~I~~ 46 (211)
T PTZ00271 27 LVTQEQVWAATAKCAKKIAE 46 (211)
T ss_pred ecCHHHHHHHHHHHHHHHHH
Confidence 34788888888877766555
No 160
>PRK15423 hypoxanthine phosphoribosyltransferase; Provisional
Probab=30.32 E-value=1.2e+02 Score=28.87 Aligned_cols=19 Identities=11% Similarity=0.050 Sum_probs=13.6
Q ss_pred ccHHHHHHHHHHHHHHHhh
Q 005591 510 GDEKRLMQTILNIVGNAVK 528 (689)
Q Consensus 510 ~D~~~l~qvl~nLl~NAik 528 (689)
-++..+.+.+.+|..-..+
T Consensus 9 ~~~~~i~~~i~~lA~~I~~ 27 (178)
T PRK15423 9 IPEAEIKARIAELGRQITE 27 (178)
T ss_pred cCHHHHHHHHHHHHHHHHH
Confidence 3777788888777766655
No 161
>COG4377 Predicted membrane protein [Function unknown]
Probab=30.08 E-value=95 Score=29.72 Aligned_cols=37 Identities=14% Similarity=0.322 Sum_probs=26.3
Q ss_pred HHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHh
Q 005591 84 ALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILC 120 (689)
Q Consensus 84 a~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~c 120 (689)
|+|...+|+...++.+|+-+...+-+++-..+|.++.
T Consensus 15 aiall~~pIG~i~w~krky~~~l~v~g~GA~~Ffvf~ 51 (258)
T COG4377 15 AIALLAFPIGSIWWAKRKYQINLAVLGLGAVAFFVFS 51 (258)
T ss_pred HHHHHHHHHHHHHHHHHHhcchHHHHhhhHHHHHHHH
Confidence 7788889998888887777766666665555555543
No 162
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=29.49 E-value=3.4e+02 Score=24.93 Aligned_cols=44 Identities=14% Similarity=0.125 Sum_probs=26.3
Q ss_pred HHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhH
Q 005591 82 LIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHF 125 (689)
Q Consensus 82 ~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl 125 (689)
+|+++.+.+-+.++.+.|.|.+-+||=....++.++++-+..+.
T Consensus 22 ~i~~ll~~l~~~~~~Y~r~r~~tKyRDL~II~~L~ll~l~giq~ 65 (149)
T PF11694_consen 22 LIIILLLVLIFFFIKYLRNRLDTKYRDLSIIALLLLLLLIGIQY 65 (149)
T ss_pred HHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHHHHHHH
Confidence 44445555555566666777777787777666665555444443
No 163
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=29.20 E-value=6.8e+02 Score=26.14 Aligned_cols=82 Identities=15% Similarity=0.169 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHHHHHHHH
Q 005591 378 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLET-----DLTPEQRVMIETVLKSSNLLTTLVD 452 (689)
Q Consensus 378 L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I~~~~~~L~~~-----~~~~e~~~~l~~i~~~~~~l~~li~ 452 (689)
+.|.++.++...+...+.-.++.+=...+..|+...+.....+.+..+.. ++-...+.++..++..++.+..-+.
T Consensus 139 ~~EEn~~lqlqL~~l~~e~~Ekeeesq~LnrELaE~layqq~L~~eyQatf~eq~~ml~kRQ~yI~~LEsKVqDLm~Eir 218 (401)
T PF06785_consen 139 LREENQCLQLQLDALQQECGEKEEESQTLNRELAEALAYQQELNDEYQATFVEQHSMLDKRQAYIGKLESKVQDLMYEIR 218 (401)
T ss_pred HHHHHHHHHHhHHHHHHHHhHhHHHHHHHHHHHHHHHHHHHHHHHHhhcccccchhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444333333333333333333445556655555555554444432 1222334566777777777777777
Q ss_pred HHHHHhh
Q 005591 453 DVLDLSR 459 (689)
Q Consensus 453 ~ll~~sr 459 (689)
+++.+..
T Consensus 219 nLLQle~ 225 (401)
T PF06785_consen 219 NLLQLES 225 (401)
T ss_pred HHHHhhh
Confidence 7776654
No 164
>PF11152 DUF2930: Protein of unknown function (DUF2930); InterPro: IPR021325 This family of proteins has no known function.
Probab=29.17 E-value=1.6e+02 Score=28.38 Aligned_cols=73 Identities=18% Similarity=0.149 Sum_probs=49.8
Q ss_pred CCchhHHHhcccCceEecCCCcchh-hhcccccCCCCCceEEeeccccccCccccCCCCcCcccceEEEEEeecCCCCcc
Q 005591 265 NLPIVTDVFNSAQAMRLPYNCPLAR-IRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKW 343 (689)
Q Consensus 265 ~~~~v~~v~~~~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~i~~pl~~~~~~~~~~~~~l~~~~~~i~vl~~~~~~~~~w 343 (689)
..+.+.+++++.+.+.+.+..-.+. ..+. ....+..+.+..|+.. -|++++..+.+|.|
T Consensus 120 ~g~i~~~~~~~~~~~yL~nl~lyPGr~Ef~--~lP~ntq~VlvqP~g~------------------~G~lvlgs~~~R~f 179 (195)
T PF11152_consen 120 PGPICQRAMESGKLIYLVNLKLYPGRVEFD--YLPENTQSVLVQPLGQ------------------NGVLVLGSNSPRAF 179 (195)
T ss_pred hHHHHHHHHhcCCceeccccccCCCchhhh--hcCCCCcEEEEEEcCC------------------CeEEEEeeCCcccc
Confidence 4567888999988887776544321 2211 2223445556666421 17888899999999
Q ss_pred ccchHHHHHHHHHH
Q 005591 344 RDHELELIDVVADQ 357 (689)
Q Consensus 344 ~~~e~~ll~~va~~ 357 (689)
+..|..++..+|+.
T Consensus 180 t~~D~~Wi~~iA~K 193 (195)
T PF11152_consen 180 TKSDEAWIAGIADK 193 (195)
T ss_pred CHHHHHHHHHHHHh
Confidence 99999999999875
No 165
>PF10856 DUF2678: Protein of unknown function (DUF2678); InterPro: IPR022564 This family of proteins has no known function.
Probab=29.03 E-value=96 Score=26.95 Aligned_cols=28 Identities=14% Similarity=0.361 Sum_probs=13.4
Q ss_pred HHHhhHHHHHHHHHhhcCCC--chhHHHHH
Q 005591 85 LAYFSIPVELIYFVQKSAFF--PYRWVLMQ 112 (689)
Q Consensus 85 ~ay~~ip~~l~yf~~~~~~~--~~~~~~~~ 112 (689)
+...+++..++.+..|+.|+ +|||.+..
T Consensus 68 I~l~~~s~~lLI~WYR~gdl~Pkfr~li~~ 97 (118)
T PF10856_consen 68 ILLICISAILLIFWYRQGDLDPKFRYLIYY 97 (118)
T ss_pred HHHHHHHHHhheeehhcCCCChhHHHHHHH
Confidence 34444444444444444444 36665543
No 166
>PTZ00127 cytochrome c oxidase assembly protein; Provisional
Probab=28.41 E-value=6.9e+02 Score=27.21 Aligned_cols=34 Identities=26% Similarity=0.266 Sum_probs=16.4
Q ss_pred HhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 125 FISLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLV 161 (689)
Q Consensus 125 l~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~l~ 161 (689)
++++++++. .+....+.+-.+.|.+.+...+.++
T Consensus 365 ~LGi~tv~~---~lP~~la~~H~~gA~lLl~~~~~l~ 398 (403)
T PTZ00127 365 LLGITTLLS---QVPVHLAVAHQFGALVLLTTLLRLC 398 (403)
T ss_pred HHHHHHHHh---hchHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555442 2223345556666665555544443
No 167
>COG4097 Predicted ferric reductase [Inorganic ion transport and metabolism]
Probab=28.25 E-value=3.7e+02 Score=28.76 Aligned_cols=50 Identities=18% Similarity=0.208 Sum_probs=34.2
Q ss_pred HHHHHHhhHHHHHHHHHhh-cCCCchhHHHHHHHHHHHHhhhhhHhHhhhcc
Q 005591 82 LIALAYFSIPVELIYFVQK-SAFFPYRWVLMQFGSFIILCGLTHFISLWTFT 132 (689)
Q Consensus 82 ~ia~ay~~ip~~l~yf~~~-~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~ 132 (689)
--..+|..|++.++....+ -+--++||+- ...+.+.+-|+-|-..+.-+-
T Consensus 130 G~~~~yi~~~lllV~~l~~~i~Ye~WR~~H-~lm~vvYilg~~H~~~l~~~~ 180 (438)
T COG4097 130 GEWSAYIFIGLLLVWRLWLNIGYENWRIAH-RLMAVVYILGLLHSYGLLNYL 180 (438)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCchhHHHHH-HHHHHHHHHHHHHHHHhcchh
Confidence 3456788888888874443 3444677777 355556688999988886643
No 168
>COG4420 Predicted membrane protein [Function unknown]
Probab=28.01 E-value=5.4e+02 Score=24.58 Aligned_cols=21 Identities=0% Similarity=-0.013 Sum_probs=9.8
Q ss_pred hHhHhhhccccchhHHHHHHH
Q 005591 124 HFISLWTFTVHSKAVAVVMTI 144 (689)
Q Consensus 124 hl~~i~~~~~~~~~~~~~~~~ 144 (689)
.+..+.+..+..||+.++-.+
T Consensus 75 Nl~~~~~~~wDpyPFi~LnLl 95 (191)
T COG4420 75 NLFLVPGLAWDPYPFILLNLL 95 (191)
T ss_pred HHhhhcCCcCCCccHHHHHHH
Confidence 333333333345677654443
No 169
>TIGR00346 azlC 4-azaleucine resistance probable transporter AzlC. Overexpression of this gene results in resistance to a leucine analog, 4-azaleucine. The protein has 5 potential transmembrane motifs. It has been inferred, but not experimentally demonstrated, to be part of a branched-chain amino acid transport system. Commonly found in association with azlD.
Probab=27.97 E-value=4.7e+02 Score=25.82 Aligned_cols=49 Identities=14% Similarity=0.268 Sum_probs=36.5
Q ss_pred HHHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhcc
Q 005591 81 ILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFT 132 (689)
Q Consensus 81 ~~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~ 132 (689)
.=|+++|+.+++..+....+.- +.|....+...++..|..|++.+-.+.
T Consensus 10 lPi~lgyip~G~afGila~~~G---ls~~~a~lmS~~vfAGaaQf~~v~ll~ 58 (221)
T TIGR00346 10 IPILAGFLFLGIAYGILMVQLG---FDYKYPLFMSLFIYAGSVEFVAATLLS 58 (221)
T ss_pred ChHHHHHHHHHHHHHHHHHHCC---CCHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence 3468899999999998775543 555555577778899999988875543
No 170
>PF05884 ZYG-11_interact: Interactor of ZYG-11; InterPro: IPR008574 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=27.73 E-value=3.3e+02 Score=28.06 Aligned_cols=63 Identities=19% Similarity=0.239 Sum_probs=34.4
Q ss_pred HHHHHHHhhHHHHHHHHHhhcCCCch--hHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHH
Q 005591 81 ILIALAYFSIPVELIYFVQKSAFFPY--RWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAK 146 (689)
Q Consensus 81 ~~ia~ay~~ip~~l~yf~~~~~~~~~--~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k 146 (689)
..+-++|+.+|+..-|...++. -.. ++...++.+ ++=|.-+=...--.|.++.|+.++..++-
T Consensus 139 gAaila~iviP~~~~y~ln~~~-~s~~~~R~~ll~~a--~~QGvL~Ga~ls~~~l~sePf~~LT~iv~ 203 (299)
T PF05884_consen 139 GAAILAYIVIPLIAYYYLNKED-GSLAESRLALLFFA--LFQGVLVGAGLSHLYLSSEPFIALTPIVS 203 (299)
T ss_pred hHHHHHHHHHHHHHHhhccccc-CchHHHHHHHHHHH--HHHHHHHHHHhhcccccCCcHHHHHHHHH
Confidence 4456799999998888665533 222 223222333 25555444444345666677755444433
No 171
>PF05449 DUF754: Protein of unknown function (DUF754); InterPro: IPR008473 This entry is represented by Bacteriophage D3, Orf90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=27.59 E-value=2.6e+02 Score=22.89 Aligned_cols=45 Identities=16% Similarity=0.161 Sum_probs=27.2
Q ss_pred HHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhh
Q 005591 84 ALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWT 130 (689)
Q Consensus 84 a~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~ 130 (689)
|+.+-.|-+-+++| +|++-.+|+....++..+++.-...-+.++.
T Consensus 4 a~~c~~i~lrl~~y--rr~garhr~~~s~lA~lli~~~~~~~i~~l~ 48 (83)
T PF05449_consen 4 ALICLAIALRLMFY--RRNGARHRPWISWLAYLLIVAYGSVPIRILF 48 (83)
T ss_pred HHHHHHHHHHHhee--ecCCCccCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 55677777777766 5566677777776666655443333444433
No 172
>PRK02975 putative common antigen polymerase; Provisional
Probab=26.80 E-value=1.9e+02 Score=30.38 Aligned_cols=39 Identities=23% Similarity=0.511 Sum_probs=25.3
Q ss_pred HHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhh
Q 005591 82 LIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTH 124 (689)
Q Consensus 82 ~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~th 124 (689)
+.=.-||.||..++.+..|-. +-.|.+.+.++. +||..+
T Consensus 158 LKRFFYFfIPAmLv~yFL~~t--k~~Wl~fL~~tv--~FG~lt 196 (450)
T PRK02975 158 LKRFFYFFIPAMLVVYFLRQD--SKAWLFFLVSTV--AFGLLT 196 (450)
T ss_pred HHHHHHHHHHHHHHHHhhccc--HHHHHHHHHHHH--HHhcEE
Confidence 334569999999887665443 367777655554 666443
No 173
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=25.98 E-value=7.1e+02 Score=25.28 Aligned_cols=25 Identities=16% Similarity=0.284 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHhhhhchhHHhHHH
Q 005591 177 LKNRADELDREMGLILTQEETGRHV 201 (689)
Q Consensus 177 ~~~~a~~l~~~~~~~~~~~~~~~~l 201 (689)
+.+..++|++|...++.+....+.+
T Consensus 74 l~~en~~L~~e~~~l~~~~~~~~~l 98 (276)
T PRK13922 74 LREENEELKKELLELESRLQELEQL 98 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3334566666666655555544333
No 174
>TIGR00795 lctP L-lactate transport. The only characterized member of this family, from E. coli, appears to catalyze lactate:H+ uptake. Members of this family have 12 probable TMS.
Probab=25.80 E-value=2.3e+02 Score=32.16 Aligned_cols=69 Identities=12% Similarity=0.201 Sum_probs=46.9
Q ss_pred HHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 84 ALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHI 163 (689)
Q Consensus 84 a~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~l~~~ 163 (689)
.+..+.+|+.+++++-+.|...-.|.+.++++. .++..+++..+.+.+ .+...+.++++++..+.+.+.
T Consensus 191 ~~~~~lip~~l~~~~~g~k~~~~~~p~~L~~gl--~~~~~~~~~a~~~gp---------el~~ii~~l~~l~~~~~~~r~ 259 (530)
T TIGR00795 191 PFISLLIPFFLVFLMDGWKGIKETFPAVLVAGL--SFAIPQFLSSNYLGP---------ELPSILGALVSLVITALFLKF 259 (530)
T ss_pred HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHH--HHHHHHHHHHHHccc---------cHHHHHHHHHHHHHHHHHHHH
Confidence 455678999999888777766667777777777 677788776666543 344556666666555555553
No 175
>PF03729 DUF308: Short repeat of unknown function (DUF308); InterPro: IPR005325 This represents a group of short repeats that occurs in a limited number of membrane proteins. It may divide further in short repeats of around 7-10 residues of the pattern G-#-X(2)-#(2)-X (#=hydrophobic).
Probab=25.26 E-value=2.9e+02 Score=20.95 Aligned_cols=29 Identities=17% Similarity=0.344 Sum_probs=22.7
Q ss_pred CCCchhHHHHHHHHHHHHhhhhhHhHhhh
Q 005591 102 AFFPYRWVLMQFGSFIILCGLTHFISLWT 130 (689)
Q Consensus 102 ~~~~~~~~~~~f~~fi~~cg~thl~~i~~ 130 (689)
++.........++.+.++.|..++...+.
T Consensus 17 p~~~~~~~~~i~g~~~i~~Gi~~l~~~~~ 45 (72)
T PF03729_consen 17 PDASLAALAIILGIWLIISGIFQLISAFR 45 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 33345666777888889999999998887
No 176
>PF10754 DUF2569: Protein of unknown function (DUF2569); InterPro: IPR019690 This entry represents a protein that is conserved in bacteria. The function is not known, but several members are annotated as being YdgK or a homologue thereof and associated to the inner membrane. This signature also matches proteins that are described as transglutaminase-like enzymes, although this could not be confirmed.
Probab=25.11 E-value=5.3e+02 Score=23.53 Aligned_cols=43 Identities=16% Similarity=0.371 Sum_probs=28.7
Q ss_pred HHHhhhHHHHHHHhhHHHHHHHH-HhhcCCCchhHHHHHHHHHH
Q 005591 75 YQYISDILIALAYFSIPVELIYF-VQKSAFFPYRWVLMQFGSFI 117 (689)
Q Consensus 75 ~~~vsd~~ia~ay~~ip~~l~yf-~~~~~~~~~~~~~~~f~~fi 117 (689)
.....+.+++++++.-.+.+.+. .+|++.+|.-.+.++++..+
T Consensus 54 ~~~~~~~~~~~~~~~~~l~~~~lffkr~~~~P~~~I~~ll~~v~ 97 (149)
T PF10754_consen 54 ALWYFEVAINIAMWLFTLWLLYLFFKRKRRFPKLYIIWLLISVL 97 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 45667888888777777777765 45555677766666555544
No 177
>PRK09162 hypoxanthine-guanine phosphoribosyltransferase; Provisional
Probab=23.77 E-value=1.9e+02 Score=27.46 Aligned_cols=14 Identities=29% Similarity=0.292 Sum_probs=11.4
Q ss_pred CCCCCceEEecCch
Q 005591 664 DLTGPKPLFRDNDQ 677 (689)
Q Consensus 664 ~~~g~~ILlvDDd~ 677 (689)
+.+|++||||||=-
T Consensus 94 ~v~gk~VLIVDDIi 107 (181)
T PRK09162 94 SLKGRTVLVVDDIL 107 (181)
T ss_pred CCCCCEEEEEcccc
Confidence 35899999999953
No 178
>PRK04158 transcriptional repressor CodY; Validated
Probab=23.12 E-value=7.9e+02 Score=24.82 Aligned_cols=42 Identities=17% Similarity=0.241 Sum_probs=30.3
Q ss_pred cCcccceEEEEEeecCCCCccccchHHHHHHHHHHHHHHHHHH
Q 005591 323 LPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHA 365 (689)
Q Consensus 323 l~~~~~~i~vl~~~~~~~~~w~~~e~~ll~~va~~~aval~~a 365 (689)
...++...|.+++.... ..++++++-+++..|..++..+.+.
T Consensus 117 I~ggGeRLGTLvl~r~~-~~f~~dDliL~EyaATVVgLEIlR~ 158 (256)
T PRK04158 117 IIGGGERLGTLILARFD-KEFTDDDLILAEYAATVVGMEILRE 158 (256)
T ss_pred EecCCeEEEEEEEEecC-CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 44455567777776543 4799999999998888888777443
No 179
>PF03596 Cad: Cadmium resistance transporter; InterPro: IPR004676 These proteins are members of the Cadmium Resistance (CadD) Family. To date, this family of proteins has only been found in Gram-positive bacteria. The CadD family includes two close orthologues in two Staphylococcus species that have been reported to function in cadmium resistance, and another staphylococcal protein that has been reported to possibly function in quaternary ammonium ion export.
Probab=22.45 E-value=2.5e+02 Score=27.05 Aligned_cols=26 Identities=19% Similarity=0.094 Sum_probs=17.7
Q ss_pred chhHHHHHHHHHHHHhhhhhHhHhhh
Q 005591 105 PYRWVLMQFGSFIILCGLTHFISLWT 130 (689)
Q Consensus 105 ~~~~~~~~f~~fi~~cg~thl~~i~~ 130 (689)
+-+-+.+++.+|.++....-+.....
T Consensus 25 ~~~I~~GqylG~~~Lv~~Sl~~~~~l 50 (191)
T PF03596_consen 25 RRQIVIGQYLGFTILVLASLLGAFGL 50 (191)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence 66778888888877776555444433
No 180
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=22.09 E-value=5.2e+02 Score=22.33 Aligned_cols=13 Identities=15% Similarity=0.015 Sum_probs=6.9
Q ss_pred HHHHHHHHHHHHH
Q 005591 147 MACAFVSCITALM 159 (689)
Q Consensus 147 ~~ta~vs~~ta~~ 159 (689)
+++.+.|+..++.
T Consensus 37 lLnl~lS~~Aa~~ 49 (108)
T PF06210_consen 37 LLNLVLSLEAAYQ 49 (108)
T ss_pred HHHHHHHHHHHHH
Confidence 4455566655543
No 181
>PF04973 NMN_transporter: Nicotinamide mononucleotide transporter; InterPro: IPR006419 The PnuC protein of Escherichia coli is membrane protein responsible for nicotinamide mononucleotide transport, subject to regulation by interaction with the NadR (also called NadI) protein (see IPR006417 from INTERPRO). The extreme N- and C-terminal regions are poorly conserved. ; GO: 0006810 transport, 0016020 membrane
Probab=22.06 E-value=6.7e+02 Score=23.62 Aligned_cols=81 Identities=16% Similarity=0.265 Sum_probs=47.8
Q ss_pred HHHHhhhHHHHHHHhhHHHHHHHHHhhcC----CCc------hhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHH
Q 005591 74 RYQYISDILIALAYFSIPVELIYFVQKSA----FFP------YRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMT 143 (689)
Q Consensus 74 ~~~~vsd~~ia~ay~~ip~~l~yf~~~~~----~~~------~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~ 143 (689)
..|..+|.+.-+.|+.+.+.+.|.-.|++ +.+ ..|+..+.+..+...+.+.++.-++-. +. -
T Consensus 42 ~~~ly~~~~lq~~~~~~~i~G~~~W~~~~~~~~~~~v~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~----~~----~ 113 (181)
T PF04973_consen 42 QAGLYGDMLLQLFYFIMSIYGWYQWKKGRDENDEVKVRRLSKKQWILLLIGILIGTAIFGFILKFLTDS----PF----P 113 (181)
T ss_pred HhhhHHHHHHHHHHHHHHHHHHHHHHhhhccCcccceeeCCHHHHHHHHHHHHHHHHHHHHHHHHhcCC----ch----H
Confidence 55778999999999999988888766432 221 344444444444455554444444411 22 2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 005591 144 IAKMACAFVSCITALMLVH 162 (689)
Q Consensus 144 ~~k~~ta~vs~~ta~~l~~ 162 (689)
...+++...|++..+.+.+
T Consensus 114 ~~Da~~~~~siva~~l~~~ 132 (181)
T PF04973_consen 114 WLDALTTVLSIVAQWLMAR 132 (181)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3466677777766666554
No 182
>COG1612 CtaA Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]
Probab=22.03 E-value=5.2e+02 Score=27.16 Aligned_cols=48 Identities=15% Similarity=0.135 Sum_probs=26.8
Q ss_pred hHHHHHHhhhHHHHHHHhhHHHHHHHHHhhcC-CCchhHHHHHHHHHHHHhh
Q 005591 71 LLVRYQYISDILIALAYFSIPVELIYFVQKSA-FFPYRWVLMQFGSFIILCG 121 (689)
Q Consensus 71 ~~~~~~~vsd~~ia~ay~~ip~~l~yf~~~~~-~~~~~~~~~~f~~fi~~cg 121 (689)
.+=|-|++--.++++.+. . .++|+.++++ ....+|-..+..+++.+=|
T Consensus 76 ~iE~~HRl~a~~~gl~vi-~--l~~~aw~~~~~~r~~~~~~i~~l~l~~lQg 124 (323)
T COG1612 76 WIEWFHRLLAGLIGLLVL-L--LAILAWRRRRISRELKLAAILALALLILQG 124 (323)
T ss_pred HHHHHHHHHHHHHHHHHH-H--HHHHHHhcCcccccchHHHHHHHHHHHHHH
Confidence 445778887666655443 2 3445555544 4455665555555555555
No 183
>PF14150 YesK: YesK-like protein
Probab=22.03 E-value=4.4e+02 Score=21.48 Aligned_cols=48 Identities=21% Similarity=0.263 Sum_probs=33.0
Q ss_pred HHHHHHhhHHHHHHHHHhhc-CCCchhHHHHHHHHHHHHhhhhhHhHhhhc
Q 005591 82 LIALAYFSIPVELIYFVQKS-AFFPYRWVLMQFGSFIILCGLTHFISLWTF 131 (689)
Q Consensus 82 ~ia~ay~~ip~~l~yf~~~~-~~~~~~~~~~~f~~fi~~cg~thl~~i~~~ 131 (689)
++.++++.+-....|+.+|| ++.++.|++.+ ..+++|-.+-...+...
T Consensus 3 llg~~~~ii~f~~S~~lr~r~p~k~~~~il~~--ililis~~~v~~S~f~v 51 (81)
T PF14150_consen 3 LLGIVTFIIVFGVSVLLRKRFPKKQPEIILPL--ILILISLLTVLISIFLV 51 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcchhHHHHH--HHHHHHHHHHHHHHheE
Confidence 45778888888888888776 46677777752 34557766666666554
No 184
>PF13748 ABC_membrane_3: ABC transporter transmembrane region
Probab=21.87 E-value=8e+02 Score=24.45 Aligned_cols=52 Identities=21% Similarity=0.291 Sum_probs=34.0
Q ss_pred cHHHHHHHHHHHHHHHHhhhhchhHH--hHHHHHHHH-HHhcccChhhHHHHHHHH
Q 005591 172 TRELFLKNRADELDREMGLILTQEET--GRHVRMLTH-EIRSTLDRHTILKTTLVE 224 (689)
Q Consensus 172 ~~e~~~~~~a~~l~~~~~~~~~~~~~--~~~l~~lt~-~i~~~ld~~~il~~~~~~ 224 (689)
..+.+-.+++.++++|++.+.+.... .+|...+.+ +++- .|.|..-+-....
T Consensus 161 ~~~~L~~~LNnrlE~eV~~i~~~~~~~l~rHy~~L~~lrI~l-SD~EA~~y~~i~i 215 (237)
T PF13748_consen 161 RNYRLYRRLNNRLEKEVDIIERRKPASLRRHYRRLSRLRIRL-SDREALGYLLIGI 215 (237)
T ss_pred HHHHHHHHHhHHHHHHccHhhcCChHHHHHHHHHHHhhhhhh-chHHHHHHHHHHH
Confidence 35666778899999999988877665 456666655 2332 3666665554443
No 185
>KOG1853 consensus LIS1-interacting protein NUDE [Cytoskeleton]
Probab=21.86 E-value=8.1e+02 Score=24.48 Aligned_cols=45 Identities=16% Similarity=0.107 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchHHHH
Q 005591 373 RARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAI 417 (689)
Q Consensus 373 ~~~~~L~e~~~~l~~a~~~~~~a~~~~~~~~~~~sHelr~PL~~I 417 (689)
...+++.+..++|++++..++++.++..-.+..+-..|...+--+
T Consensus 105 aikeql~kyiReLEQaNDdLErakRati~sleDfeqrLnqAIErn 149 (333)
T KOG1853|consen 105 AIKEQLRKYIRELEQANDDLERAKRATIYSLEDFEQRLNQAIERN 149 (333)
T ss_pred HHHHHHHHHHHHHHHhccHHHHhhhhhhhhHHHHHHHHHHHHHHH
Confidence 344566677777888888888777766555544444444444333
No 186
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.58 E-value=5.8e+02 Score=26.11 Aligned_cols=90 Identities=13% Similarity=0.210 Sum_probs=43.4
Q ss_pred hHHHHHHHhhHHHHHHHHHhhcC-------CCchhHHHHHHHHH--HHHhhhhhHhHh--hh--cccc---chhHHHHHH
Q 005591 80 DILIALAYFSIPVELIYFVQKSA-------FFPYRWVLMQFGSF--IILCGLTHFISL--WT--FTVH---SKAVAVVMT 143 (689)
Q Consensus 80 d~~ia~ay~~ip~~l~yf~~~~~-------~~~~~~~~~~f~~f--i~~cg~thl~~i--~~--~~~~---~~~~~~~~~ 143 (689)
|++.|+-||.+..=..|..++|. |--|++...+|..| |++|.+- .+++ |. -|.+ ..+...+.+
T Consensus 164 ~f~Laii~fllftPcsyVcWyRPlYkAFRsDSSf~F~~FFF~y~~q~~~~v~q-Avgf~g~~~~G~i~ai~~~~~~i~v~ 242 (313)
T KOG3088|consen 164 IFGLAIIWFLLFTPCSYVCWYRPLYKAFRTDSSFNFGAFFFTYFFQIVFCVFQ-AVGFPGWGLCGWIPAIDVLSGNIAVG 242 (313)
T ss_pred hhHHHHHHHHHhCCceeeEeehHHHHHhccccchhhHHHHHHHHHHHHHHHHH-HHccCCcchhhhhhHhhccCcchHHH
Confidence 44457778887777777665554 43444433323322 2233211 1110 00 0111 011234556
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhh
Q 005591 144 IAKMACAFVSCITALMLVHIIPDLLSV 170 (689)
Q Consensus 144 ~~k~~ta~vs~~ta~~l~~~ip~~l~~ 170 (689)
++-++.|.+.++-++..+..+-+.-++
T Consensus 243 i~m~i~a~~Ft~~av~~i~~i~kVh~~ 269 (313)
T KOG3088|consen 243 ILMLIGAGLFTLEAVLSIWVLQKVHSY 269 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 667777777776666666655554443
No 187
>KOG0020 consensus Endoplasmic reticulum glucose-regulated protein (GRP94/endoplasmin), HSP90 family [Posttranslational modification, protein turnover, chaperones]
Probab=21.14 E-value=86 Score=34.19 Aligned_cols=16 Identities=25% Similarity=0.682 Sum_probs=13.2
Q ss_pred EEEEEecCCCCCCCCh
Q 005591 567 RVQVNDSGCGVPPQDI 582 (689)
Q Consensus 567 ~i~V~D~G~Gi~~~~~ 582 (689)
.+.|.|+|+||..+++
T Consensus 143 lLhi~DtGiGMT~edL 158 (785)
T KOG0020|consen 143 LLHITDTGIGMTREDL 158 (785)
T ss_pred eeeEecccCCccHHHH
Confidence 5789999999987654
No 188
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=20.88 E-value=2.8e+02 Score=22.44 Aligned_cols=39 Identities=15% Similarity=0.289 Sum_probs=20.3
Q ss_pred CCCCccCCCCCchhhHHHHHHhhhHHHHHHHhhHHHHHHHHHhhcC
Q 005591 57 ESCDCIDTQWPPDELLVRYQYISDILIALAYFSIPVELIYFVQKSA 102 (689)
Q Consensus 57 ~~~~~~~~~w~~~~~~~~~~~vsd~~ia~ay~~ip~~l~yf~~~~~ 102 (689)
+.|+|+ ++ ++.. |..+ +..|++. +..|-....|+.+.|+
T Consensus 24 scs~C~-~l-s~g~-LaGi-V~~D~vl---TLLIv~~vy~car~r~ 62 (79)
T PF07213_consen 24 SCSGCY-PL-SPGL-LAGI-VAADAVL---TLLIVLVVYYCARPRR 62 (79)
T ss_pred CCCCcc-cc-CHHH-HHHH-HHHHHHH---HHHHHHHHHhhccccc
Confidence 566786 23 3332 3444 6677654 3445555555555443
No 189
>TIGR02921 PEP_integral PEP-CTERM family integral membrane protein. Members of this protein family, found in three different species so far, have a PEP-CTERM sequence at the carboxyl-terminus (see model TIGR02595), but are unusual among PEP-CTERM proteins in having multiple predicted transmembrane segments. The function is unknown. It is proposed that a member of the EpsH family, to be designated exosortase (see TIGR02602), recognizes and cleaves PEP-CTERM proteins in a manner analogous to the cleavage of LPXTG proteins by sortase (see Haft, et al., 2006).
Probab=20.85 E-value=3.7e+02 Score=30.42 Aligned_cols=87 Identities=15% Similarity=0.164 Sum_probs=0.0
Q ss_pred HHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 005591 85 LAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHII 164 (689)
Q Consensus 85 ~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~~~~~~~~~~~~~k~~ta~vs~~ta~~l~~~i 164 (689)
+++|.||.+.++|-..--. .|.|+.=+|-...+.....--+.|..+|. ..+.+-+|.+.+.++.
T Consensus 159 l~~~~ip~~~gff~l~~~i-~~~~~~~i~nyil~~~a~i~glfiismwl---------------ivla~s~~~fi~lp~~ 222 (952)
T TIGR02921 159 LAFFAIPAAAGFFELLEEI-EFEHLGDIFNYILFHTAFICGLFIISMWL---------------IVLAFSATLFIALPFA 222 (952)
T ss_pred HHHHhhhHHhHHHHHHHHH-HHHhHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHH
Q ss_pred hhhhhhccHHHHHHHHHHHHHHH
Q 005591 165 PDLLSVKTRELFLKNRADELDRE 187 (689)
Q Consensus 165 p~~l~~~~~e~~~~~~a~~l~~~ 187 (689)
..++-+.+-...++.-+.+..+.
T Consensus 223 lt~lyi~~~~k~~k~~~a~~g~~ 245 (952)
T TIGR02921 223 LTALYIHEFAKELKAAAAEHGNA 245 (952)
T ss_pred HHHHHHHHHHHHHHHHHHhcCcc
No 190
>PF13813 MBOAT_2: Membrane bound O-acyl transferase family
Probab=20.76 E-value=2e+02 Score=23.29 Aligned_cols=57 Identities=23% Similarity=0.378 Sum_probs=40.9
Q ss_pred CCCCchhhHHHHHHhhhHHHHHHHhhHHHHHHHHHhhcCCCchhHHHHHHHHHHHHhhhhhHhHhhhccc
Q 005591 64 TQWPPDELLVRYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTV 133 (689)
Q Consensus 64 ~~w~~~~~~~~~~~vsd~~ia~ay~~ip~~l~yf~~~~~~~~~~~~~~~f~~fi~~cg~thl~~i~~~~~ 133 (689)
.+|..- |-|.....+...+++..-..+. -+.++...++++|. +.|+.|....+....
T Consensus 16 ~fWg~~----WHq~~r~~~~~~~~~~~~~~~~--------~~~~r~~~l~~aF~-~SGl~H~~~~~~~~~ 72 (83)
T PF13813_consen 16 RFWGRR----WHQLFRRPFSSIGYFPVRRVLG--------SKASRYLQLFGAFL-ISGLMHEAGDWYMSR 72 (83)
T ss_pred HHHhhH----HHHHHHHHHHHHHHHHHHhccc--------chHHHHHHHHHHHH-HHHHHHHHHHHhccC
Confidence 477542 6667788888877765433333 23778888899985 899999999988764
No 191
>COG2865 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]
Probab=20.39 E-value=4.9e+02 Score=28.89 Aligned_cols=133 Identities=16% Similarity=0.073 Sum_probs=67.5
Q ss_pred eHHHHHHHHHHHHHhhhhcCCceEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC---CCC-cEEEEEEeecCCCCC
Q 005591 473 NLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT---KEG-YVSIIASVAKPESLS 548 (689)
Q Consensus 473 ~L~~ll~~~~~~~~~~~~~~~i~i~~~~~~~~p~~v~~D~~~l~qvl~nLl~NAik~~---~~g-~i~i~~~~~~~~~~~ 548 (689)
++-..++++.+.++... .....+. . +-. +. -......++.+++.||+-|. ..| .+.+.+..+
T Consensus 237 ~l~~~v~~~i~fikrn~-~~~~~v~----~-l~r-~~-v~dyP~~alREai~NAv~HRDYs~~~~~v~I~iydD------ 302 (467)
T COG2865 237 NLPEQVERAISFIKRNL-NVPYVVE----G-LRR-VE-VWDYPLEALREAIINAVIHRDYSIRGRNVHIEIYDD------ 302 (467)
T ss_pred CHHHHHHHHHHHHHHhc-CCceeec----c-eeE-ee-cccCCHHHHHHHHHHHHHhhccccCCCceEEEEECC------
Confidence 45666777777776543 2222222 1 111 11 12334568899999999875 344 565555432
Q ss_pred CCCCCCcCccCCCCceEEEEEEEecCCCCCCCChhhhhcC--CcccCC------CCCCCCCccchHHHHHHHHHHhCCE-
Q 005591 549 DWRPPEFYPVSTDGHFYLRVQVNDSGCGVPPQDIPLLFTK--FAQSRG------SSCQTPRAGLGLAICRRFVNLMGGH- 619 (689)
Q Consensus 549 ~~~~~~~~~~~~~~~~~v~i~V~D~G~Gi~~~~~~~if~~--f~~~~~------~~~~~~g~GLGL~i~k~iv~~~gG~- 619 (689)
+++|.+.|.-.+.-....+... +.+.+. .-.--...|-|+.-+++.++.+|..
T Consensus 303 ------------------RieI~NPGgl~~gi~~~~l~~~~s~~RNp~LA~~l~~~~liE~~GSGi~rm~~~~~~~gl~~ 364 (467)
T COG2865 303 ------------------RIEITNPGGLPPGITPEDLLKGRSKSRNPVLAKVLRDMGLIEERGSGIRRMFDLMEENGLPK 364 (467)
T ss_pred ------------------eEEEECCCCCCCCCChhHcccCCCcccCHHHHHHHHHhhhHHHhCccHHHHHHHHHHcCCCC
Confidence 5677776642222222222221 111000 0000113478889999999988874
Q ss_pred EEEEeecCCCcEEEEEEEEecC
Q 005591 620 IWLDSEGLDKGSTVTFLVKLGI 641 (689)
Q Consensus 620 I~i~S~~~g~Gt~~~~~lPl~~ 641 (689)
..+... ...|++.++...
T Consensus 365 p~f~~~----~~~~~~~~~~~~ 382 (467)
T COG2865 365 PEFEED----NDYVTVILHGKG 382 (467)
T ss_pred ceeecc----CCeEEEEEeccc
Confidence 333332 334556665543
No 192
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=20.38 E-value=1.6e+02 Score=30.96 Aligned_cols=24 Identities=29% Similarity=0.355 Sum_probs=14.0
Q ss_pred hhhHHHHHHHhhHHHHHHHHHhhc
Q 005591 78 ISDILIALAYFSIPVELIYFVQKS 101 (689)
Q Consensus 78 vsd~~ia~ay~~ip~~l~yf~~~~ 101 (689)
++|.++++.-+.+...++..+++.
T Consensus 25 vgdi~~~~~il~ll~~~~~~~~~~ 48 (318)
T PF12725_consen 25 VGDILYYLLILFLLYYLIRLIRKI 48 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 366666666666655555555543
No 193
>KOG0249 consensus LAR-interacting protein and related proteins [General function prediction only]
Probab=20.28 E-value=9.1e+02 Score=28.14 Aligned_cols=52 Identities=25% Similarity=0.192 Sum_probs=36.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 005591 346 HELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIH 397 (689)
Q Consensus 346 ~e~~ll~~va~~~aval~~a~l~~~~~~~~~~L~e~~~~l~~a~~~~~~a~~ 397 (689)
.|.++-..++...+.-..++...+..++.+.++.+.+.+|+++++.+++..+
T Consensus 140 veael~qr~~al~~aee~~~~~eer~~kl~~~~qe~naeL~rarqreemnee 191 (916)
T KOG0249|consen 140 VEAELAQRNAALTKAEEHSGNIEERTRKLEEQLEELNAELQRARQREKMNEE 191 (916)
T ss_pred hHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 4445555555555555566666777888888888899999998887776544
No 194
>PF05297 Herpes_LMP1: Herpesvirus latent membrane protein 1 (LMP1); InterPro: IPR007961 This family consists of several latent membrane protein 1 or LMP1s mostly from Epstein-Barr virus (strain GD1) (HHV-4) (Human herpesvirus 4). LMP1 of HHV-4 is a 62-65 kDa plasma membrane protein possessing six membrane spanning regions, a short cytoplasmic N terminus and a long cytoplasmic carboxy tail of 200 amino acids. HHV-4 virus latent membrane protein 1 (LMP1) is essential for HHV-4 mediated transformation and has been associated with several cases of malignancies. HHV-4-like viruses in Macaca fascicularis (Cynomolgus monkeys) have been associated with high lymphoma rates in immunosuppressed monkeys [].; GO: 0019087 transformation of host cell by virus, 0016021 integral to membrane; PDB: 1CZY_E 1ZMS_B.
Probab=20.16 E-value=34 Score=34.38 Aligned_cols=19 Identities=21% Similarity=0.254 Sum_probs=0.0
Q ss_pred HHHhhHHHHHHHHHhhcCC
Q 005591 85 LAYFSIPVELIYFVQKSAF 103 (689)
Q Consensus 85 ~ay~~ip~~l~yf~~~~~~ 103 (689)
.|.+.|-++++.|+.||+.
T Consensus 58 fAvvliiIIiIImlF~RrL 76 (381)
T PF05297_consen 58 FAVVLIIIIIIIMLFKRRL 76 (381)
T ss_dssp -------------------
T ss_pred HHHHHHHHHHHHHHHHHhh
Confidence 3445555666666667774
Done!