Query 010147
Match_columns 517
No_of_seqs 359 out of 3408
Neff 9.5
Searched_HMMs 46136
Date Thu Mar 28 21:35:51 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/010147.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/010147hhsearch_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 8.4E-36 1.8E-40 304.8 37.1 419 24-514 397-832 (890)
2 PRK10490 sensor protein KdpD; 100.0 1.2E-27 2.6E-32 265.0 41.4 334 124-510 493-831 (895)
3 TIGR02916 PEP_his_kin putative 100.0 6.8E-25 1.5E-29 238.8 41.3 313 146-504 307-626 (679)
4 PRK13837 two-component VirA-li 99.9 2.6E-23 5.7E-28 231.0 39.2 325 126-487 259-589 (828)
5 PRK11091 aerobic respiration c 99.9 1.5E-22 3.2E-27 224.8 32.6 166 338-503 277-444 (779)
6 PRK10618 phosphotransfer inter 99.9 4.3E-22 9.3E-27 218.8 22.4 188 326-513 432-623 (894)
7 PRK10841 hybrid sensory kinase 99.9 1E-21 2.2E-26 218.9 21.2 177 326-502 429-606 (924)
8 PRK09303 adaptive-response sen 99.9 5.2E-21 1.1E-25 194.0 21.7 182 323-505 130-321 (380)
9 TIGR02956 TMAO_torS TMAO reduc 99.9 6.7E-21 1.4E-25 216.9 25.2 173 332-504 452-626 (968)
10 PRK11107 hybrid sensory histid 99.9 2.2E-20 4.7E-25 211.7 24.9 183 321-503 270-458 (919)
11 PRK15347 two component system 99.9 1.3E-20 2.9E-25 213.4 22.6 183 323-505 377-560 (921)
12 COG5002 VicK Signal transducti 99.9 1.3E-21 2.8E-26 181.9 9.3 171 342-513 223-398 (459)
13 COG4251 Bacteriophytochrome (l 99.9 2.4E-18 5.2E-23 171.8 32.9 156 328-489 508-668 (750)
14 PRK11466 hybrid sensory histid 99.9 5.5E-20 1.2E-24 208.1 23.7 186 318-503 418-606 (914)
15 PRK11006 phoR phosphate regulo 99.8 2.8E-17 6.1E-22 170.0 30.2 165 343-510 203-370 (430)
16 KOG0519 Sensory transduction h 99.8 2.5E-21 5.3E-26 210.2 -0.4 485 2-486 30-532 (786)
17 COG4191 Signal transduction hi 99.8 4.4E-18 9.5E-23 170.2 19.4 178 331-513 369-555 (603)
18 COG3852 NtrB Signal transducti 99.8 2.4E-18 5.3E-23 158.0 16.1 166 342-513 130-311 (363)
19 PRK09959 hybrid sensory histid 99.8 9E-18 1.9E-22 195.1 19.8 172 333-504 701-879 (1197)
20 PRK10364 sensor protein ZraS; 99.7 5.6E-15 1.2E-19 154.1 35.2 157 342-503 235-394 (457)
21 PRK10604 sensor protein RstB; 99.7 2.7E-16 5.9E-21 162.6 18.1 168 327-503 195-363 (433)
22 PRK10815 sensor protein PhoQ; 99.7 6.4E-16 1.4E-20 161.5 18.9 171 329-503 251-422 (485)
23 PRK10337 sensor protein QseC; 99.7 1.5E-15 3.2E-20 158.2 21.0 174 325-502 218-393 (449)
24 TIGR03785 marine_sort_HK prote 99.7 1.4E-15 3.1E-20 165.2 20.8 179 322-503 463-643 (703)
25 COG4192 Signal transduction hi 99.7 3.3E-15 7.2E-20 143.9 20.4 167 343-514 450-633 (673)
26 PRK10600 nitrate/nitrite senso 99.7 3.8E-13 8.3E-18 144.1 37.3 314 123-504 199-515 (569)
27 PRK11644 sensory histidine kin 99.7 1.5E-14 3.2E-19 151.3 25.7 210 288-505 245-457 (495)
28 TIGR02938 nifL_nitrog nitrogen 99.7 2.6E-15 5.6E-20 157.9 19.6 165 342-510 274-444 (494)
29 COG5000 NtrY Signal transducti 99.7 5.7E-14 1.2E-18 140.5 27.5 161 343-510 485-660 (712)
30 PRK10755 sensor protein BasS/P 99.7 3E-15 6.4E-20 151.0 18.8 155 344-504 137-294 (356)
31 PRK10549 signal transduction h 99.6 5.8E-15 1.3E-19 154.5 19.5 179 322-503 218-398 (466)
32 PRK09835 sensor kinase CusS; P 99.6 1.1E-14 2.3E-19 153.2 20.9 179 323-504 241-422 (482)
33 TIGR02966 phoR_proteo phosphat 99.6 6.6E-15 1.4E-19 146.5 17.7 157 344-502 114-274 (333)
34 TIGR01386 cztS_silS_copS heavy 99.6 1.1E-14 2.4E-19 151.8 19.8 179 321-503 218-399 (457)
35 PRK11073 glnL nitrogen regulat 99.6 9.2E-15 2E-19 146.9 18.0 135 343-485 129-265 (348)
36 PRK11100 sensory histidine kin 99.6 7.8E-14 1.7E-18 146.2 18.8 171 328-502 241-413 (475)
37 PRK09470 cpxA two-component se 99.6 9.4E-14 2E-18 145.1 19.1 176 321-502 220-396 (461)
38 PRK09467 envZ osmolarity senso 99.6 8.9E-14 1.9E-18 144.2 17.9 167 322-502 207-374 (435)
39 PRK11360 sensory histidine kin 99.5 1.9E-13 4.1E-18 147.5 19.7 156 343-503 389-547 (607)
40 COG3850 NarQ Signal transducti 99.5 9.4E-11 2E-15 116.4 35.5 303 122-510 224-535 (574)
41 PRK13560 hypothetical protein; 99.5 2.4E-13 5.1E-18 152.2 17.5 165 331-504 592-762 (807)
42 PRK15429 formate hydrogenlyase 99.4 1.9E-11 4.1E-16 133.1 24.6 189 129-331 170-365 (686)
43 COG0642 BaeS Signal transducti 99.4 2.5E-11 5.3E-16 120.1 20.4 164 343-509 114-279 (336)
44 PF00512 HisKA: His Kinase A ( 99.4 2.7E-12 5.9E-17 95.9 10.2 66 343-408 1-68 (68)
45 PRK11061 fused phosphoenolpyru 99.4 5.4E-11 1.2E-15 128.9 23.6 274 143-432 2-311 (748)
46 PRK13557 histidine kinase; Pro 99.4 1.1E-11 2.4E-16 132.0 18.0 137 343-485 162-304 (540)
47 PRK13559 hypothetical protein; 99.3 5E-11 1.1E-15 120.4 15.2 123 344-485 170-297 (361)
48 PRK10935 nitrate/nitrite senso 99.2 4.1E-08 8.9E-13 105.4 34.2 182 290-504 329-518 (565)
49 TIGR01817 nifA Nif-specific re 99.2 8.3E-10 1.8E-14 116.9 20.2 161 143-317 4-166 (534)
50 PF13492 GAF_3: GAF domain; PD 99.1 1.3E-09 2.9E-14 92.2 13.5 129 158-309 1-129 (129)
51 COG3851 UhpB Signal transducti 99.0 2E-07 4.4E-12 88.3 24.1 206 290-503 248-455 (497)
52 PF01590 GAF: GAF domain; Int 99.0 4.8E-09 1E-13 91.8 11.1 136 158-307 1-154 (154)
53 PRK15429 formate hydrogenlyase 99.0 3E-08 6.5E-13 108.2 19.1 174 143-331 8-185 (686)
54 PRK05022 anaerobic nitric oxid 98.9 1.5E-07 3.2E-12 99.0 19.3 171 144-330 4-179 (509)
55 COG3290 CitA Signal transducti 98.8 5.9E-05 1.3E-09 76.5 34.3 144 343-508 332-481 (537)
56 smart00065 GAF Domain present 98.8 1.5E-07 3.2E-12 80.3 14.1 144 158-315 1-147 (149)
57 COG3605 PtsP Signal transducti 98.8 2.3E-07 5E-12 93.1 17.0 154 146-313 5-160 (756)
58 PRK11086 sensory histidine kin 98.8 3.6E-08 7.7E-13 105.3 10.8 138 343-503 338-481 (542)
59 smart00388 HisKA His Kinase A 98.7 6.5E-08 1.4E-12 71.0 8.4 64 344-407 2-65 (66)
60 PF13185 GAF_2: GAF domain; PD 98.7 2.3E-07 5E-12 80.4 11.4 135 157-308 2-148 (148)
61 PRK15053 dpiB sensor histidine 98.7 3.3E-07 7.2E-12 98.0 14.5 135 346-502 340-481 (545)
62 COG3920 Signal transduction hi 98.7 3.5E-06 7.6E-11 78.0 19.3 150 344-505 19-175 (221)
63 KOG0519 Sensory transduction h 98.6 1E-08 2.2E-13 112.3 1.3 140 347-488 224-363 (786)
64 cd00082 HisKA Histidine Kinase 98.4 1.3E-06 2.8E-11 63.5 8.4 61 344-404 4-65 (65)
65 COG4585 Signal transduction hi 98.2 0.00027 5.9E-09 71.4 22.3 155 342-505 169-326 (365)
66 COG3604 FhlA Transcriptional r 98.2 5.9E-05 1.3E-09 75.6 16.1 176 143-332 33-213 (550)
67 COG2203 FhlA FOG: GAF domain [ 98.2 1.9E-06 4.1E-11 76.0 5.2 160 143-316 3-171 (175)
68 PRK13558 bacterio-opsin activa 97.9 0.00053 1.2E-08 75.3 19.4 147 145-311 289-439 (665)
69 COG4564 Signal transduction hi 97.7 0.054 1.2E-06 51.7 29.3 156 342-504 249-405 (459)
70 COG3275 LytS Putative regulato 97.2 0.33 7.1E-06 49.0 32.9 270 163-503 227-506 (557)
71 PF02518 HATPase_c: Histidine 96.8 0.0008 1.7E-08 55.1 2.7 48 455-502 1-50 (111)
72 COG1956 GAF domain-containing 96.8 0.059 1.3E-06 46.0 13.7 121 164-306 38-159 (163)
73 PF11849 DUF3369: Domain of un 96.6 0.42 9.2E-06 42.6 18.5 148 135-318 13-173 (174)
74 COG2972 Predicted signal trans 96.4 0.34 7.4E-06 50.5 19.7 117 344-487 259-383 (456)
75 PF04340 DUF484: Protein of un 96.4 0.037 8.1E-07 51.6 11.0 162 122-309 52-222 (225)
76 PRK10547 chemotaxis protein Ch 96.3 0.064 1.4E-06 58.0 13.4 69 417-488 343-427 (670)
77 PF07568 HisKA_2: Histidine ki 95.5 0.17 3.6E-06 38.2 8.9 73 351-432 2-74 (76)
78 PRK14868 DNA topoisomerase VI 94.9 0.021 4.6E-07 61.1 3.6 77 437-513 23-105 (795)
79 COG5385 Uncharacterized protei 93.5 1.9 4.1E-05 37.1 11.6 122 347-485 18-140 (214)
80 TIGR01052 top6b DNA topoisomer 92.6 0.076 1.7E-06 54.8 2.5 59 453-511 22-86 (488)
81 PRK04184 DNA topoisomerase VI 92.2 0.055 1.2E-06 56.5 0.9 52 453-504 30-89 (535)
82 COG0643 CheA Chemotaxis protei 92.2 4.1 8.8E-05 44.7 15.0 94 384-490 365-476 (716)
83 PRK10963 hypothetical protein; 92.1 10 0.00022 35.3 16.5 64 122-186 49-116 (223)
84 smart00387 HATPase_c Histidine 91.0 0.51 1.1E-05 37.4 5.4 34 455-488 1-35 (111)
85 PF10090 DUF2328: Uncharacteri 90.9 5.8 0.00013 35.5 12.3 113 360-488 2-115 (182)
86 PRK14867 DNA topoisomerase VI 90.0 0.24 5.2E-06 53.0 3.0 56 457-512 34-95 (659)
87 PF14689 SPOB_a: Sensor_kinase 89.0 2.7 5.8E-05 30.2 7.0 46 346-395 14-59 (62)
88 TIGR01925 spIIAB anti-sigma F 87.8 0.94 2E-05 38.3 4.8 34 456-489 36-73 (137)
89 TIGR00585 mutl DNA mismatch re 85.4 0.43 9.4E-06 47.0 1.6 45 458-503 21-65 (312)
90 KOG0787 Dehydrogenase kinase [ 85.4 38 0.00083 33.6 14.5 126 377-503 172-314 (414)
91 PF07536 HWE_HK: HWE histidine 81.8 11 0.00024 28.8 7.8 69 351-432 2-71 (83)
92 cd00075 HATPase_c Histidine ki 81.3 2.3 4.9E-05 32.9 4.1 29 460-488 1-31 (103)
93 COG3159 Uncharacterized protei 80.5 45 0.00098 30.3 14.7 64 123-186 51-118 (218)
94 PRK03660 anti-sigma F factor; 80.4 2.7 5.8E-05 35.9 4.4 33 456-488 36-72 (146)
95 KOG3689 Cyclic nucleotide phos 78.9 20 0.00042 38.9 10.9 157 155-323 179-346 (707)
96 PF14501 HATPase_c_5: GHKL dom 78.3 4.6 9.9E-05 32.0 4.9 33 456-488 2-38 (100)
97 COG3462 Predicted membrane pro 78.0 21 0.00045 28.5 8.0 45 74-118 32-80 (117)
98 COG2172 RsbW Anti-sigma regula 76.7 4.1 8.8E-05 35.1 4.3 44 456-499 37-86 (146)
99 PF12805 FUSC-like: FUSC-like 75.9 78 0.0017 30.5 22.6 88 27-115 3-102 (284)
100 COG4251 Bacteriophytochrome (l 75.0 1.2E+02 0.0027 32.5 15.6 42 144-185 328-369 (750)
101 PF06018 CodY: CodY GAF-like d 74.5 62 0.0014 28.7 12.3 36 275-311 122-157 (177)
102 COG4587 ABC-type uncharacteriz 73.9 21 0.00046 33.2 8.3 51 17-68 103-158 (268)
103 COG5381 Uncharacterized protei 72.4 6.6 0.00014 33.0 4.3 30 459-488 63-92 (184)
104 PRK04069 serine-protein kinase 71.0 7.5 0.00016 34.0 4.8 45 456-500 39-88 (161)
105 PF07730 HisKA_3: Histidine ki 70.6 36 0.00079 24.4 8.5 56 344-399 2-59 (68)
106 PF10066 DUF2304: Uncharacteri 69.9 51 0.0011 26.9 9.2 11 39-49 19-29 (115)
107 PRK10263 DNA translocase FtsK; 69.1 40 0.00086 39.4 10.8 15 26-40 77-91 (1355)
108 PF13581 HATPase_c_2: Histidin 68.8 8.2 0.00018 31.8 4.4 45 456-500 28-77 (125)
109 TIGR01666 YCCS hypothetical me 68.8 1.6E+02 0.0035 32.6 15.2 89 19-112 53-157 (704)
110 TIGR02851 spore_V_T stage V sp 68.6 87 0.0019 28.0 12.6 124 157-305 52-177 (180)
111 PRK05415 hypothetical protein; 65.9 1.3E+02 0.0027 29.9 12.3 45 73-120 89-133 (341)
112 PF14248 DUF4345: Domain of un 63.0 77 0.0017 26.2 9.1 52 28-81 50-101 (124)
113 PF07851 TMPIT: TMPIT-like pro 62.3 1.7E+02 0.0036 28.9 13.4 68 334-403 24-91 (330)
114 COG1389 DNA topoisomerase VI, 61.6 6.2 0.00013 40.0 2.5 53 456-508 33-91 (538)
115 PF03729 DUF308: Short repeat 61.6 51 0.0011 23.7 7.1 34 42-75 12-45 (72)
116 KOG3088 Secretory carrier memb 60.2 9.7 0.00021 36.0 3.4 39 317-357 63-101 (313)
117 TIGR01924 rsbW_low_gc serine-p 59.7 15 0.00032 32.1 4.4 34 456-489 39-76 (159)
118 PF06103 DUF948: Bacterial pro 56.8 89 0.0019 24.1 8.6 55 100-154 9-64 (90)
119 PF10883 DUF2681: Protein of u 55.7 94 0.002 24.0 7.5 19 89-107 6-24 (87)
120 PRK00095 mutL DNA mismatch rep 53.1 15 0.00033 39.8 4.1 45 458-503 21-65 (617)
121 PRK05559 DNA topoisomerase IV 51.6 13 0.00027 40.5 3.1 52 456-507 34-86 (631)
122 COG4377 Predicted membrane pro 51.6 40 0.00088 30.2 5.6 37 29-65 15-51 (258)
123 PRK11644 sensory histidine kin 51.2 3.2E+02 0.0069 28.8 15.5 33 458-490 413-452 (495)
124 PF14965 BRI3BP: Negative regu 49.2 1.9E+02 0.0041 25.5 10.3 29 113-141 148-176 (177)
125 PF06305 DUF1049: Protein of u 49.0 98 0.0021 22.2 7.1 18 125-142 49-66 (68)
126 TIGR01620 hyp_HI0043 conserved 48.9 2.6E+02 0.0056 27.1 11.9 25 146-170 119-143 (289)
127 PF10856 DUF2678: Protein of u 48.8 38 0.00082 27.5 4.5 15 35-49 73-87 (118)
128 KOG3705 Glycoprotein 6-alpha-L 48.6 3E+02 0.0065 27.7 12.9 51 382-432 156-206 (580)
129 PF10086 DUF2324: Putative mem 48.2 1.1E+02 0.0025 28.3 8.5 36 32-67 2-37 (223)
130 KOG1734 Predicted RING-contain 47.5 30 0.00064 32.5 4.3 49 18-66 141-194 (328)
131 PRK04158 transcriptional repre 46.7 2.6E+02 0.0056 26.5 16.5 35 275-311 124-159 (256)
132 PF07495 Y_Y_Y: Y_Y_Y domain; 44.7 35 0.00077 24.3 3.7 48 242-291 2-57 (66)
133 PF11152 DUF2930: Protein of u 44.5 1.6E+02 0.0036 26.5 8.5 74 210-303 120-194 (195)
134 PRK05644 gyrB DNA gyrase subun 43.6 19 0.00041 39.2 3.0 47 456-504 34-83 (638)
135 cd07955 Anticodon_Ia_Cys_like 43.3 66 0.0014 24.4 5.1 28 342-369 28-57 (81)
136 PRK10697 DNA-binding transcrip 42.8 1.6E+02 0.0034 24.3 7.4 23 116-138 77-99 (118)
137 PF07332 DUF1469: Protein of u 42.3 1.9E+02 0.0041 23.6 9.0 14 94-107 78-91 (121)
138 cd00284 Cytochrome_b_N Cytochr 41.6 2.7E+02 0.0058 25.3 9.6 87 18-105 33-127 (200)
139 PF07615 Ykof: YKOF-related Fa 40.8 1.6E+02 0.0035 22.3 8.0 61 417-486 14-74 (81)
140 TIGR01059 gyrB DNA gyrase, B s 40.1 23 0.00049 38.8 2.9 47 456-504 27-76 (654)
141 PF05297 Herpes_LMP1: Herpesvi 38.4 10 0.00023 35.7 0.0 37 16-52 36-81 (381)
142 TIGR02921 PEP_integral PEP-CTE 37.5 3.4E+02 0.0074 29.0 10.4 21 21-41 109-129 (952)
143 MTH00145 CYTB cytochrome b; Pr 36.8 2.3E+02 0.0051 28.7 9.3 81 17-98 41-127 (379)
144 COG3162 Predicted membrane pro 36.2 2E+02 0.0044 22.7 6.6 21 85-107 64-84 (102)
145 COG3781 Predicted membrane pro 35.5 3.9E+02 0.0085 25.3 9.8 45 49-107 209-253 (306)
146 TIGR01055 parE_Gneg DNA topois 35.3 18 0.00039 39.2 1.2 48 456-505 27-77 (625)
147 COG4965 TadB Flp pilus assembl 35.2 4.3E+02 0.0093 25.8 10.3 37 140-176 136-172 (309)
148 PF05884 ZYG-11_interact: Inte 35.1 1.9E+02 0.0041 27.9 7.7 59 26-87 139-199 (299)
149 COG3768 Predicted membrane pro 33.9 4.6E+02 0.0099 25.6 10.2 58 46-107 58-118 (350)
150 PRK14939 gyrB DNA gyrase subun 32.9 32 0.00069 38.1 2.6 47 458-504 36-83 (756)
151 COG3447 Predicted integral mem 32.6 4.8E+02 0.01 25.5 11.5 18 58-75 239-256 (308)
152 PTZ00127 cytochrome c oxidase 32.6 5.6E+02 0.012 26.2 12.0 9 6-14 292-300 (403)
153 MTH00046 CYTB cytochrome b; Va 32.3 2.8E+02 0.006 27.8 8.8 83 18-104 32-120 (355)
154 PRK00888 ftsB cell division pr 32.1 2.7E+02 0.0058 22.3 9.7 15 128-142 38-52 (105)
155 PRK06231 F0F1 ATP synthase sub 32.1 4E+02 0.0086 24.3 11.3 14 55-68 18-31 (205)
156 PF13829 DUF4191: Domain of un 32.0 2E+02 0.0043 26.6 7.1 34 40-75 16-49 (224)
157 PF10754 DUF2569: Protein of u 31.5 3.3E+02 0.0072 23.3 10.3 43 20-62 54-97 (149)
158 PF11177 DUF2964: Protein of u 31.5 2E+02 0.0043 20.6 6.0 27 50-76 5-31 (62)
159 PRK13182 racA polar chromosome 31.4 3.3E+02 0.0071 24.2 8.2 23 282-304 32-54 (175)
160 COG5393 Predicted membrane pro 31.1 2.9E+02 0.0064 22.5 8.2 31 73-107 73-103 (131)
161 KOG3689 Cyclic nucleotide phos 30.8 20 0.00043 38.9 0.6 151 156-321 4-164 (707)
162 PF11382 DUF3186: Protein of u 30.3 2.7E+02 0.0059 27.2 8.4 49 307-355 28-76 (308)
163 PF14979 TMEM52: Transmembrane 30.3 56 0.0012 27.7 3.0 20 51-70 21-40 (154)
164 PF14150 YesK: YesK-like prote 30.1 2.5E+02 0.0054 21.4 9.4 45 27-73 3-48 (81)
165 COG3835 CdaR Sugar diacid util 29.0 5.5E+02 0.012 25.6 9.8 53 274-331 85-137 (376)
166 MTH00100 CYTB cytochrome b; Pr 29.0 4.7E+02 0.01 26.5 10.0 86 18-105 41-133 (379)
167 TIGR00799 mtp Golgi 4-transmem 28.9 2.5E+02 0.0053 26.0 7.0 54 18-71 56-114 (258)
168 cd04789 HTH_Cfa Helix-Turn-Hel 28.8 1.4E+02 0.0031 23.6 5.2 20 283-302 34-53 (102)
169 PRK10209 acid-resistance membr 28.8 4.3E+02 0.0093 23.7 9.4 27 51-77 104-130 (190)
170 CHL00070 petB cytochrome b6 28.6 2.9E+02 0.0063 25.5 7.7 79 17-96 43-129 (215)
171 TIGR02978 phageshock_pspC phag 28.5 3.4E+02 0.0074 22.4 8.3 7 105-111 54-60 (121)
172 PF12725 DUF3810: Protein of u 28.3 1.1E+02 0.0024 30.1 5.3 24 23-46 25-48 (318)
173 COG3071 HemY Uncharacterized e 28.2 2.2E+02 0.0048 28.6 7.2 45 344-388 248-292 (400)
174 TIGR00219 mreC rod shape-deter 28.0 3.7E+02 0.008 26.0 8.7 16 311-326 70-85 (283)
175 COG3074 Uncharacterized protei 28.0 2.4E+02 0.0052 20.5 10.4 20 294-313 4-23 (79)
176 KOG3088 Secretory carrier memb 27.7 1.2E+02 0.0025 29.1 4.9 31 309-339 62-92 (313)
177 TIGR02921 PEP_integral PEP-CTE 27.6 2.9E+02 0.0063 29.5 8.1 18 29-46 158-175 (952)
178 COG3556 Predicted membrane pro 27.5 3.7E+02 0.0079 22.5 8.5 67 42-109 26-104 (150)
179 TIGR01058 parE_Gpos DNA topois 26.4 44 0.00095 36.4 2.3 49 456-504 31-80 (637)
180 MTH00033 CYTB cytochrome b; Pr 26.4 4.3E+02 0.0093 26.8 9.1 84 18-101 38-126 (383)
181 PF13633 N_methyl_3: Prokaryot 26.3 76 0.0016 17.5 2.1 17 25-41 5-21 (22)
182 PRK04949 putative sulfate tran 26.0 3.9E+02 0.0084 25.3 8.3 44 72-116 57-100 (251)
183 PF04156 IncA: IncA protein; 25.8 4.7E+02 0.01 23.2 14.3 21 53-73 9-29 (191)
184 PRK09458 pspB phage shock prot 25.7 2.8E+02 0.0061 20.7 5.6 20 127-146 42-61 (75)
185 PF05961 Chordopox_A13L: Chord 25.6 1E+02 0.0022 22.3 3.2 26 22-47 1-26 (68)
186 PF04341 DUF485: Protein of un 25.6 2.1E+02 0.0046 22.2 5.4 7 61-67 32-38 (91)
187 PF06181 DUF989: Protein of un 25.1 2.8E+02 0.0061 26.7 7.0 43 31-74 229-274 (300)
188 PRK13922 rod shape-determining 25.1 6E+02 0.013 24.2 11.4 21 125-145 77-97 (276)
189 cd04775 HTH_Cfa-like Helix-Tur 25.1 2.1E+02 0.0046 22.6 5.5 19 284-302 35-53 (102)
190 PF10225 DUF2215: Uncharacteri 25.0 5.9E+02 0.013 24.0 9.8 42 29-70 100-149 (249)
191 MTH00053 CYTB cytochrome b; Pr 24.9 4.9E+02 0.011 26.4 9.2 84 18-102 42-131 (381)
192 MTH00086 CYTB cytochrome b; Pr 24.7 5.1E+02 0.011 26.0 9.2 81 17-98 29-115 (355)
193 TIGR02209 ftsL_broad cell divi 24.6 3.1E+02 0.0066 20.6 9.7 23 148-170 49-71 (85)
194 PF10131 PTPS_related: 6-pyruv 24.5 7.3E+02 0.016 27.1 11.1 54 19-73 70-123 (616)
195 PHA03049 IMV membrane protein; 24.5 1.1E+02 0.0024 22.0 3.2 26 22-47 1-26 (68)
196 PF14936 p53-inducible11: Tumo 23.8 5E+02 0.011 22.8 7.8 15 29-43 98-112 (179)
197 MTH00016 CYTB cytochrome b; Va 23.6 4.7E+02 0.01 26.5 8.8 80 18-98 42-127 (378)
198 COG5232 SEC62 Preprotein trans 23.5 1.1E+02 0.0024 27.7 3.7 52 25-76 151-208 (259)
199 PF06570 DUF1129: Protein of u 23.2 5.7E+02 0.012 23.2 11.5 96 19-115 79-176 (206)
200 PRK12585 putative monovalent c 23.2 5.5E+02 0.012 23.1 12.9 29 19-48 4-32 (197)
201 PF15086 UPF0542: Uncharacteri 23.2 3.1E+02 0.0068 20.2 8.1 20 126-145 45-64 (74)
202 KOG1772 Vacuolar H+-ATPase V1 23.2 4E+02 0.0086 21.4 11.6 68 334-402 34-102 (108)
203 PRK03735 cytochrome b6; Provis 23.1 2.9E+02 0.0063 25.6 6.7 86 17-103 51-144 (223)
204 KOG2736 Presenilin [Signal tra 22.9 1.7E+02 0.0036 29.2 5.2 52 19-70 66-117 (406)
205 PF06946 Phage_holin_5: Phage 22.8 3.8E+02 0.0082 21.0 7.4 32 25-56 6-38 (93)
206 PF00556 LHC: Antenna complex 22.7 1.7E+02 0.0038 18.7 3.7 25 50-74 10-34 (40)
207 MTH00022 CYTB cytochrome b; Va 22.4 3.3E+02 0.0071 27.6 7.5 79 18-97 40-124 (379)
208 PF13321 DUF4084: Domain of un 22.4 2.8E+02 0.0062 25.7 6.2 54 22-75 159-216 (304)
209 PF07444 Ycf66_N: Ycf66 protei 22.2 3.7E+02 0.008 20.6 9.3 41 36-77 18-59 (84)
210 KOG4298 CAP-binding protein co 22.0 5.7E+02 0.012 22.8 7.9 28 80-107 177-205 (245)
211 PF11712 Vma12: Endoplasmic re 21.9 3.3E+02 0.0071 23.1 6.4 38 28-65 85-125 (142)
212 MTH00074 CYTB cytochrome b; Pr 21.8 5.3E+02 0.011 26.2 8.8 79 17-96 41-125 (380)
213 PF09766 FimP: Fms-interacting 21.8 8.1E+02 0.018 24.5 10.1 53 319-371 102-154 (355)
214 PF03472 Autoind_bind: Autoind 21.7 4.6E+02 0.0099 21.6 10.0 97 164-260 6-113 (149)
215 PF11212 DUF2999: Protein of u 21.4 1.3E+02 0.0028 22.0 3.1 48 356-407 27-76 (82)
216 TIGR03541 reg_near_HchA LuxR f 21.1 6.6E+02 0.014 23.2 10.6 82 146-228 4-92 (232)
217 PRK13922 rod shape-determining 20.8 7.4E+02 0.016 23.6 9.8 27 309-335 67-93 (276)
218 PF11833 DUF3353: Protein of u 20.8 6.3E+02 0.014 22.8 9.2 36 39-74 128-163 (194)
219 KOG3915 Transcription regulato 20.7 9.4E+02 0.02 24.8 10.2 24 293-316 502-525 (641)
220 PF04632 FUSC: Fusaric acid re 20.6 1E+03 0.022 25.9 11.6 40 25-67 391-433 (650)
221 MTH00034 CYTB cytochrome b; Va 20.4 5.1E+02 0.011 26.3 8.3 86 18-105 41-133 (379)
222 TIGR00634 recN DNA repair prot 20.4 1.1E+03 0.023 25.4 15.6 30 374-403 264-293 (563)
223 PF10177 DUF2371: Uncharacteri 20.0 73 0.0016 27.1 1.9 30 48-79 35-64 (141)
224 COG0323 MutL DNA mismatch repa 20.0 64 0.0014 35.2 2.0 44 459-503 23-66 (638)
225 PF11874 DUF3394: Domain of un 20.0 86 0.0019 28.0 2.4 38 25-65 8-45 (183)
No 1
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=100.00 E-value=8.4e-36 Score=304.82 Aligned_cols=419 Identities=19% Similarity=0.253 Sum_probs=303.8
Q ss_pred hhHHHHHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhhHHH-------HHH--hh--cccchhhHHHHHHHHHH
Q 010147 24 SDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHF-------ISL--WT--FTVHSKAVAVVMTIAKM 92 (517)
Q Consensus 24 ~~~~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~-------~~~--~~--~~~~~~~~~~~~~~~~~ 92 (517)
.|.+++..++++...+..++.+.=+...-.++++.|.+++..-.+-. +++ ++ |..|-|.+. ....-..
T Consensus 397 ~~~l~a~~~~a~~t~i~~~l~~~~~~~ni~mvFllgVlv~av~~g~~pa~~aailsvl~fNyFF~ePryTf~-v~d~~y~ 475 (890)
T COG2205 397 RDYLVAILICALATAIAIQLDKFFDLANIVMLFLLGVLVVAVLTGRWPAVLAALLSVLVFNYFFTEPRYTFA-VSDPQYL 475 (890)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhheecCCceEEE-EecCchH
Confidence 78999999999999998888777666666666667766654321111 111 00 011100000 0000011
Q ss_pred HHHHHHHHHHHHHHHhhhhccccCcHHHHHHHHHHHHHHHHHHHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHh
Q 010147 93 ACAFVSCITALMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGR 172 (517)
Q Consensus 93 ~ta~vs~~~a~~l~~l~p~~l~l~s~~~~~~~~~~~l~~~~~~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~ 172 (517)
+|-.|+++.++ +...++.+++++.+..++++++.+.++++++.+..+.+.++++.++.+.+.+
T Consensus 476 vTf~vml~vai-----------------~t~~Lt~~vr~Qa~~ar~r~~rT~~Lye~s~~L~~a~t~~~vl~~~~~qi~~ 538 (890)
T COG2205 476 VTFAVMLAVAL-----------------LTGNLTARVREQARAARRREQRTELLYEFSKKLAGARTREDILAAAGQQIAS 538 (890)
T ss_pred HHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH
Confidence 12222222222 2456788999999999999999999999999999999999999999999999
Q ss_pred hhCCceeEEEccCCCCCeEEEEEEecccccccccccc-CCchhHHHhhccCceeecCCCchhhhhhccCCCCCCceeEEe
Q 010147 173 TLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPI-NLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVR 251 (517)
Q Consensus 173 ~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (517)
+++. ++.++++++++....+. .. .+ ++. +.....+++.++++--. +.-..|....+.
T Consensus 539 ~~~~-~v~i~l~~~~~~~~~~~--~~----~~--l~~~d~aaa~W~~~~~~~AG~-------------gTdTlpg~~~~~ 596 (890)
T COG2205 539 LLNQ-RVVILLPDDNGKLQPLG--NP----DG--LSADDRAAAQWAFENGKPAGA-------------GTDTLPGAKYLY 596 (890)
T ss_pred HhCC-ceEEEEecCCccccccc--CC----cc--ccHHHHHHhhchhhCCCcccc-------------CCCCCCCCceeE
Confidence 9999 88889988665441111 10 00 111 11122233333221110 111122333344
Q ss_pred eeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 252 VPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALD 331 (517)
Q Consensus 252 ~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~ 331 (517)
.| +..++...||++.........++++..++.++++|+|.|+++..+.++..+.+-+
T Consensus 597 lP--------------l~~~~~~~gvlgv~~~~~~ll~p~~~rlL~a~~~q~AlAler~~L~~~~~~a~l~--------- 653 (890)
T COG2205 597 LP--------------LKSGGKVLGVLGVEPGLSPLLAPEQRRLLDAVLTQIALALERVTLAEEAEQARLA--------- 653 (890)
T ss_pred ee--------------cccCCceEEEEEecCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------
Confidence 55 4445556888888888666799999999999999999999999988876554421
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC--CCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 010147 332 SARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLET--DLT-PEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDG 408 (517)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~--~~~-~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~ 408 (517)
.++++.++.|++++||||||||++|.|.++.|... ..+ ++..+.+..|.+.++++..+|++|||++|+++|
T Consensus 654 ------~e~E~lRsaLL~sISHDLRTPLt~i~Gaa~tL~~~~~~l~~~~~aeLl~~I~ees~~L~rlV~NLLdmTRi~sG 727 (890)
T COG2205 654 ------AERERLRSALLASISHDLRTPLTAIMGAAETLLLDGEALSPEDRAELLSSIREESERLTRLVTNLLDMTRLQSG 727 (890)
T ss_pred ------HHHHHHHHHHHHHhhccccCcHHHHhhhHHHhhhcccccCcHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHhcC
Confidence 23445688999999999999999999999999865 334 447889999999999999999999999999999
Q ss_pred CcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCe-EEEEEEEc
Q 010147 409 SLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGY-VSIIASVA 487 (517)
Q Consensus 409 ~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~-i~i~~~~~ 487 (517)
.+.++.++..+.++|.+++..++.....+. +.++++.++|. +.+|...+.||+.||++||+||+|+|. |.|.+..+
T Consensus 728 ~~~l~~~~~~veEvVg~Al~r~~k~~~~~~--i~v~~~~dl~l-i~~D~~LieQVLiNLleNA~Kyap~~s~I~I~~~~~ 804 (890)
T COG2205 728 GVNLKLDWVLVEEVVGEALQRLRKRFTGHK--IVVSVPVDLPL-IHVDSPLIEQVLINLLENALKYAPPGSEIRINAGVE 804 (890)
T ss_pred CcccccchhhHHHHHHHHHHHhhhhcCCce--EEEecCCCCce-EecCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEEEe
Confidence 999999999999999999999887765554 66677788885 899999999999999999999999764 88888877
Q ss_pred CCC-ccccCCCCCCCCCCCCCceEEEEE
Q 010147 488 KPE-SLSDWRPPEFYPVSTDGHFYLRVQ 514 (517)
Q Consensus 488 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 514 (517)
.+. .+.++|+|+|+|......+|-+|.
T Consensus 805 ~~~v~~~V~DeGpGIP~~~~~~IFD~F~ 832 (890)
T COG2205 805 RENVVFSVIDEGPGIPEGELERIFDKFY 832 (890)
T ss_pred cceEEEEEEeCCCCCChhHHHHhhhhhh
Confidence 654 355889999999888888887775
No 2
>PRK10490 sensor protein KdpD; Provisional
Probab=99.97 E-value=1.2e-27 Score=264.95 Aligned_cols=334 Identities=18% Similarity=0.231 Sum_probs=236.3
Q ss_pred HHHHHHHHHHHHHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecccccc
Q 010147 124 NRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQI 203 (517)
Q Consensus 124 ~~~~~l~~~~~~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~ 203 (517)
.+..+++++....++++++.+.++++++.++.+.+.+++++.+.+.+.+.++. .+++|++++++.........
T Consensus 493 ~l~~r~r~~a~~a~~re~~~~~L~els~~L~~a~~~~~i~~~~~~~l~~~~~~-~~~l~l~~~~g~~~~~~~~~------ 565 (895)
T PRK10490 493 NLTAGVRYQARVARYREQRTRHLYEMSKALAVGLSPEDIAATSEHFLASTFQA-RSQLLLPDDNGKLQPLTHDQ------ 565 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhCC-CEEEEEEcCCCccccccccc------
Confidence 45566677777788899999999999999999999999999999999999997 55688887655432111100
Q ss_pred ccccccCCchhHHHhhccCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecC
Q 010147 204 GSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD 283 (517)
Q Consensus 204 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~ 283 (517)
...+.+.....+.+....+.-.. ....+......+|+...+ ..+|++++...
T Consensus 566 -~~~~~~~~~~~w~~~~~~~~g~~-------------~~tl~~~~~~~lPl~~~~--------------~~~Gvl~l~~~ 617 (895)
T PRK10490 566 -GMTPWDDAIARWSFDKGQPAGAG-------------TDTLPGVPYQILPLKSAQ--------------KTYGLLAVEPG 617 (895)
T ss_pred -cccchHHHHHHHHHhcCCccccC-------------cCcCCCCceEEEEEEECC--------------EEEEEEEEecC
Confidence 00111112222333322211100 001122233456754333 34777777665
Q ss_pred C-CCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010147 284 G-GRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAI 362 (517)
Q Consensus 284 ~-~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I 362 (517)
. ...|++++.++++.++.+++.++++..+..+..+.+ ...+.++.+++|++.++||+||||++|
T Consensus 618 ~~~~~~~~~~~~ll~~la~~~a~aler~~l~~~~~~~~---------------l~~e~e~lr~~lla~isHELrtPLt~I 682 (895)
T PRK10490 618 NLRQLMIPEQQRLLETFTLLIANALERLTLTASEEQAR---------------LASEREQLRNALLAALSHDLRTPLTVL 682 (895)
T ss_pred cccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------HHHHHHHHHHHHHHHhHHHHhHHHHHH
Confidence 4 457899999999999999999998876544322111 111223457789999999999999999
Q ss_pred HHHHHHHhcCC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcE
Q 010147 363 IALSSLLLETD--LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLS 440 (517)
Q Consensus 363 ~~~~~~l~~~~--~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~ 440 (517)
.++++++.... .+.+..+.++.+.+.+.++..++++++++++++.+...++.+++++.+++++++..+......+++.
T Consensus 683 ~g~~~lL~~~l~~~~~~~~~~~~~i~~~~~~l~~li~~LL~~srl~~~~~~l~~~~~~L~eli~~~l~~l~~~~~~~~i~ 762 (895)
T PRK10490 683 FGQAEILTLDLASEGSPHARQASEIRQQVLNTTRLVNNLLDMARIQSGGFNLRKEWLTLEEVVGSALQMLEPGLSGHPIN 762 (895)
T ss_pred HHHHHHHhhcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccccCHHHHHHHHHHHHHHHhcCCCEE
Confidence 99999886542 2334456788999999999999999999999999998999999999999999999998877666555
Q ss_pred EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-eEEEEEEEcCCC-ccccCCCCCCCCCCCCCceE
Q 010147 441 MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPE-SLSDWRPPEFYPVSTDGHFY 510 (517)
Q Consensus 441 i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g-~i~i~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 510 (517)
+ +++++.|. +.+|+..+.||+.||++||+||+++| .|.|.+...++. .+.+.++|+++|.....++|
T Consensus 763 l--~~~~~~~~-v~~D~~~L~qVL~NLL~NAik~s~~g~~I~I~~~~~~~~v~I~V~D~G~GI~~e~~~~IF 831 (895)
T PRK10490 763 L--SLPEPLTL-IHVDGPLFERVLINLLENAVKYAGAQAEIGIDAHVEGERLQLDVWDNGPGIPPGQEQLIF 831 (895)
T ss_pred E--EcCCCCeE-EEECHHHHHHHHHHHHHHHHHhCCCCCeEEEEEEEeCCEEEEEEEECCCCCCHHHHHHhc
Confidence 4 45566654 88999999999999999999999754 677777654433 24455777776644333333
No 3
>TIGR02916 PEP_his_kin putative PEP-CTERM system histidine kinase. Members of this protein family have a novel N-terminal domain, a single predicted membrane-spanning helix, and a predicted cystosolic histidine kinase domain. We designate this protein PrsK, and its companion DNA-binding response regulator protein (TIGR02915) PrsR. These predicted signal-transducing proteins appear to enable enhancer-dependent transcriptional activation. The prsK gene is often associated with exopolysaccharide biosynthesis genes.
Probab=99.95 E-value=6.8e-25 Score=238.76 Aligned_cols=313 Identities=16% Similarity=0.107 Sum_probs=216.6
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccccccccccccCCchhHHHhhccCcee
Q 010147 146 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMR 225 (517)
Q Consensus 146 l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (517)
+.++++.+++..+.+++++.+++.+.+.++.+.+++|+.++++..+.....++.+.. ....+.+.+........+....
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 468899999999999999999999999999999999999988876665555543322 2234444555555555544443
Q ss_pred ecCCCchhhhhhc---cCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecC-CCCccccchhHHHHHHHH
Q 010147 226 LPYNCPLARIRLL---VGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GGRKWRDHELELIDVVAD 301 (517)
Q Consensus 226 ~~~~~~~~~~~~~---~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~-~~~~~~~~e~~ll~~va~ 301 (517)
.++....+..... ...........+++|+...++ ..|++++.+. .++.|+++|.++++.++.
T Consensus 386 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vPL~~~~~--------------~~G~l~l~~~~~~~~~~~e~~~lL~~l~~ 451 (679)
T TIGR02916 386 LEEARSEPDHYSGLVLPEWLREIPNAWLIVPLISGEE--------------LVGFVVLARPRTAGEFNWEVRDLLKTAGR 451 (679)
T ss_pred chhhcCCcccccccccchhhhcCCCceEEEEeccCCE--------------EEEEEEEecCCCCCCCCHHHHHHHHHHHH
Confidence 3332211110000 001111133456777644333 3555555544 566899999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCH-HHHH
Q 010147 302 QVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTP-EQRV 380 (517)
Q Consensus 302 qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~-~~~~ 380 (517)
|++.++++.+..++..+.+ ..++.+++.+.++||+|||++.+....+...+...++ ..++
T Consensus 452 q~a~~l~~~~~~~~l~~~~-------------------~~~~~~~~~a~i~HdLrn~l~~l~~~l~~~~~~~~~~~~~~~ 512 (679)
T TIGR02916 452 QAASYLAQMEASEALAEAR-------------------QFEAFNRMSAFVVHDLKNLVAQLSLLLRNAERHKDNPEFQDD 512 (679)
T ss_pred HHHHHHHHHHHHHHHHHHH-------------------HHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhcccCHHHHHH
Confidence 9999998877665543221 1234577889999999999999998888877654444 4667
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHH
Q 010147 381 MIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRL 460 (517)
Q Consensus 381 ~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l 460 (517)
+++.+.++.+++.++++++.+... +.+.+++++.++++++.+..... ...+.+ +++++ . .+.+|+..+
T Consensus 513 ~l~~i~~~~~rl~~ll~~l~~~~~------~~~~~~~~l~~ll~~~~~~~~~~--~~~~~l--~~~~~-~-~v~~d~~~l 580 (679)
T TIGR02916 513 MLETVENAVNRMKKLLAQLRSKGL------EEEKLCVDLVDLLRRAIASKRAQ--GPRPEV--SIDTD-L-SVRADRERL 580 (679)
T ss_pred HHHHHHHHHHHHHHHHHHHHhccc------ccCCccccHHHHHHHHHHHhhhh--cCCceE--EeCCC-c-eEEECHHHH
Confidence 889999999999999988865432 45566899999999999877642 233444 44444 2 488899999
Q ss_pred HHHHHHHHHHHhhcCC-CCeEEEEEEEcCCCc-cccCCCCCCCCCC
Q 010147 461 MQTILNIVGNAVKFTK-EGYVSIIASVAKPES-LSDWRPPEFYPVS 504 (517)
Q Consensus 461 ~qvl~NLl~NAik~~~-~g~i~i~~~~~~~~~-~~~~~~~~~~~~~ 504 (517)
.+|+.||++||+||++ +|.|.|.+...++.- +.+.|+|.+.|..
T Consensus 581 ~~vl~nLl~NAik~~~~~~~I~I~~~~~~~~~~i~V~D~G~Gi~~~ 626 (679)
T TIGR02916 581 ERVLGHLVQNALEATPGEGRVAIRVERECGAARIEIEDSGCGMSPA 626 (679)
T ss_pred HHHHHHHHHHHHHhCCCCCcEEEEEEEcCCEEEEEEEEcCCCcChH
Confidence 9999999999999987 578888887655332 3345666666543
No 4
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.94 E-value=2.6e-23 Score=231.03 Aligned_cols=325 Identities=14% Similarity=0.184 Sum_probs=222.5
Q ss_pred HHHHHHHHHHHHhHHHHhHHHHHHHHHHHcccCHH--HHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecccccc
Q 010147 126 ADELDREMGLILTQEETGRHVRMLTHEIRSTLDRH--TILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQI 203 (517)
Q Consensus 126 ~~~l~~~~~~l~~~~~~~~~l~~l~~~i~~s~d~~--~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~ 203 (517)
..++++....++++++..+.+.+++..+..+.+.+ +.++.++..+.+.++.++|.+++.+.++........ + ...
T Consensus 259 ~~~~~~~~~~l~~r~~~e~~l~~l~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~l~~~~~~~~~~~~~-~--~~~ 335 (828)
T PRK13837 259 VLRLRARTRVLRRRAAFEEVIAAISRCFEAASPHELEASIEAALGILAKFFDADSAALALVDVGGRARIWTFP-G--LTP 335 (828)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCeeeccCC-c--cCC
Confidence 34455556667777888888999999998775555 899999999999999999999999877765432211 0 000
Q ss_pred cccccc-CCchhHHHhhccCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeec
Q 010147 204 GSSVPI-NLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPT 282 (517)
Q Consensus 204 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~ 282 (517)
...++. ..................+........ ......+....+++|+.. ++...+++++..
T Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~--------------~~~~~g~l~~~~ 399 (828)
T PRK13837 336 DPVWPDRLRALASTVKAAERDVVFVDRNGPVRKR--SCLTRRGPALWACLAFKS--------------GDRIVALLGLGR 399 (828)
T ss_pred CCCchHHHHHHHHHHhccCCceEEeecccchhhh--cccccCCcceEEEEEecc--------------CCceEEEEEecc
Confidence 000100 001111222222222221111111110 111122334445555432 333355555544
Q ss_pred C-CCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 010147 283 D-GGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHA 361 (517)
Q Consensus 283 ~-~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~ 361 (517)
. ....+..+++.+++.++++++.++++.+..++..+.++++++. +..+++++|++++|||+||||++
T Consensus 400 ~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~e~~~l~~~l~~~------------~rl~~l~~~~~~iaHeLrtPL~~ 467 (828)
T PRK13837 400 QRYGLRPPAGELQLLELALDCLAHAIERRRLETERDALERRLEHA------------RRLEAVGTLASGIAHNFNNILGA 467 (828)
T ss_pred cccCCCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHhhHHhhhHHHH
Confidence 3 3445668999999999999999998887766655444333211 22346789999999999999999
Q ss_pred HHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcE
Q 010147 362 IIALSSLLLET-DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLS 440 (517)
Q Consensus 362 I~~~~~~l~~~-~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~ 440 (517)
|.++++++.+. ..+++.+++++.+.++++++..+++++++++|... ...+++|+.+++++++..+.... .+++.
T Consensus 468 I~~~~~~l~~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~----~~~~~~~l~~ll~~~~~~~~~~~-~~~i~ 542 (828)
T PRK13837 468 ILGYAEMALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGE----RNTKPFDLSELVTEIAPLLRVSL-PPGVE 542 (828)
T ss_pred HHHHHHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC----CCCcEEcHHHHHHHHHHHHHHHc-cCCcE
Confidence 99999998764 34557788999999999999999999999998553 34568999999999999887644 56788
Q ss_pred EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-CCeEEEEEEEc
Q 010147 441 MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-EGYVSIIASVA 487 (517)
Q Consensus 441 i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-~g~i~i~~~~~ 487 (517)
+.++.+++.+ .+.+|+..+.||+.||++||+||++ +|.|.|.+...
T Consensus 543 l~~~~~~~~~-~v~~d~~~L~qvl~NLl~NAik~~~~~g~I~I~~~~~ 589 (828)
T PRK13837 543 LDFDQDQEPA-VVEGNPAELQQVLMNLCSNAAQAMDGAGRVDISLSRA 589 (828)
T ss_pred EEEEeCCCCc-eEEECHHHHHHHHHHHHHHHHHHcccCCeEEEEEEEe
Confidence 8887766544 5889999999999999999999986 57788877764
No 5
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.92 E-value=1.5e-22 Score=224.79 Aligned_cols=166 Identities=31% Similarity=0.449 Sum_probs=148.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccc
Q 010147 338 EKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPF 417 (517)
Q Consensus 338 ~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~ 417 (517)
+++++.+++|++++|||+||||++|.|+++++.+...+++++++++.+..+++++..++++++++++++.+...+..+++
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 34455688999999999999999999999999887788889999999999999999999999999999999989999999
Q ss_pred cHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCc--cccC
Q 010147 418 NLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPES--LSDW 495 (517)
Q Consensus 418 ~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~--~~~~ 495 (517)
|+.++++++...+...+..+++.+.++.+++.|..+.+|+.++.||+.||++||+||+++|++++.+....++. +.+.
T Consensus 357 ~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~d~~~l~qvl~NLl~NAik~~~~g~v~i~~~~~~~~~~~i~V~ 436 (779)
T PRK11091 357 DFTDFLADLENLSGLQAEQKGLRFDLEPLLPLPHKVITDGTRLRQILWNLISNAVKFTQQGGVTVRVRYEEGDMLTFEVE 436 (779)
T ss_pred CHHHHHHHHHHHHHHHHHhcCCEEEEEeCCCCCceEEeCHHHHHHHHHHHHHHHHHhCCCCcEEEEEEEccCCEEEEEEE
Confidence 99999999999999999999999999988888877899999999999999999999999999999888764443 3345
Q ss_pred CCCCCCCC
Q 010147 496 RPPEFYPV 503 (517)
Q Consensus 496 ~~~~~~~~ 503 (517)
++|.|+|.
T Consensus 437 D~G~Gi~~ 444 (779)
T PRK11091 437 DSGIGIPE 444 (779)
T ss_pred ecCCCCCH
Confidence 77777664
No 6
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=99.89 E-value=4.3e-22 Score=218.79 Aligned_cols=188 Identities=20% Similarity=0.274 Sum_probs=161.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010147 326 QNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRL 405 (517)
Q Consensus 326 ~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~ 405 (517)
.++++++++++++++.+++.+|+++||||+||||++|.++++.+.+...+++.+++++.+.++++++..+++++++++|+
T Consensus 432 ~~~~L~~a~~~le~~~~~k~~fla~iSHELRtPL~aI~g~~elL~~~~~~~~~~~~l~~I~~~~~~L~~lI~dILdlsrl 511 (894)
T PRK10618 432 VNKKLQQAQREYEKNQQARKAFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQQQPELDQLAEQSDVLVRLVDNIQLLNML 511 (894)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34566777778888889999999999999999999999999999887778888999999999999999999999999999
Q ss_pred cCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEE
Q 010147 406 EDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIAS 485 (517)
Q Consensus 406 ~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~ 485 (517)
++++..++.+++++.+++++++..+.+.+..+++.+.+..+.+.+..+.+|+.+++||+.||++||+||++.|.|++.+.
T Consensus 512 e~~~~~l~~~~~~L~~ll~~vl~~~~~~a~~k~i~l~~~~~~~~~~~v~~D~~~L~QVL~NLL~NAik~t~~G~I~I~v~ 591 (894)
T PRK10618 512 ETQDWKPEQELFSLQDLIDEVLPEVLPAIKRKGLQLLIHNHLKAEQLRIGDRDALRKILLLLLNYAITTTAYGKITLEVD 591 (894)
T ss_pred hcCCCcccceeECHHHHHHHHHHHHHHHHHHCCCEEEEEeCCCCCcEEEecHHHHHHHHHHHHHHHHHhCCCCeEEEEEE
Confidence 99999999999999999999999999999999999998887666667899999999999999999999999999998887
Q ss_pred EcCCC--c--cccCCCCCCCCCCCCCceEEEE
Q 010147 486 VAKPE--S--LSDWRPPEFYPVSTDGHFYLRV 513 (517)
Q Consensus 486 ~~~~~--~--~~~~~~~~~~~~~~~~~~~~~~ 513 (517)
..... . +.+.++|+|+|...-.++|.+|
T Consensus 592 ~~~~~~~~l~I~V~DtG~GI~~e~l~~IFePF 623 (894)
T PRK10618 592 QDESSPDRLTIRILDTGAGVSIKELDNLHFPF 623 (894)
T ss_pred EccCCCcEEEEEEEECCCCCCHHHHHHhcCcc
Confidence 65432 2 3355777776644444444443
No 7
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=99.88 E-value=1e-21 Score=218.91 Aligned_cols=177 Identities=27% Similarity=0.408 Sum_probs=154.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010147 326 QNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRL 405 (517)
Q Consensus 326 ~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~ 405 (517)
.++++++++++++++++++.+|++++|||+||||++|.|+++++.....+++.+++++.+.++++++..+|+++++++|+
T Consensus 429 ~e~~L~~~~~~~e~a~~~k~~fla~iSHELRTPL~~I~g~lelL~~~~~~~~~~~~l~~i~~~~~~L~~lI~dlLd~sri 508 (924)
T PRK10841 429 MEESLQEMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSKI 508 (924)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34455666667777888899999999999999999999999999888888889999999999999999999999999999
Q ss_pred cCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEE
Q 010147 406 EDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIAS 485 (517)
Q Consensus 406 ~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~ 485 (517)
+.+...++.+++++.+++++++..+.+.+..+++.+.+.++++.|..+.+|+.+++||+.||++||+||+++|+|++.+.
T Consensus 509 e~~~~~l~~~~~~l~~li~~v~~~~~~~~~~k~i~l~~~i~~~~~~~v~~D~~~L~qvl~NLl~NAik~t~~G~I~I~v~ 588 (924)
T PRK10841 509 ESEQLKIEPREFSPREVINHITANYLPLVVKKRLGLYCFIEPDVPVALNGDPMRLQQVISNLLSNAIKFTDTGCIVLHVR 588 (924)
T ss_pred cCCCceeeeEEecHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCCcEEEECHHHHHHHHHHHHHHHHhhCCCCcEEEEEE
Confidence 99998999999999999999999999999999999999888888877999999999999999999999999999988877
Q ss_pred EcCCC-ccccCCCCCCCC
Q 010147 486 VAKPE-SLSDWRPPEFYP 502 (517)
Q Consensus 486 ~~~~~-~~~~~~~~~~~~ 502 (517)
..++. .+.+.++|.|+|
T Consensus 589 ~~~~~l~i~V~DtG~GI~ 606 (924)
T PRK10841 589 VDGDYLSFRVRDTGVGIP 606 (924)
T ss_pred EeCCEEEEEEEEcCcCCC
Confidence 64332 133446666554
No 8
>PRK09303 adaptive-response sensory kinase; Validated
Probab=99.87 E-value=5.2e-21 Score=193.96 Aligned_cols=182 Identities=19% Similarity=0.269 Sum_probs=149.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCC-------HHHHHHHHHHHHHHHHHHHH
Q 010147 323 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLT-------PEQRVMIETVLKSSNLLTTL 395 (517)
Q Consensus 323 l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~-------~~~~~~l~~i~~~~~rl~~l 395 (517)
+.+....++++++++.+..+.+++|++++|||+||||++|.++++++.+...+ +..+++++.+.+.++++..+
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 33333445555666666777899999999999999999999999999854222 33677899999999999999
Q ss_pred HHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC
Q 010147 396 VDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT 475 (517)
Q Consensus 396 i~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~ 475 (517)
+++++++++.+.+...++.+++|+.+++++++..+...+..+++.+.++++++.|. +.+|+..+.||+.||++||+||+
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 99999999999888888889999999999999999999999999999998887775 88999999999999999999999
Q ss_pred CC-CeEEEEEEEcCCCc--cccCCCCCCCCCCC
Q 010147 476 KE-GYVSIIASVAKPES--LSDWRPPEFYPVST 505 (517)
Q Consensus 476 ~~-g~i~i~~~~~~~~~--~~~~~~~~~~~~~~ 505 (517)
++ |.|.+.+...+++. +.+.++|+|+|...
T Consensus 289 ~~~~~I~i~~~~~~~~~v~i~V~D~G~GI~~~~ 321 (380)
T PRK09303 289 PEGGTITLSMLHRTTQKVQVSICDTGPGIPEEE 321 (380)
T ss_pred CCCceEEEEEEecCCCEEEEEEEEcCCCCCHHH
Confidence 75 67777765544443 33557777766443
No 9
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS. This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (pfam02518), HAMP (pfam00672), phosphoacceptor (pfam00512), and phosphotransfer (pfam01627) domains and a response regulator receiver domain (pfam00072).
Probab=99.87 E-value=6.7e-21 Score=216.92 Aligned_cols=173 Identities=33% Similarity=0.498 Sum_probs=155.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 010147 332 SARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLE 411 (517)
Q Consensus 332 ~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~ 411 (517)
+++.+.+++++++.+|++.+|||+||||+.|.|+++++.+...+++++++++.+.++++++..++++++++++++.+...
T Consensus 452 ~~~~~~~~~~~~~~~~~~~~sHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~~i~~ll~~~~~e~~~~~ 531 (968)
T TIGR02956 452 KARAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGLTSQQQQYLQVINRSGESLLDILNDILDYSKIEAGHLS 531 (968)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHhhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCe
Confidence 34566677788999999999999999999999999999988888899999999999999999999999999999999989
Q ss_pred cccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCc
Q 010147 412 LDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPES 491 (517)
Q Consensus 412 l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~ 491 (517)
++.+++++.+++++++..+...+..+++.+.++++++.|..+.+|+.++.||+.||++||+||+++|.|+|.+...++..
T Consensus 532 ~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~d~~~l~~il~nLi~NAik~~~~g~i~i~~~~~~~~~ 611 (968)
T TIGR02956 532 ISPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIPEQLPNWWQGDGPRIRQVLINLVGNAIKFTDRGSVVLRVSLNDDSS 611 (968)
T ss_pred eeecccCHHHHHHHHHHHHHHHHHHcCcEEEEEeCCCCCceEeeCHHHHHHHHHHHHHHHHhhCCCCeEEEEEEEcCCCe
Confidence 99999999999999999999999999999999998888877899999999999999999999999999999888766542
Q ss_pred --cccCCCCCCCCCC
Q 010147 492 --LSDWRPPEFYPVS 504 (517)
Q Consensus 492 --~~~~~~~~~~~~~ 504 (517)
+.+.++|.|+|..
T Consensus 612 ~~i~V~D~G~Gi~~~ 626 (968)
T TIGR02956 612 LLFEVEDTGCGIAEE 626 (968)
T ss_pred EEEEEEeCCCCCCHH
Confidence 3355777776643
No 10
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=99.86 E-value=2.2e-20 Score=211.69 Aligned_cols=183 Identities=37% Similarity=0.562 Sum_probs=157.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 321 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVL 400 (517)
Q Consensus 321 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll 400 (517)
++++.++.+++.++++.+++++.+.+|++++|||+||||++|.|+++.+.+...+++++++++.+.++++++..++++++
T Consensus 270 ~~l~~~~~~l~~~~~~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll 349 (919)
T PRK11107 270 EQMEIQNVELDLAKKRAQEAARIKSEFLANMSHELRTPLNGVIGFTRQTLKTPLTPTQRDYLQTIERSANNLLAIINDIL 349 (919)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhcccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555666677777888888999999999999999999999999998877888899999999999999999999999
Q ss_pred HHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeE
Q 010147 401 DLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYV 480 (517)
Q Consensus 401 ~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i 480 (517)
++++++.++..++..++++.+++++++..+...+..+++.+.++++++.|..+.+|+.++.||+.||++||+||+++|.+
T Consensus 350 ~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~d~~~l~~vl~NLl~NAik~~~~g~v 429 (919)
T PRK11107 350 DFSKLEAGKLVLENIPFSLRETLDEVVTLLAHSAHEKGLELTLNIDPDVPDNVIGDPLRLQQIITNLVGNAIKFTESGNI 429 (919)
T ss_pred HHHHHhcCCcEEEEeecCHHHHHHHHHHHHHHHHHHcCCEEEEEeCCCCCceEEeCHHHHHHHHHHHHHHHhhcCCCCcE
Confidence 99999999988899999999999999999999999999999999988888778899999999999999999999999988
Q ss_pred EEEEEEcCC--Cc----cccCCCCCCCCC
Q 010147 481 SIIASVAKP--ES----LSDWRPPEFYPV 503 (517)
Q Consensus 481 ~i~~~~~~~--~~----~~~~~~~~~~~~ 503 (517)
.|.+..... +. +.+.++|.|+|.
T Consensus 430 ~i~v~~~~~~~~~~~~~i~V~D~G~Gi~~ 458 (919)
T PRK11107 430 DILVELRALSNTKVQLEVQIRDTGIGISE 458 (919)
T ss_pred EEEEEEEecCCCeeEEEEEEEEeCCCcCH
Confidence 777764322 11 234466666654
No 11
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=99.86 E-value=1.3e-20 Score=213.39 Aligned_cols=183 Identities=26% Similarity=0.381 Sum_probs=159.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 323 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDL 402 (517)
Q Consensus 323 l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~ 402 (517)
..++.+++++++++.+++++.+.+|.++++||+||||++|.++++++.+...+++++++++.+..+++++..++++++++
T Consensus 377 ~~e~~~~l~~~~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~li~~ll~~ 456 (921)
T PRK15347 377 VAERTQALAEAKQRAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNTPLTAEQMDLADTARQCTLSLLAIINNLLDF 456 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhchhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556666677777778899999999999999999999999999988888889999999999999999999999999
Q ss_pred hhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEE
Q 010147 403 SRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSI 482 (517)
Q Consensus 403 sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i 482 (517)
+|++.+...++.+++++.++++++...+...+..+++.+++..+++.|..+.+|+.+++||+.||++||+||+++|.|.|
T Consensus 457 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~l~~il~NLl~NAik~~~~g~I~i 536 (921)
T PRK15347 457 SRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLTLRTFVGAHVPLYLHLDSLRLRQILVNLLGNAVKFTETGGIRL 536 (921)
T ss_pred HHHhcCCccceecccCHHHHHHHHHHHHHHHHHHCCcEEEEEECCCCCceEEECHHHHHHHHHHHHHHHhhcCCCCCEEE
Confidence 99999999999999999999999999999999999999999888888877899999999999999999999999999998
Q ss_pred EEEEcCCC-ccccCCCCCCCCCCC
Q 010147 483 IASVAKPE-SLSDWRPPEFYPVST 505 (517)
Q Consensus 483 ~~~~~~~~-~~~~~~~~~~~~~~~ 505 (517)
.+...++. .+.+.++|.|++...
T Consensus 537 ~~~~~~~~~~i~V~D~G~Gi~~~~ 560 (921)
T PRK15347 537 RVKRHEQQLCFTVEDTGCGIDIQQ 560 (921)
T ss_pred EEEEcCCEEEEEEEEcCCCCCHHH
Confidence 88765433 234557777765433
No 12
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.85 E-value=1.3e-21 Score=181.86 Aligned_cols=171 Identities=20% Similarity=0.313 Sum_probs=139.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccH
Q 010147 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE--QRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 419 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~--~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l 419 (517)
+.+..|.+++|||+||||+++.+|++.|.+....+. ...++..-.+..+||..+|+||+.+||++.....++.+.+|+
T Consensus 223 ~ErRefvanvSHElRTPltsmksyLEALe~ga~~d~eiAp~Fl~vt~~ETeRMiRlV~DLl~lsr~d~~~~qln~e~inf 302 (459)
T COG5002 223 RERREFVANVSHELRTPLTSMKSYLEALEEGAWEDKEIAPRFLRVTLNETERMIRLVNDLLQLSRMDNARYQLNKEWINF 302 (459)
T ss_pred HHHHHHHHhcchhhcCchHHHHHHHHHHhcCCccChhhhhHHHHHhHHHHHHHHHHHHHHHHHccCcchhhhhhHHHHHh
Confidence 346789999999999999999999999998754333 678999999999999999999999999999998999999999
Q ss_pred HHHHHHHHHHHhhhhhcCCcE-EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeEEEEEEEcCCC-ccccCC
Q 010147 420 QIVLREVIKLIKPVASCKKLS-MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPE-SLSDWR 496 (517)
Q Consensus 420 ~~li~~~~~~~~~~~~~~~i~-i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i~i~~~~~~~~-~~~~~~ 496 (517)
...+..+++.+........+. +.-.. +.-+.+|..|++++.||+.|+++||+||+|+ |+|++.+...+.. .+...+
T Consensus 303 t~fl~~ii~R~e~~~~~e~~~~~vR~~-p~~~~~veiD~DK~tQVldNii~NA~KYsP~Gg~Itv~~~~~~~~v~iSI~D 381 (459)
T COG5002 303 TAFLNEIINRFEMILKKETIARFVRDI-PKQDIWVEIDPDKMTQVLDNIISNALKYSPDGGRITVSVKQRETWVEISISD 381 (459)
T ss_pred HHHHHHHHHHHHHHHhhHHHHHHHhcC-CCCceEEEeChhHHHHHHHHHHHHHhhcCCCCCeEEEEEeeeCcEEEEEEcc
Confidence 999999999998775444432 22222 4456689999999999999999999999995 6788888764322 244668
Q ss_pred CCCCCCCCCCCceEEEE
Q 010147 497 PPEFYPVSTDGHFYLRV 513 (517)
Q Consensus 497 ~~~~~~~~~~~~~~~~~ 513 (517)
.|.++|..+-..+|-||
T Consensus 382 ~G~gIPk~d~~~iFdrf 398 (459)
T COG5002 382 QGLGIPKEDLEKIFDRF 398 (459)
T ss_pred CCCCCCchhHHHHHHHH
Confidence 88888877766666554
No 13
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=99.85 E-value=2.4e-18 Score=171.79 Aligned_cols=156 Identities=26% Similarity=0.362 Sum_probs=132.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010147 328 VALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLET---DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (517)
Q Consensus 328 ~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~---~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr 404 (517)
+++.+.+.++++.++...+|++.++||+|+||+.|.++++++.+. ..+++.++++..+.+.+.+|.++|++++.+|+
T Consensus 508 eela~l~r~lersn~el~~f~yv~sHdlqePl~~I~~~a~lL~~~~~~~~d~~~~~~i~~~~~~~~~~~~lidd~l~~s~ 587 (750)
T COG4251 508 EELAQLRRELERSNAELRAFAYVASHDLQEPLRQISNYAQLLSERYSDALDEEAKEFITFISRLTSLMQQLIDDLLTYSK 587 (750)
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHhhhhhhHHHHHHHHHHHhhhhccccccChHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Confidence 445566778888888999999999999999999999999999865 56788999999999999999999999999999
Q ss_pred hcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC--eEEE
Q 010147 405 LEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG--YVSI 482 (517)
Q Consensus 405 ~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g--~i~i 482 (517)
++.. ....++.|+++++.+++..+.......++.+++. + +|. +.+|+.++.||+.||+.||+||..++ .|.|
T Consensus 588 l~~~--~~~l~~td~~~vv~~vl~~l~~ri~dtgaei~i~--~-lp~-v~~d~~~l~qv~~NLi~Naik~~~~e~~~i~I 661 (750)
T COG4251 588 LGLT--EAPLQPTDVQKVVDKVLLELSQRIADTGAEIRIA--P-LPV-VAADATQLGQVFQNLIANAIKFGGPENPDIEI 661 (750)
T ss_pred hccc--cCCCCCcchHHHHHHHHHhcccccccccceEEec--c-cce-eecCHHHHHHHHHHHHhhheecCCCCCCceEE
Confidence 8755 4455599999999999999999999999888873 4 775 88999999999999999999998655 4444
Q ss_pred EEEEcCC
Q 010147 483 IASVAKP 489 (517)
Q Consensus 483 ~~~~~~~ 489 (517)
.....++
T Consensus 662 ~~~r~ed 668 (750)
T COG4251 662 SAERQED 668 (750)
T ss_pred eeeccCC
Confidence 4334333
No 14
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=99.85 E-value=5.5e-20 Score=208.07 Aligned_cols=186 Identities=27% Similarity=0.401 Sum_probs=158.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHH
Q 010147 318 RARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVD 397 (517)
Q Consensus 318 ~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~ 397 (517)
...+++.+...++++++.+.++..+++.+|++.+|||+||||++|.|+++++.+...+++.+++++.+.++++++..+++
T Consensus 418 ~~~~el~~~~~~~~~~~~~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~ 497 (914)
T PRK11466 418 ARTAELQELVIEHRQARAEAEKASQAKSAFLAAMSHEIRTPLYGILGTAQLLADNPALNAQRDDLRAITDSGESLLTILN 497 (914)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444555555666667777788889999999999999999999999999998887788889999999999999999999
Q ss_pred HHHHHhhhcCCC--cccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC
Q 010147 398 DVLDLSRLEDGS--LELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT 475 (517)
Q Consensus 398 ~ll~~sr~~~~~--~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~ 475 (517)
+++++++++.+. ..++.+++++.+++++++..+...+..+++.+.++++++.|..+.+|+.++.||+.||++||+||+
T Consensus 498 ~ll~~s~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~d~~~l~qil~NLl~NAik~~ 577 (914)
T PRK11466 498 DILDYSAIEAGGKNVSVSDEPFEPRPLLESTLQLMSGRVKGRPIRLATDIADDLPTALMGDPRRIRQVITNLLSNALRFT 577 (914)
T ss_pred HHHHHHHHhCCCCcceecccccCHHHHHHHHHHHHHHHHHhCCcEEEEEeCCCCCceEEECHHHHHHHHHHHHHHHHHhC
Confidence 999999998774 456778999999999999999999999999999998888887789999999999999999999999
Q ss_pred CCCeEEEEEEEcCCCc-cccCCCCCCCCC
Q 010147 476 KEGYVSIIASVAKPES-LSDWRPPEFYPV 503 (517)
Q Consensus 476 ~~g~i~i~~~~~~~~~-~~~~~~~~~~~~ 503 (517)
++|.|.|.+...+..- +.+.++|.|+|.
T Consensus 578 ~~g~I~i~~~~~~~~~~i~V~D~G~Gi~~ 606 (914)
T PRK11466 578 DEGSIVLRSRTDGEQWLVEVEDSGCGIDP 606 (914)
T ss_pred CCCeEEEEEEEcCCEEEEEEEECCCCCCH
Confidence 9999998887654321 334466666654
No 15
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=99.81 E-value=2.8e-17 Score=170.00 Aligned_cols=165 Identities=20% Similarity=0.215 Sum_probs=130.1
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~-~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~ 421 (517)
++.+|+++++||+||||++|.++++++.+.. .++...++++.+.++++++..++++++++++.+.+......+++++..
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 3567999999999999999999999998654 345677899999999999999999999999998876666677899999
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeEEEEEEEcCCC-ccccCCCCC
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPE-SLSDWRPPE 499 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i~i~~~~~~~~-~~~~~~~~~ 499 (517)
+++.+...+.... .+++.+.++.+++. .+.+|+.++.|++.||++||+||+++ |.|.+.+...++. .+.+.++|+
T Consensus 283 ~~~~l~~~~~~~~-~~~~~i~~~~~~~~--~i~~d~~~l~~vl~NLl~NAik~~~~~~~I~i~~~~~~~~~~i~V~D~G~ 359 (430)
T PRK11006 283 MLRVLEREAQTLS-QGKHTITFEVDNSL--KVFGNEDQLRSAISNLVYNAVNHTPEGTHITVRWQRVPQGAEFSVEDNGP 359 (430)
T ss_pred HHHHHHHHHHHHh-cCCcEEEEecCCCc--eEEECHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEEcCCEEEEEEEEcCC
Confidence 9988887776554 67788888776654 37889999999999999999999985 5677776654433 234557777
Q ss_pred CCCCCCCCceE
Q 010147 500 FYPVSTDGHFY 510 (517)
Q Consensus 500 ~~~~~~~~~~~ 510 (517)
|+|.....++|
T Consensus 360 Gi~~~~~~~if 370 (430)
T PRK11006 360 GIAPEHIPRLT 370 (430)
T ss_pred CCCHHHHHHhc
Confidence 66643333333
No 16
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.81 E-value=2.5e-21 Score=210.17 Aligned_cols=485 Identities=41% Similarity=0.514 Sum_probs=385.2
Q ss_pred CCCccCCC--CCCchhHHHHHHHhhhHHHHHHHHhHHHHHHHHHHhcCCCc-hHHHHHHHHHHHHHhhhHHHHHHhh-cc
Q 010147 2 ESCDCIDT--QWPPDELLVRYQYISDILIALAYFSIPVELIYFVQKSAFFP-YRWVLMQFGSFIILCGLTHFISLWT-FT 77 (517)
Q Consensus 2 ~~~~~~~~--~~~~~~~~~~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~~~-~~~~~~~~~~fi~~cg~~h~~~~~~-~~ 77 (517)
+.|+|.+. .|+.......-++.+|.+|+.|||++|..++||..+...+| +.|....|.+|+..|+.+|....|+ +-
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~ 109 (786)
T KOG0519|consen 30 DLCNCLDSPYSERSVLTALKPQISSDFLIASAYFSIPIELLYFVSKSAVFPLEAGVLSEFIAFDNLCGATHLLNGWTSYT 109 (786)
T ss_pred hhhhccccCccccchhhhhhhhhhhhhhhhhHhhccchhhcccccccccccceeccccchhhhhhhhhhcccchhhhcCC
Confidence 57999865 66665545677899999999999999999999999998876 9999999999999999999999999 43
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCcHHHHHHHH---HHHHHHHHHHHHhHHHHhHHHHHHHHHHH
Q 010147 78 VHSKAVAVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTRELFLKNR---ADELDREMGLILTQEETGRHVRMLTHEIR 154 (517)
Q Consensus 78 ~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~l~p~~l~l~s~~~~~~~~---~~~l~~~~~~l~~~~~~~~~l~~l~~~i~ 154 (517)
.+....+...+..+..++.+++.++...+.++|..+..+.++...++. ++++.+.........+.....+..+..+.
T Consensus 110 ~~~~~~~~~~t~~~~~~~~~~~~~a~~~~~~lP~~~~~~~~~~~~~~~~~~~~~l~~~~~~i~~s~~~~~~~~~~~~~~~ 189 (786)
T KOG0519|consen 110 SHRKQLILSETSTAILTAVVSCLTALNLVEVLPLLLLVKNRELELKQKVLHAAELDYEVGLINTSLETLSIVRMLTHEIR 189 (786)
T ss_pred ccchhheeeeeheeheeeecccccccccccccchhhccchhhhhhhcccccchhhhhhhhhhhhhhheeeeeeeeeeehh
Confidence 334445555567888899999999999999999999999999999998 99999999999999999888999999999
Q ss_pred cccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccc----cccccccccCCchhHHHhhccCceeecCCC
Q 010147 155 STLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ----IQIGSSVPINLPIVTDVFNSAQAMRLPYNC 230 (517)
Q Consensus 155 ~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 230 (517)
...+.+.++..+..++.+.+..+.+..|.+...+......+.+..+ .......+..++....+++..+........
T Consensus 190 ~~~~r~~~l~~~~~~~~~~~~~~e~~~~~~sq~~~~~~~sHeir~p~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~s 269 (786)
T KOG0519|consen 190 AALDRHTILKTTLVELQKKLASDEAAVWSPSQKGFLATLSHEIRTPLNGGMLGGLSDTDLDSDQRLILNTDRVSAKSLLS 269 (786)
T ss_pred hhhchhhhhhHHHHHHHHHhhcchhcccCccchhhcccccceeecccccCcceEEeccccchHHHHHHHHHhhhccccch
Confidence 9999999999999999999999999999998766555555555443 111222233444444444444433333222
Q ss_pred chhhhh-hccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHHHHHH-
Q 010147 231 PLARIR-LLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALS- 308 (517)
Q Consensus 231 ~~~~~~-~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~al~- 308 (517)
...... ..............++++...-......+++.....++..+...+.+.++.|..++..+-+.++++++.|+.
T Consensus 270 ~ln~i~d~~~v~~g~~~l~~~rf~l~~ll~~~~~~~~e~~~~~~~~l~~~~~~~~p~~v~~de~~~~qv~~n~v~naik~ 349 (786)
T KOG0519|consen 270 LLNDILDLSKVESGKGELVAKRFDLRTLLNFVISLLSELSQAKYAILVLDLSSGVPRNVRGDEARLRQVIANLVSNAIKF 349 (786)
T ss_pred hHHHhhcccccccccceeeeeecchHhhhhhhhhhhHHHhhcCCeEEEEecCCCCcceeeccceeeeeeehhhccceecc
Confidence 222111 112233445566667777776666566788888999999999999888999999999999999999999998
Q ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc-CCCCHHHHHHHHHHH
Q 010147 309 -HAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLE-TDLTPEQRVMIETVL 386 (517)
Q Consensus 309 -~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~-~~~~~~~~~~l~~i~ 386 (517)
++.-.+.....++++..++..+...+++...+..+...+.....|..++|.+.+.+....+.+ ....++..-.++...
T Consensus 350 t~~~~i~~~~~~~~~~~~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~ 429 (786)
T KOG0519|consen 350 THAGHLEESVIAREELSESNDVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVM 429 (786)
T ss_pred cccceEEEEEEeehhcchhhHHHHhhhhhhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhh
Confidence 777666667777777777777777777777777788888888889999999999998885543 345555666778888
Q ss_pred HHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHH
Q 010147 387 KSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILN 466 (517)
Q Consensus 387 ~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~N 466 (517)
+....+..+++.-.+.++...|.-..+.....+..++.+.+.........+...+...+..+.|..+.+|..+..|++.+
T Consensus 430 ~~~~~~~~~~q~~~~~~~~~~gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 509 (786)
T KOG0519|consen 430 RSSNVFTSLIQADPDITRLYGGTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLDLLTNLPKSVVGDEKRLFQIILD 509 (786)
T ss_pred hhhhHHHHHhccccccccccCCCcccchhhccHHHHHHHHhhhhhhhccCceeeEEEEeccCCCccchhhhhhhhhhhhh
Confidence 88889999999999999877766666777899999999999999988878888888888888888888899999999999
Q ss_pred HHHHHhh--cCCCCe-EEEEEEE
Q 010147 467 IVGNAVK--FTKEGY-VSIIASV 486 (517)
Q Consensus 467 Ll~NAik--~~~~g~-i~i~~~~ 486 (517)
..+++.+ ++..|+ ..+.+..
T Consensus 510 ~~G~~~~~~~~~~~~~~~~~~~~ 532 (786)
T KOG0519|consen 510 FNGMLALLIDTKLGREQIFQVLA 532 (786)
T ss_pred hcchhhhhhccccCcceeEEEEe
Confidence 9999999 776653 2444433
No 17
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=99.79 E-value=4.4e-18 Score=170.25 Aligned_cols=178 Identities=19% Similarity=0.244 Sum_probs=143.2
Q ss_pred HHHHHHHHHHHH--HHHHHHHHHHHHHHhHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 010147 331 DSARREAEKAIH--ARNDFRAVMNHEMRTLMHAIIALSSLL---LETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRL 405 (517)
Q Consensus 331 ~~~~~~~~~~~~--~~~~~~~~iaHelrnPL~~I~~~~~~l---~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~ 405 (517)
++.+.++.++.+ ..+++.++++||+|+||++|.++++.. .+....++..+.+..|..-.+||..|..+|..|+|.
T Consensus 369 R~~QdeLvQA~kLA~LGQmSA~iaHElNQPLaaiRt~adna~~lLergr~e~a~~Nl~~I~~LteRma~It~~Lk~FArk 448 (603)
T COG4191 369 RRAQDELVQAGKLAALGQMSAGIAHELNQPLAAIRTYADNARLLLERGRTEEARENLERISALTERMAAITAHLKSFARK 448 (603)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHhHHHHHHHHHHcCChHHHHhHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 344445555554 689999999999999999999988765 355678888999999999999999999999999996
Q ss_pred cCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC---CCeEEE
Q 010147 406 EDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK---EGYVSI 482 (517)
Q Consensus 406 ~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~---~g~i~i 482 (517)
..+. .+++.+.++|+++...+....+..+..+....++. |.+|.+|+.+|+||+.||+.||++++. ++.+.|
T Consensus 449 ~~~a----~~~v~l~~ai~~Al~ll~~R~~~~~~~l~~~~~~~-~~~V~~~~iRLeQVLvNLl~NALDA~~~~~~~~i~i 523 (603)
T COG4191 449 SRDA----AGPVSLREAIEGALELLRGRLRAAGVELELDLPDA-PLWVMANEIRLEQVLVNLLQNALDAMAGQEDRRLSI 523 (603)
T ss_pred Cccc----cCCccHHHHHHHHHHHHHHhhhccCceeeccCCCC-CceeecchhhHHHHHHHHHHHHHHHhcCCCCCeeEE
Confidence 5433 55999999999999999999999999998877554 457999999999999999999999963 577888
Q ss_pred EEEEcCCCc-cccCCCCCCCCCCCCCceEEEE
Q 010147 483 IASVAKPES-LSDWRPPEFYPVSTDGHFYLRV 513 (517)
Q Consensus 483 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 513 (517)
+....++.. +.+-|+|+|++..--++.|.+|
T Consensus 524 ~~~~~~~~v~l~VrDnGpGi~~e~~~~lFePF 555 (603)
T COG4191 524 RAQREGGQVVLTVRDNGPGIAPEALPHLFEPF 555 (603)
T ss_pred EEEecCCeEEEEEccCCCCCCHHHHHhhcCCc
Confidence 877766554 3355777776655555555554
No 18
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=99.79 E-value=2.4e-18 Score=158.03 Aligned_cols=166 Identities=21% Similarity=0.286 Sum_probs=134.7
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH
Q 010147 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~ 421 (517)
++...+.+++|||+||||++|.|.+++|.+...++..++|-+.|.++++|+.++++.+.-|+- ..+.+..++++++
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 456679999999999999999999999998877777899999999999999999999976664 3356667999999
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC---C--CeEEEEEEEcC-----CC-
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK---E--GYVSIIASVAK-----PE- 490 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~---~--g~i~i~~~~~~-----~~- 490 (517)
+++.+....+..+ ..++++.-+.+|++|. +.+|+++|.|+|.||+.||+++.. + |.|+++.+..- +.
T Consensus 206 VLerV~~lv~~e~-~~~i~l~rdYDPSLP~-v~~d~DqliQv~LNlVrNAaqA~~~~~~~~g~I~LrTR~~~q~~i~g~r 283 (363)
T COG3852 206 VLERVRALVEAEF-ADNVRLIRDYDPSLPE-VLGDRDQLIQVFLNLVRNAAQALGGRADEGGEIILRTRTGIQLTIAGTR 283 (363)
T ss_pred HHHHHHHHHhccc-CCceEEeecCCCCCcc-ccCCHHHHHHHHHHHHHHHHHHhcCCCCCCceEEEEeccceEEEccCce
Confidence 9999999998776 6789999999999998 889999999999999999999964 3 66766653221 00
Q ss_pred -----ccccCCCCCCCCCCCCCceEEEE
Q 010147 491 -----SLSDWRPPEFYPVSTDGHFYLRV 513 (517)
Q Consensus 491 -----~~~~~~~~~~~~~~~~~~~~~~~ 513 (517)
..++.++|+|.|..-..++|-.|
T Consensus 284 ~rl~l~leViDNGPGVP~~L~~~lF~P~ 311 (363)
T COG3852 284 YRLALPLEVIDNGPGVPPDLQDHLFYPM 311 (363)
T ss_pred eEeeeeeEEecCCCCCChHHhhhccccc
Confidence 12355788887765555555543
No 19
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.77 E-value=9e-18 Score=195.11 Aligned_cols=172 Identities=22% Similarity=0.321 Sum_probs=139.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcc
Q 010147 333 ARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTP-EQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLE 411 (517)
Q Consensus 333 ~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~-~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~ 411 (517)
.++++.++.+++++|+++++||+||||++|.++++++.+...++ +..+.++.+..+++++..++++++++++++.+...
T Consensus 701 ~~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~~l~~~~~~~~~l~~li~~ll~~~~~~~~~~~ 780 (1197)
T PRK09959 701 ERNKAINATVAKSQFLATMSHEIRTPISSIMGFLELLSGSGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIESGNYQ 780 (1197)
T ss_pred HHHHHHHHHHHHHHHHHhcChhhCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCce
Confidence 33444555667899999999999999999999999997654444 45578999999999999999999999999999888
Q ss_pred cccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEc--CC
Q 010147 412 LDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVA--KP 489 (517)
Q Consensus 412 l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~--~~ 489 (517)
+..+++++.+++++++..+...+..+++.+.+..+...+..+.+|+.++.||+.||++||+||+++|.+.+.+... ++
T Consensus 781 ~~~~~~~l~~~i~~~~~~~~~~~~~~~i~~~~~~~~~~~~~v~~d~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~ 860 (1197)
T PRK09959 781 LQPQWVDIPTLVQNTCHSFGAIAASKSIALSCSSTFPDHYLVKIDPQAFKQVLSNLLSNALKFTTEGAVKITTSLGHIDD 860 (1197)
T ss_pred eeeeeeCHHHHHHHHHHHHHHHHHhcCcEEEEecCCCCceEEEECHHHHHHHHHHHHHHHHHhCCCCCEEEEEEEeeecC
Confidence 8899999999999999999999988999888765433333588999999999999999999999988777665432 12
Q ss_pred Cc----cccCCCCCCCCCC
Q 010147 490 ES----LSDWRPPEFYPVS 504 (517)
Q Consensus 490 ~~----~~~~~~~~~~~~~ 504 (517)
+. +.+.++|.|+|..
T Consensus 861 ~~~~~~i~V~D~G~Gi~~~ 879 (1197)
T PRK09959 861 NHAVIKMTIMDSGSGLSQE 879 (1197)
T ss_pred CceEEEEEEEEcCCCCCHH
Confidence 21 2344666665543
No 20
>PRK10364 sensor protein ZraS; Provisional
Probab=99.75 E-value=5.6e-15 Score=154.13 Aligned_cols=157 Identities=21% Similarity=0.298 Sum_probs=130.1
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHH
Q 010147 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLET-DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 420 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~-~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~ 420 (517)
...+++.+.++||+||||++|.++++++.+. ..+++.++..+.+.+..+++..++++++++++.. .....+++++
T Consensus 235 ~~~~~~~~~laHelrtpL~~i~~~~~~l~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~ll~~~~~~----~~~~~~~~l~ 310 (457)
T PRK10364 235 VALGHLAAGVAHEIRNPLSSIKGLAKYFAERAPAGGEAHQLAQVMAKEADRLNRVVSELLELVKPT----HLALQAVDLN 310 (457)
T ss_pred HHHHHHHHHhhHHhccHHHHHHHHHHHHHhhccCchHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC----CCcceEecHH
Confidence 4567899999999999999999999998765 3345667888999999999999999999999843 4456689999
Q ss_pred HHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-CCeEEEEEEEcCCC-ccccCCCC
Q 010147 421 IVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-EGYVSIIASVAKPE-SLSDWRPP 498 (517)
Q Consensus 421 ~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-~g~i~i~~~~~~~~-~~~~~~~~ 498 (517)
+++++++..+...+..+++.++++.+++.+. +.+|+..+.+++.||++||+||++ +|.|.|.+...++. .+.+.++|
T Consensus 311 ~~l~~~~~~~~~~~~~~~i~l~~~~~~~~~~-~~~d~~~l~~il~NLl~NA~k~~~~~~~I~i~~~~~~~~~~i~V~D~G 389 (457)
T PRK10364 311 DLINHSLQLVSQDANSREIQLRFTANDTLPE-IQADPDRLTQVLLNLYLNAIQAIGQHGVISVTASESGAGVKISVTDSG 389 (457)
T ss_pred HHHHHHHHHHHHHHHhcCeEEEEEcCCCCce-EEECHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEEeCCeEEEEEEECC
Confidence 9999999999999999999999988776664 778999999999999999999976 56788887765544 23355666
Q ss_pred CCCCC
Q 010147 499 EFYPV 503 (517)
Q Consensus 499 ~~~~~ 503 (517)
+++|.
T Consensus 390 ~Gi~~ 394 (457)
T PRK10364 390 KGIAA 394 (457)
T ss_pred CCCCH
Confidence 66553
No 21
>PRK10604 sensor protein RstB; Provisional
Probab=99.71 E-value=2.7e-16 Score=162.57 Aligned_cols=168 Identities=17% Similarity=0.204 Sum_probs=129.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Q 010147 327 NVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLE 406 (517)
Q Consensus 327 ~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~ 406 (517)
...+.+...++++..+.+.+|++++|||+||||+.|.+.++++.+.. +++. +.+.+..+++..++++++.++|++
T Consensus 195 ~~~fn~m~~~l~~~~~~~~~l~~~vsHeLrtPL~~i~~~l~~l~~~~-~~~~----~~i~~~~~~l~~li~~ll~~~rl~ 269 (433)
T PRK10604 195 GVAFNQMADNINALIASKKQLIDGIAHELRTPLVRLRYRLEMSDNLS-AAES----QALNRDIGQLEALIEELLTYARLD 269 (433)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHhhcChHHHHHHHHHHhcCCC-cHHH----HHHHHHHHHHHHHHHHHHHHHhcc
Confidence 33444555566666677899999999999999999999999886432 2222 237788999999999999999999
Q ss_pred CCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEE
Q 010147 407 DGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASV 486 (517)
Q Consensus 407 ~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~ 486 (517)
.+..+...+++++.+++++++..+......++++++.. .+ +..+.+|+..+.+++.||++||+||++ |.|.|.+..
T Consensus 270 ~~~~~~~~~~~~l~~~l~~~i~~~~~~~~~~~i~~~~~--~~-~~~~~~d~~~l~~vl~NLl~NAik~~~-~~I~I~~~~ 345 (433)
T PRK10604 270 RPQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLDTP--HQ-GDYGALDMRLMERVLDNLLNNALRYAH-SRVRVSLLL 345 (433)
T ss_pred CCCcccCCCCCCHHHHHHHHHHHHHHHhhcCcEEEEec--CC-CceEecCHHHHHHHHHHHHHHHHHhCC-CeEEEEEEE
Confidence 88888888999999999999999887776666666553 33 224678999999999999999999985 778787776
Q ss_pred cCCCc-cccCCCCCCCCC
Q 010147 487 AKPES-LSDWRPPEFYPV 503 (517)
Q Consensus 487 ~~~~~-~~~~~~~~~~~~ 503 (517)
.++.- +.+.++|+|+|.
T Consensus 346 ~~~~~~I~V~D~G~Gi~~ 363 (433)
T PRK10604 346 DGNQACLIVEDDGPGIPP 363 (433)
T ss_pred ECCEEEEEEEEcCCCCCH
Confidence 54432 334566666653
No 22
>PRK10815 sensor protein PhoQ; Provisional
Probab=99.70 E-value=6.4e-16 Score=161.47 Aligned_cols=171 Identities=15% Similarity=0.180 Sum_probs=130.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 010147 329 ALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDG 408 (517)
Q Consensus 329 ~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~ 408 (517)
.+.+..++.++..+...+|++.++||+||||+.|.++++.+.+..... ..+....+.+...++..+++++++.++.+.+
T Consensus 251 ~ln~~l~~~~~~~~~~~~~l~~isHELRTPLt~I~~~l~~L~~~~~~~-~~~~~~~~~~~i~ri~~~i~~ll~~~~~~~~ 329 (485)
T PRK10815 251 NLNRLLKNERERYTKYRTTLTDLTHSLKTPLAVLQSTLRSLRSGKQMS-VEQAEPIMLEQISRISQQIGYYLHRASMRSE 329 (485)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 333334444445556778999999999999999999999997653211 2233455778889999999999999999888
Q ss_pred CcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcC
Q 010147 409 SLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAK 488 (517)
Q Consensus 409 ~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~ 488 (517)
...+..+.+++.+++++++..+......+++.++++.+++. .+.+|+..+.+|+.||++||+||+++ .+.|.+...+
T Consensus 330 ~~~~~~~~~~l~~ll~~~~~~l~~~~~~~~i~i~~~~~~~~--~v~~d~~~l~~vl~NLi~NAik~~~~-~i~I~~~~~~ 406 (485)
T PRK10815 330 HNLLSRELHSVAPLLDNLTSALNKVYQRKGVNITLDISPEI--TFVGEKNDFMEVMGNVLDNACKYCLE-FVEISARQTD 406 (485)
T ss_pred CcccccceecHHHHHHHHHHHHHHHHHHCCcEEEEecCCCc--EEEeCHHHHHHHHHHHHHHHHHhcCC-cEEEEEEEeC
Confidence 77788889999999999999999988899999998876554 36789999999999999999999964 4555554433
Q ss_pred CC-ccccCCCCCCCCC
Q 010147 489 PE-SLSDWRPPEFYPV 503 (517)
Q Consensus 489 ~~-~~~~~~~~~~~~~ 503 (517)
+. .+.+.++|+|+|.
T Consensus 407 ~~v~I~V~D~G~GI~~ 422 (485)
T PRK10815 407 EHLHIVVEDDGPGIPE 422 (485)
T ss_pred CEEEEEEEECCCCcCH
Confidence 22 1334456666553
No 23
>PRK10337 sensor protein QseC; Provisional
Probab=99.69 E-value=1.5e-15 Score=158.22 Aligned_cols=174 Identities=17% Similarity=0.194 Sum_probs=135.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 010147 325 EQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE-QRVMIETVLKSSNLLTTLVDDVLDLS 403 (517)
Q Consensus 325 ~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~-~~~~l~~i~~~~~rl~~li~~ll~~s 403 (517)
+..+.+.+...++++..+...+|++.++||+|||++.+.+..+.+.....+++ ..+++..+...++++..++++++.++
T Consensus 218 ~l~~~~n~~~~~l~~~~~~~~~~~~~~ahelrtpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~ll~~~ 297 (449)
T PRK10337 218 PLVEALNQLFARTHAMMVRERRFTSDAAHELRSPLAALKVQTEVAQLSDDDPQARKKALLQLHAGIDRATRLVDQLLTLS 297 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344445555555555666789999999999999999999988766544443 55789999999999999999999999
Q ss_pred hhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeEEE
Q 010147 404 RLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSI 482 (517)
Q Consensus 404 r~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i~i 482 (517)
|.+.+......+++++.+++++++..+......+++.+.++.++..+ .+.+|+..+.+++.||++||+||+++ |.|.+
T Consensus 298 r~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~-~~~~~~~~l~~vl~Nli~NA~k~~~~~~~i~i 376 (449)
T PRK10337 298 RLDSLDNLQDVAEIPLEDLLQSAVMDIYHTAQQAGIDVRLTLNAHPV-IRTGQPLLLSLLVRNLLDNAIRYSPQGSVVDV 376 (449)
T ss_pred hcCCCCCCCCCcccCHHHHHHHHHHHHHHHHHHcCCEEEEecCCCCc-eeecCHHHHHHHHHHHHHHHHhhCCCCCeEEE
Confidence 99876656677899999999999999988888899999988765433 46889999999999999999999985 56666
Q ss_pred EEEEcCCCccccCCCCCCCC
Q 010147 483 IASVAKPESLSDWRPPEFYP 502 (517)
Q Consensus 483 ~~~~~~~~~~~~~~~~~~~~ 502 (517)
.+... .+...++|+++|
T Consensus 377 ~~~~~---~i~i~D~G~Gi~ 393 (449)
T PRK10337 377 TLNAR---NFTVRDNGPGVT 393 (449)
T ss_pred EEEee---EEEEEECCCCCC
Confidence 54322 233445555544
No 24
>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=99.69 E-value=1.4e-15 Score=165.23 Aligned_cols=179 Identities=16% Similarity=0.215 Sum_probs=142.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (517)
Q Consensus 322 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~ 401 (517)
++.+..+.+.+...++++..+.+.+|++.++||+|||++.|.+.++.+.....+++..++++.+.+.++++..+++++.+
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 33344445555566777777788899999999999999999999999987777778888999999999999999999999
Q ss_pred HhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeE
Q 010147 402 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYV 480 (517)
Q Consensus 402 ~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i 480 (517)
+++++.+....+.+++|+.+++++++..+......+++.++++ .+. ..+.+|+..+.+++.||++||+||+++ |.|
T Consensus 543 ~arle~~~~~~~~~~~dl~~ll~~~i~~~~~~~~~~~i~l~i~--~~~-~~i~~d~~~L~~il~NLI~NAik~s~~~~~I 619 (703)
T TIGR03785 543 ATRLEQAIQSAEVEDFDLSEVLSGCMQGYQMTYPPQRFELNIP--ETP-LVMRGSPELIAQMLDKLVDNAREFSPEDGLI 619 (703)
T ss_pred HHhhhcccccccceeecHHHHHHHHHHHHHHHhhcCCEEEEec--CCC-eEEEECHHHHHHHHHHHHHHHHHHCCCCCeE
Confidence 9999877667778899999999999999998887777666653 332 258899999999999999999999975 567
Q ss_pred EEEEEEcCCCc-cccCCCCCCCCC
Q 010147 481 SIIASVAKPES-LSDWRPPEFYPV 503 (517)
Q Consensus 481 ~i~~~~~~~~~-~~~~~~~~~~~~ 503 (517)
.|.+...++.. +.+.++|++.|.
T Consensus 620 ~I~~~~~~~~v~I~V~D~G~GI~~ 643 (703)
T TIGR03785 620 EVGLSQNKSHALLTVSNEGPPLPE 643 (703)
T ss_pred EEEEEEcCCEEEEEEEEcCCCCCH
Confidence 77666543321 334455655543
No 25
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=99.68 E-value=3.3e-15 Score=143.92 Aligned_cols=167 Identities=15% Similarity=0.210 Sum_probs=128.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLL---ETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 419 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~---~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l 419 (517)
..|+-..++|||++.||+++++|+=-.. ++...+....+++.|.+-.+||..+|+.+..|+|..+++.++ .|++|
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 5677889999999999999998875544 345566678899999999999999999999999988776544 49999
Q ss_pred HHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC--CeEEEEEEEcCCCccccC--
Q 010147 420 QIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE--GYVSIIASVAKPESLSDW-- 495 (517)
Q Consensus 420 ~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~--g~i~i~~~~~~~~~~~~~-- 495 (517)
++.++.+...+......+++.+.. +.|.+ +|.||+..++||+.||+-||+++... .-|.+.+...+.+....|
T Consensus 528 ~~~v~~AweLl~~khk~rQ~~Li~--ptD~~-~V~gd~v~ieQVlvNl~~NaldA~~h~~p~i~~~~~~~~~e~l~i~i~ 604 (673)
T COG4192 528 NSVVEQAWELLQTKHKRRQIKLIN--PTDDL-MVMGDAVSIEQVLVNLIVNALDASTHFAPWIKLIALGTEQEMLRIAII 604 (673)
T ss_pred HHHHHHHHHHHHhhhhhccccccC--Ccccc-eecchhhhHHHHHHHHHHHHHhhhccCCceEEEEeecCcccceEEEEe
Confidence 999999999999888777777654 34555 59999999999999999999998643 345555544445555544
Q ss_pred CCCCC----------CCCCCCCceEEEEE
Q 010147 496 RPPEF----------YPVSTDGHFYLRVQ 514 (517)
Q Consensus 496 ~~~~~----------~~~~~~~~~~~~~~ 514 (517)
++|+| .|+...+.+++++.
T Consensus 605 DnGqGwp~~l~dkLl~PFttsK~vgLGlG 633 (673)
T COG4192 605 DNGQGWPHELVDKLLTPFTTSKEVGLGLG 633 (673)
T ss_pred cCCCCCchhHHHHhcCCcccccccccccc
Confidence 45544 35555555555443
No 26
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=99.67 E-value=3.8e-13 Score=144.10 Aligned_cols=314 Identities=13% Similarity=0.079 Sum_probs=199.8
Q ss_pred HHHHHHHHHHHHHHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccccc
Q 010147 123 KNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQ 202 (517)
Q Consensus 123 ~~~~~~l~~~~~~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~ 202 (517)
.++..+.+++...++++.+.+..++..++.+..+.+..+.++.+++.+.+.++++.+.+.+.+.+...-...........
T Consensus 199 ~~l~~~~~~~t~~l~~~~~~l~~ly~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~ 278 (569)
T PRK10600 199 AVLEQRVQEKTAGLEQKNQILSFLWQANRRLHSRAPLCERLSPVLNGLQNLTLLRDIELRVYETDDEENHQEFTCQSDMT 278 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHhcCCCceEEEEeccccccceeeccCCCccC
Confidence 33444555556667777888889999999999999999999999999999999999999886644432111111100000
Q ss_pred cccccccCCchhHHHhhccCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeec
Q 010147 203 IGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPT 282 (517)
Q Consensus 203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~ 282 (517)
+ ++..+ ...... ..........+.+|+.. +...+|++....
T Consensus 279 ~------~~~~~---------~~~~~~----------~~~~~~~~~~~~~~l~~--------------~~~~~G~~~~~~ 319 (569)
T PRK10600 279 C------DDKGC---------QLCPRG----------VLPVGDRGTTLKWRLSD--------------KHGQYGILLATL 319 (569)
T ss_pred c------ccccc---------cccccc----------CCCcCCCCceEEEEeec--------------CCcceEEEEEEc
Confidence 0 00000 000000 00000112334556433 333466666555
Q ss_pred CCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHH
Q 010147 283 DGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAI 362 (517)
Q Consensus 283 ~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I 362 (517)
..+..+++++..+++.++.+++.++++.+..++. +++ . ..+.+..++..++|.+.++|+.+
T Consensus 320 ~~~~~l~~~~~~ll~~l~~~l~~~l~~~~~~~~~----~~~-------~--------~~~er~~iarelhd~i~~~L~~l 380 (569)
T PRK10600 320 PQGRHLSHDQQQLVDTLVEQLTATLALERQQERQ----QQL-------I--------VMEERATIARELHDSIAQSLSCM 380 (569)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH----HHH-------H--------HHHHHHHHHHHhccHHHHHHHHH
Confidence 5566899999999999999999888654322210 000 0 01123446777777777888888
Q ss_pred HHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcE
Q 010147 363 IALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLS 440 (517)
Q Consensus 363 ~~~~~~l~~~--~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~ 440 (517)
...++.++.. ..+++..+.++.+.+..+++...+++++...+. ..++.++.+.+++++..+.... ++.
T Consensus 381 ~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~~~~~lr~ll~~~r~-------~~~~~~l~~~l~~~~~~~~~~~---~~~ 450 (569)
T PRK10600 381 KMQVSCLQMQGDALPESSRELLSQIRNELNASWRQLRELLTTFRL-------QLTEPGLRPALEASCEEFSARF---GFP 450 (569)
T ss_pred HHHHHHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc-------CcccCCHHHHHHHHHHHHHHHh---CCe
Confidence 7776655432 345677889999999999999999999987653 2346789999999998887654 334
Q ss_pred EEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCC-ccccCCCCCCCCCC
Q 010147 441 MTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPE-SLSDWRPPEFYPVS 504 (517)
Q Consensus 441 i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~-~~~~~~~~~~~~~~ 504 (517)
+.++.+...+.....++..+.+++.|+++||+||++.|.+.|.+...++. .+.+.++|.|+|..
T Consensus 451 i~~~~~~~~~~~~~~~~~~l~~il~ell~NA~kha~a~~i~V~~~~~~~~~~l~V~D~G~Gi~~~ 515 (569)
T PRK10600 451 VKLDYQLPPRLVPSHQAIHLLQIAREALSNALKHAQASEVVVTVAQNQNQVKLSVQDNGCGVPEN 515 (569)
T ss_pred EEEEecCCcccCCHHHHHHHHHHHHHHHHHHHHhCCCCeEEEEEEEcCCEEEEEEEECCCCCCcc
Confidence 44443222121112244569999999999999999888888887655433 23355777777643
No 27
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=99.67 E-value=1.5e-14 Score=151.30 Aligned_cols=210 Identities=13% Similarity=0.102 Sum_probs=143.3
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhHHHHHHHHH
Q 010147 288 WRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEK-AIHARNDFRAVMNHEMRTLMHAIIALS 366 (517)
Q Consensus 288 ~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~-~~~~~~~~~~~iaHelrnPL~~I~~~~ 366 (517)
|.....+++..++.++...+.-....++.++.+++++++.++.++..+++.+ .++.+.++++.++||++|||++|.+.+
T Consensus 245 ~~~~~~~l~~~l~~~~l~gi~lg~~i~r~r~l~~~L~~~l~~~~~l~~~L~~~~e~~r~~ia~elhdeI~~pLtaI~~~a 324 (495)
T PRK11644 245 WHDHPVDLLLSLLAQSLTGLLLGAGIQRQRELNQSLQKELARNRHLAERLLETEESVRRDVARELHDEIGQTITAIRTQA 324 (495)
T ss_pred cCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHH
Confidence 4445556677777776555544444444444444444433333332222222 234677899999999999999999999
Q ss_pred HHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEe
Q 010147 367 SLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIM 445 (517)
Q Consensus 367 ~~l~~~~-~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~ 445 (517)
+.+++.. .+++.++..+.+.+.+.++.+.++++++..+ +...+++++.+.+++++..+.... +++.++++.
T Consensus 325 ~ll~~~~~~~~~~~~~~~~I~~~~~~l~~~vr~LL~~lr------~~~l~~~~L~~~l~~l~~~l~~~~--~~~~v~l~~ 396 (495)
T PRK11644 325 GIIKRLAADNASVKQSAQLIEQLSLGVYDTVRRLLGRLR------PRQLDDLTLEQAIRSLMREMELED--RGIVSHLDW 396 (495)
T ss_pred HHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhccC------CcccccCCHHHHHHHHHHHHHHhh--cCceEEEEe
Confidence 9987643 3455667888999999999999999986654 334457899999999998887554 344444443
Q ss_pred CCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCC-ccccCCCCCCCCCCC
Q 010147 446 APELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPE-SLSDWRPPEFYPVST 505 (517)
Q Consensus 446 ~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~-~~~~~~~~~~~~~~~ 505 (517)
+.+.+....+|+..+.+++.|+++||+||++.|.+.|.+...++. ...+.|+|.|+|..+
T Consensus 397 ~~~~~~l~~~~~~~L~ril~nlL~NAiKha~~~~I~I~l~~~~~~i~l~V~DnG~Gi~~~~ 457 (495)
T PRK11644 397 RIDESALSETQRVTLFRVCQEGLNNIVKHADASAVTLQGWQQDERLMLVIEDDGSGLPPGS 457 (495)
T ss_pred cCCcccCChhHHHHHHHHHHHHHHHHHHhCCCCEEEEEEEEcCCEEEEEEEECCCCCCcCC
Confidence 333222356678889999999999999999988888887765443 233457777776443
No 28
>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=99.67 E-value=2.6e-15 Score=157.94 Aligned_cols=165 Identities=18% Similarity=0.143 Sum_probs=114.4
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH
Q 010147 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~ 421 (517)
+.+.+++..++||+||||+.|.++++++.+...........+.+.+...++...+..+.++.. ........++|+.+
T Consensus 274 ~~l~~~~~~~~h~lr~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~---~~~~~~~~~~dl~~ 350 (494)
T TIGR02938 274 EAIRETLSAAIHRLQGPMNLISAAISVLQRRGDDAGNPASAAMLQQALSAGREHMEALRQVIP---QSPQEIVVPVNLNQ 350 (494)
T ss_pred HHHHHHHHHHHHHHhcHHHHHHHHHHHHHhccccccCHHHHHHHHHHHHHHHHHHHHHHHhhc---cCcccccccccHHH
Confidence 446678888899999999999999999976533322223333334444444445555544432 12244566899999
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCC-----eEEEEEEEcCCC-ccccC
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEG-----YVSIIASVAKPE-SLSDW 495 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g-----~i~i~~~~~~~~-~~~~~ 495 (517)
++++++..+...+..+++.+++..+++.|. +.+|+.+++||+.||++||+||++.| .+.+.....++. .+.+.
T Consensus 351 ~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~-v~~d~~~l~~vl~Nl~~NAik~~~~~~~~~~~i~i~~~~~~~~~~~~V~ 429 (494)
T TIGR02938 351 ILRDVITLSTPRLLAAGIVVDWQPAATLPA-ILGRELQLRSLFKALVDNAIEAMNIKGWKRRELSITTALNGDLIVVSIL 429 (494)
T ss_pred HHHHHHHHhHHHHHhCCCEEEEecCCCCCe-eecCHHHHHHHHHHHHHHHHHHhhccCCCcceEEEEEEecCCEEEEEEE
Confidence 999999999988888999999988777775 88999999999999999999998654 344444333222 13355
Q ss_pred CCCCCCCCCCCCceE
Q 010147 496 RPPEFYPVSTDGHFY 510 (517)
Q Consensus 496 ~~~~~~~~~~~~~~~ 510 (517)
++|.|+|......+|
T Consensus 430 D~G~Gi~~~~~~~iF 444 (494)
T TIGR02938 430 DSGPGIPQDLRYKVF 444 (494)
T ss_pred eCCCCCCHHHHHHhc
Confidence 777776644333333
No 29
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=99.67 E-value=5.7e-14 Score=140.54 Aligned_cols=161 Identities=17% Similarity=0.206 Sum_probs=122.2
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcC---CCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCccccccc
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLET---DLT---PEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGP 416 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~---~~~---~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~ 416 (517)
+=++-+.-+|||+||||+.|...++.+.++ ..+ +..++..+.|.+++..+.++|+++..|+|+. ++.+++
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 355677779999999999999999999764 222 2357899999999999999999999999975 566779
Q ss_pred ccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-----CCe-EEEEEEEcCCC
Q 010147 417 FNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-----EGY-VSIIASVAKPE 490 (517)
Q Consensus 417 ~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-----~g~-i~i~~~~~~~~ 490 (517)
.||+++++++...++.. ...+.+..++..+ |.+..+|+..+.|+|.||+.||.++.. ++. -.|+++..+.+
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 SDLRALLKEVSFLYEIG--NDHIVFAAEFGGE-PLIGMADATLLGQVFGNLLKNAAEAIEAVEAEERRTALIRVSLDDAD 637 (712)
T ss_pred chHHHHHHHHHHHHhcc--CCCeEEEeecCCC-ceeeecCHHHHHHHHHHHHHhHHHHhhhcccccCCcceEEEEEecCC
Confidence 99999999999998854 3578888888666 777888999999999999999999842 111 12344433322
Q ss_pred c---cccCCCCCCCCCCCCCceE
Q 010147 491 S---LSDWRPPEFYPVSTDGHFY 510 (517)
Q Consensus 491 ~---~~~~~~~~~~~~~~~~~~~ 510 (517)
+ +.+.++|-|.|....++.+
T Consensus 638 g~i~v~V~DNGkG~p~e~r~r~~ 660 (712)
T COG5000 638 GRIVVDVIDNGKGFPRENRHRAL 660 (712)
T ss_pred CeEEEEEecCCCCCChHHhhhhc
Confidence 2 3355777776655544433
No 30
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=99.67 E-value=3e-15 Score=150.97 Aligned_cols=155 Identities=18% Similarity=0.158 Sum_probs=118.1
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccH-HHH
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL-QIV 422 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l-~~l 422 (517)
..+|.++++||+||||+.+.++++++.+... ++ .+.+.+..+++...+++++++++.+........+++++ +++
T Consensus 137 ~~~~~~~~sHelrtPL~~i~~~~e~l~~~~~-~~----~~~~~~~~~~l~~~i~~ll~~~r~~~~~~~~~~~~~~l~~~~ 211 (356)
T PRK10755 137 ERLFTADVAHELRTPLAGIRLHLELLEKQHH-ID----VAPLIARLDQMMHTVEQLLQLARAGQSFSSGHYQTVKLLEDV 211 (356)
T ss_pred HHHHHHHhhHhhcChHHHHHHHHHHHHhccc-hh----HHHHHHHHHHHHHHHHHHHHHHHcccccccccchhhhHHHHH
Confidence 3469999999999999999999998865422 22 33455667899999999999999876555556678888 999
Q ss_pred HHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeEEEEEEEcCCC-ccccCCCCCC
Q 010147 423 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPE-SLSDWRPPEF 500 (517)
Q Consensus 423 i~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i~i~~~~~~~~-~~~~~~~~~~ 500 (517)
+.++...+......+++.+.++..+. +..+.+|+..+.+++.||++||+||+++ |.|.|.+...++. .+.+.++|.|
T Consensus 212 i~~~~~~~~~~~~~~~~~~~~~~~~~-~~~v~~d~~~l~~il~nLi~NA~k~~~~~~~I~I~~~~~~~~~~i~V~D~G~G 290 (356)
T PRK10755 212 ILPSQDELSEMLEQRQQTLLLPESAA-DITVQGDATLLRLLLRNLVENAHRYSPEGSTITIKLSQEDGGAVLAVEDEGPG 290 (356)
T ss_pred HHHHHHHHHHHHHHhCCeEEeccCCC-ceEEEECHHHHHHHHHHHHHHHHhhCCCCCcEEEEEEEcCCEEEEEEEECCCC
Confidence 99988888888888888887743333 3358899999999999999999999974 5677777554433 2335566766
Q ss_pred CCCC
Q 010147 501 YPVS 504 (517)
Q Consensus 501 ~~~~ 504 (517)
++..
T Consensus 291 i~~~ 294 (356)
T PRK10755 291 IDES 294 (356)
T ss_pred CCHH
Confidence 6543
No 31
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=99.65 E-value=5.8e-15 Score=154.46 Aligned_cols=179 Identities=22% Similarity=0.253 Sum_probs=141.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (517)
Q Consensus 322 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~ 401 (517)
++.+..+.+.+...++++..+.+.++.+.++||++|||+.+.+.++.+.+.... ...+.+..+...++++..+++++..
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 344444555556666666677788999999999999999999999999764322 2234577888899999999999999
Q ss_pred HhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeE
Q 010147 402 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYV 480 (517)
Q Consensus 402 ~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i 480 (517)
+++.+.+...+..+++++.+++++++..++.....+++.++++++++. .+.+|+..+.|++.||+.||++|+++ |.|
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 999988888888999999999999999999888888999998876554 36689999999999999999999875 677
Q ss_pred EEEEEEcCCCc-cccCCCCCCCCC
Q 010147 481 SIIASVAKPES-LSDWRPPEFYPV 503 (517)
Q Consensus 481 ~i~~~~~~~~~-~~~~~~~~~~~~ 503 (517)
.|.+...++.- +.+.++|+++|.
T Consensus 375 ~i~~~~~~~~~~i~V~D~G~Gi~~ 398 (466)
T PRK10549 375 HISAEQRDKTLRLTFADSAPGVSD 398 (466)
T ss_pred EEEEEEcCCEEEEEEEecCCCcCH
Confidence 77776654331 224466666553
No 32
>PRK09835 sensor kinase CusS; Provisional
Probab=99.64 E-value=1.1e-14 Score=153.18 Aligned_cols=179 Identities=17% Similarity=0.268 Sum_probs=138.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 323 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDL-TPEQRVMIETVLKSSNLLTTLVDDVLD 401 (517)
Q Consensus 323 l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~-~~~~~~~l~~i~~~~~rl~~li~~ll~ 401 (517)
+.+..+.+.+..+++++..+.+.+|++.++||+|||++.+.+.++.+.+... ..+..+.+..+.....++..+++++++
T Consensus 241 l~~l~~~~n~m~~~l~~~~~~~~~~~~~laheL~tpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~ll~ 320 (482)
T PRK09835 241 LEQLVLSFNHMIERIEDVFTRQSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEELTRMAKMVSDMLF 320 (482)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344445555666666678889999999999999999999988765433 345667788888899999999999999
Q ss_pred HhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeE
Q 010147 402 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYV 480 (517)
Q Consensus 402 ~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i 480 (517)
+++.+.+...+..+++|+.++++++...+......+++.+.++. + +..+.+|+..+.+++.||++||+||+++ |.|
T Consensus 321 ~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~--~-~~~v~~d~~~l~~vl~nll~Na~~~~~~~~~I 397 (482)
T PRK09835 321 LAQADNNQLIPEKKMLDLADEVGKVFDFFEAWAEERGVELRFVG--D-PCQVAGDPLMLRRAISNLLSNALRYTPAGEAI 397 (482)
T ss_pred HHHhcCCCCCCCceeecHHHHHHHHHHHHHHHHhhCCEEEEEeC--C-CcEEEECHHHHHHHHHHHHHHHHhcCCCCCeE
Confidence 99998887777888999999999999999988888888877652 3 3348899999999999999999999975 457
Q ss_pred EEEEEEcCCCc-cccCCCCCCCCCC
Q 010147 481 SIIASVAKPES-LSDWRPPEFYPVS 504 (517)
Q Consensus 481 ~i~~~~~~~~~-~~~~~~~~~~~~~ 504 (517)
.|.+...++.. +...++|.+.|..
T Consensus 398 ~i~~~~~~~~~~i~v~d~G~gi~~~ 422 (482)
T PRK09835 398 TVRCQEVDHQVQLVVENPGTPIAPE 422 (482)
T ss_pred EEEEEEeCCEEEEEEEECCCCcCHH
Confidence 77776554332 3334556655533
No 33
>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=99.64 E-value=6.6e-15 Score=146.51 Aligned_cols=157 Identities=25% Similarity=0.339 Sum_probs=129.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~--~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~ 421 (517)
+.+|.+.++||+||||+.|.++++.+... ..+++..++++.+.+.++++..++++++++++.+.+......+++++.+
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 45699999999999999999999988754 3455677889999999999999999999999998877778888999999
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-CCeEEEEEEEcCCCc-cccCCCCC
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-EGYVSIIASVAKPES-LSDWRPPE 499 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-~g~i~i~~~~~~~~~-~~~~~~~~ 499 (517)
+++.+...+......+++.+.+..+ . +..+.+|+..+.+++.||+.||++|++ ++.|.|.+...++.. +...++|.
T Consensus 194 ~i~~~~~~~~~~~~~~~i~i~~~~~-~-~~~~~~d~~~l~~vl~nll~Nai~~~~~~~~i~i~~~~~~~~~~i~i~d~G~ 271 (333)
T TIGR02966 194 LLDHLRDEAEALSQGKNHQITFEID-G-GVDVLGDEDELRSAFSNLVSNAIKYTPEGGTITVRWRRDGGGAEFSVTDTGI 271 (333)
T ss_pred HHHHHHHHHHHHHHHcCcEEEEcCC-C-CceEEECHHHHHHHHHHHHHHhheeCCCCCeEEEEEEEcCCEEEEEEEecCC
Confidence 9999999999999889899998873 3 335889999999999999999999987 467777776554331 33445555
Q ss_pred CCC
Q 010147 500 FYP 502 (517)
Q Consensus 500 ~~~ 502 (517)
+.|
T Consensus 272 gi~ 274 (333)
T TIGR02966 272 GIA 274 (333)
T ss_pred CCC
Confidence 544
No 34
>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=99.64 E-value=1.1e-14 Score=151.82 Aligned_cols=179 Identities=23% Similarity=0.349 Sum_probs=143.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 321 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDV 399 (517)
Q Consensus 321 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~-~~~~~~~~l~~i~~~~~rl~~li~~l 399 (517)
+++.+....+....+++++..+...++...++||+||||+.+.++++.+.... ..++..+.++.+.+..+++..+++++
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 34555555566666677777777889999999999999999999999876543 34456778999999999999999999
Q ss_pred HHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-C
Q 010147 400 LDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-G 478 (517)
Q Consensus 400 l~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g 478 (517)
+++++.+........+++++.++++++...+......+++.+.++. + ..+.+|+..+.+++.||++||+||+++ |
T Consensus 298 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~--~--~~~~~~~~~l~~~~~nll~Nai~~~~~~~ 373 (457)
T TIGR01386 298 LFLARADNGQLALERVRLDLAAELAKVAEYFEPLAEERGVRIRVEG--E--GLVRGDPQMFRRAISNLLSNALRHTPDGG 373 (457)
T ss_pred HHHHHhhcccccccccccCHHHHHHHHHHHHHHHHHhCCeEEEecC--C--ceEEECHHHHHHHHHHHHHHHHHcCCCCc
Confidence 9999998887788888999999999999999888888887776643 2 347899999999999999999999975 6
Q ss_pred eEEEEEEEcCCC-ccccCCCCCCCCC
Q 010147 479 YVSIIASVAKPE-SLSDWRPPEFYPV 503 (517)
Q Consensus 479 ~i~i~~~~~~~~-~~~~~~~~~~~~~ 503 (517)
.|.|.....++. .+.+.++|.+.|.
T Consensus 374 ~I~i~~~~~~~~~~i~v~D~G~g~~~ 399 (457)
T TIGR01386 374 TITVRIERRSDEVRVSVSNPGPGIPP 399 (457)
T ss_pred eEEEEEEecCCEEEEEEEeCCCCCCH
Confidence 788877765443 2334466666554
No 35
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=99.63 E-value=9.2e-15 Score=146.89 Aligned_cols=135 Identities=21% Similarity=0.298 Sum_probs=112.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 422 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~l 422 (517)
..++|++.++||+||||++|.++++++.+...+++.+++++.+.++++++..++++++.+.+.. ...+.++..+
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 4578999999999999999999999998766677788999999999999999999999876532 2346899999
Q ss_pred HHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC-C-CCeEEEEEE
Q 010147 423 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT-K-EGYVSIIAS 485 (517)
Q Consensus 423 i~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~-~-~g~i~i~~~ 485 (517)
++.+...+.... .+++.+.++.+++.|. +.+|+..+.||+.||++||+||+ + +|.|.+...
T Consensus 203 ~~~~~~~~~~~~-~~~i~i~~~~~~~~~~-i~~d~~~l~~vl~nLl~NA~~~~~~~~~~i~i~~~ 265 (348)
T PRK11073 203 AERVVQLVSLEL-PDNVRLIRDYDPSLPE-LAHDPDQIEQVLLNIVRNALQALGPEGGTITLRTR 265 (348)
T ss_pred HHHHHHHHhhhc-cCCcEEEEecCCCCCc-eeeCHHHHHHHHHHHHHHHHHHhccCCCeEEEEEc
Confidence 999988887655 4678888877777665 78899999999999999999996 3 566666553
No 36
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=99.57 E-value=7.8e-14 Score=146.17 Aligned_cols=171 Identities=25% Similarity=0.319 Sum_probs=137.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 010147 328 VALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLED 407 (517)
Q Consensus 328 ~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~ 407 (517)
+.+.+...++++. +...++.+.++||+|||++.+.+.++.+.+....++..++++.+...++++..++++++.+++++.
T Consensus 241 ~~~~~m~~~l~~~-~~~~~~~~~~~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~i~~l~~~~~~~~ 319 (475)
T PRK11100 241 QALESMRVKLEGK-AYVEQYVQTLTHELKSPLAAIRGAAELLQEDPPPEDRARFTGNILTQSARLQQLIDRLLELARLEQ 319 (475)
T ss_pred HHHHHHHHHHHHH-HHHHHHHHHhhhhhcCcHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 3344444443322 345678999999999999999999999987655667788999999999999999999999999887
Q ss_pred CCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-CCeEEEEEEE
Q 010147 408 GSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-EGYVSIIASV 486 (517)
Q Consensus 408 ~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-~g~i~i~~~~ 486 (517)
.......+++++.++++++...+......+++.+.++.+ +..+.+|...+.+++.||+.||+||++ +|.|.|.+..
T Consensus 320 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~---~~~~~~~~~~l~~vl~nli~Na~~~~~~~~~i~i~~~~ 396 (475)
T PRK11100 320 RQELEVLEPVALAALLEELVEAREAQAAAKGITLRLRPD---DARVLGDPFLLRQALGNLLDNAIDFSPEGGTITLSAEV 396 (475)
T ss_pred CCCCccceeccHHHHHHHHHHHHHHHHHhCCceEEEeCC---CceEEECHHHHHHHHHHHHHHHHHhCCCCCEEEEEEEE
Confidence 766667789999999999999999888889999888764 334788999999999999999999986 4788888876
Q ss_pred cCCCc-cccCCCCCCCC
Q 010147 487 AKPES-LSDWRPPEFYP 502 (517)
Q Consensus 487 ~~~~~-~~~~~~~~~~~ 502 (517)
.++.- +...++|.+.|
T Consensus 397 ~~~~~~i~i~D~G~Gi~ 413 (475)
T PRK11100 397 DGEQVALSVEDQGPGIP 413 (475)
T ss_pred cCCEEEEEEEECCCCCC
Confidence 55432 44557776665
No 37
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=99.57 E-value=9.4e-14 Score=145.09 Aligned_cols=176 Identities=20% Similarity=0.272 Sum_probs=134.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 321 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVL 400 (517)
Q Consensus 321 ~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll 400 (517)
+++.+..+.+.+..+++++..+.+.+|.+.+|||+||||+.+.+..+++.......+ .+..+.+.++++..++++++
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 344444455556666777777778899999999999999999999998875433322 45678889999999999999
Q ss_pred HHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeE
Q 010147 401 DLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYV 480 (517)
Q Consensus 401 ~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i 480 (517)
++++.+.. .....+.+++.+++++++..+......+++.++++..++ +..+.+|+..+.+++.||++||+||++ +.+
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 356777899999999999988877777888888874443 335889999999999999999999986 567
Q ss_pred EEEEEEcCCC-ccccCCCCCCCC
Q 010147 481 SIIASVAKPE-SLSDWRPPEFYP 502 (517)
Q Consensus 481 ~i~~~~~~~~-~~~~~~~~~~~~ 502 (517)
.|.+...++. ...+.++|.+.+
T Consensus 374 ~i~~~~~~~~~~i~V~D~G~Gi~ 396 (461)
T PRK09470 374 EVAFSVDKDGLTITVDDDGPGVP 396 (461)
T ss_pred EEEEEEECCEEEEEEEECCCCCC
Confidence 7776654433 133445555544
No 38
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=99.56 E-value=8.9e-14 Score=144.19 Aligned_cols=167 Identities=15% Similarity=0.202 Sum_probs=123.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (517)
Q Consensus 322 ~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~ 401 (517)
++.+..+.+.+..+++++..+.+..|.+++|||+||||+.|.+.++++.+. .....+.+.+..++|..+++++++
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 344444555566666677777889999999999999999999888877432 223455678889999999999999
Q ss_pred HhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEE
Q 010147 402 LSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVS 481 (517)
Q Consensus 402 ~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~ 481 (517)
+.+...+ ...+++++.+++++++.... ..+..+.++++.+ +..+.+|+..+.+++.||++||+||+ +|.|.
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 9986543 34568999999999987665 3455566665544 33588999999999999999999998 57777
Q ss_pred EEEEEcCCC-ccccCCCCCCCC
Q 010147 482 IIASVAKPE-SLSDWRPPEFYP 502 (517)
Q Consensus 482 i~~~~~~~~-~~~~~~~~~~~~ 502 (517)
|.+...++. .+.+.++|++.+
T Consensus 353 i~~~~~~~~~~i~V~D~G~Gi~ 374 (435)
T PRK09467 353 VSSGTEGKRAWFQVEDDGPGIP 374 (435)
T ss_pred EEEEecCCEEEEEEEecCCCcC
Confidence 777655432 133446665554
No 39
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=99.55 E-value=1.9e-13 Score=147.51 Aligned_cols=156 Identities=22% Similarity=0.281 Sum_probs=129.8
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 422 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~l 422 (517)
+.+++++.++||+||||+.|.++++++.....+++..+.++.+.+.++++..++++++.+++... ...+++++.++
T Consensus 389 ~l~~~~~~~~hel~~~l~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~l~~~~~~~~----~~~~~~~~~~~ 464 (607)
T PRK11360 389 ALGELVAGVAHEIRNPLTAIRGYVQIWRQQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFSRPRE----SQWQPVSLNAL 464 (607)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHhhCCCc----CccceecHHHH
Confidence 46789999999999999999999999887666777889999999999999999999999998653 33568999999
Q ss_pred HHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-CCeEEEEEEEcCCCc--cccCCCCC
Q 010147 423 LREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-EGYVSIIASVAKPES--LSDWRPPE 499 (517)
Q Consensus 423 i~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-~g~i~i~~~~~~~~~--~~~~~~~~ 499 (517)
++++...+......+++.++++.+++.+. +.+|+..+.+++.||+.||+||++ +|.|.|.+...+++. +...++|.
T Consensus 465 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~~nli~na~~~~~~~~~i~v~~~~~~~~~~~i~v~D~G~ 543 (607)
T PRK11360 465 VEEVLQLFQTAGVQARVDFETELDNELPP-IWADPELLKQVLLNILINAVQAISARGKIRIRTWQYSDGQVAVSIEDNGC 543 (607)
T ss_pred HHHHHHHHHHhhhccCcEEEEEcCCCCCe-EEECHHHHHHHHHHHHHHHHHHhcCCCeEEEEEEEcCCCEEEEEEEeCCC
Confidence 99999999887677889999888777665 778999999999999999999976 577888776655442 22346666
Q ss_pred CCCC
Q 010147 500 FYPV 503 (517)
Q Consensus 500 ~~~~ 503 (517)
|.|.
T Consensus 544 G~~~ 547 (607)
T PRK11360 544 GIDP 547 (607)
T ss_pred CCCH
Confidence 6553
No 40
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=99.54 E-value=9.4e-11 Score=116.43 Aligned_cols=303 Identities=15% Similarity=0.126 Sum_probs=208.3
Q ss_pred HHHHHHHHHHHHHHHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecccc
Q 010147 122 LKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI 201 (517)
Q Consensus 122 ~~~~~~~l~~~~~~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~ 201 (517)
++.++++..++.+.++++.+.+..+++.++.+.++...++.++-+++.+....++..+.+.+.++++......+.-....
T Consensus 224 Y~~LE~rV~eKT~~L~~~Nq~Ls~LYqssr~L~ts~~~~~~l~~vLn~l~~~~~~~~~~l~l~~~~~e~~h~~~~~~~di 303 (574)
T COG3850 224 YADLEQRVEEKTRDLEQKNQRLSFLYQSSRRLHTSQIDDERLRHVLNRLQNLTGLAAVRLELYGGDDERNHQEHAEQWDI 303 (574)
T ss_pred HHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhccCCChHHHHHHHHHHHHHhhcccceEEEEecCcchhhhhhhccCcce
Confidence 46677788888888999999999999999999999999999999999999999999999999887666543332111111
Q ss_pred ccccccccCCchhHHHhhccCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEee
Q 010147 202 QIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLP 281 (517)
Q Consensus 202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~ 281 (517)
. .+| ...+......+|+ ...+..+|.+..
T Consensus 304 ~-----------------------~~d-------------~~~~~~~~~~~~l--------------~~~g~~Lg~l~~- 332 (574)
T COG3850 304 S-----------------------EGD-------------QPSGLKWPQEDPL--------------TQQGHLLGTLPW- 332 (574)
T ss_pred e-----------------------cCC-------------CCcccchhhhcch--------------hhhhhhheeeec-
Confidence 0 000 0000000111121 111122333332
Q ss_pred cCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Q 010147 282 TDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHA 361 (517)
Q Consensus 282 ~~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~ 361 (517)
.+.+..++..++++++.+++.++...+..++.+ +| -..+.++..+..+++-+-.-|+.
T Consensus 333 ---~~~l~~~d~~Ll~tl~~~L~rtL~~~~~q~~~q----QL---------------llmEERatIAReLHDSiAQsLS~ 390 (574)
T COG3850 333 ---QRSLPEDDQQLLDTLVQQLGRTLALNKQQEQQQ----QL---------------LLMEERATIARELHDSIAQSLSF 390 (574)
T ss_pred ---cCCCCCchHHHHHHHHHHHHHHHHHHHHHHHHH----HH---------------HHHHHHHHHHHHHHHHHHHHHHH
Confidence 446888999999999999999996654332211 11 11233566777788888888888
Q ss_pred HHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCC
Q 010147 362 IIALSSLLLET---DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKK 438 (517)
Q Consensus 362 I~~~~~~l~~~---~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~ 438 (517)
+.-.+++|+.. .++++.++.+..+.+..+....-+++|+.--|+ ..+.-++...++++++.+... .+
T Consensus 391 LkiQvt~L~~~~~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtTFRl-------tL~e~~L~~AL~~~~~~f~~q---tg 460 (574)
T COG3850 391 LKIQVTLLKTAIPEELPEKAREIIAQIRQGLNDAYRQLRELLTTFRL-------TLQEAELPPALEQMLAEFSNQ---TG 460 (574)
T ss_pred HHHHHHHHHhhCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hcccCchHHHHHHHHHHHHhc---cC
Confidence 88888888764 445667889999999999999999998876553 344678999999999998864 45
Q ss_pred cEEEEEeCCCCCceEEccH---HHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCC-ccccCCCCCCCCC--CCCCceE
Q 010147 439 LSMTLIMAPELPTYAVGDE---KRLMQTILNIVGNAVKFTKEGYVSIIASVAKPE-SLSDWRPPEFYPV--STDGHFY 510 (517)
Q Consensus 439 i~i~~~~~~~~~~~v~~D~---~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~-~~~~~~~~~~~~~--~~~~~~~ 510 (517)
+.++++ ..+|... -|+ .++-||+..-++||+||+....|.|.++...++ ...+.|+|.|++. .+.||.+
T Consensus 461 ~~~~l~--~qlp~~~-lpa~qqvHlLqIvREAlsNa~KHa~As~i~V~~~~~~g~~~~~VeDnG~Gi~~~~e~~gHyG 535 (574)
T COG3850 461 ITVTLD--YQLPPRA-LPAHQQVHLLQIVREALSNAIKHAQASEIKVTVSQNDGQVTLTVEDNGVGIDEAAEPSGHYG 535 (574)
T ss_pred CeEEEe--ccCCCCC-CCHHHHHHHHHHHHHHHHHHHHhcccCeEEEEEEecCCeEEEEEeeCCcCCCCccCCCCCcc
Confidence 555554 3444322 243 456688899999999999999999999877522 2446677777663 3445544
No 41
>PRK13560 hypothetical protein; Provisional
Probab=99.52 E-value=2.4e-13 Score=152.15 Aligned_cols=165 Identities=10% Similarity=0.062 Sum_probs=121.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCc
Q 010147 331 DSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSL 410 (517)
Q Consensus 331 ~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~ 410 (517)
++++++++++.+.+++|+++||||+||||++|.++++++.+...+++...++..+......+....+.+..
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 34455666677789999999999999999999999999887777777777777776666666666555532
Q ss_pred ccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEE
Q 010147 411 ELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK----EGYVSIIASV 486 (517)
Q Consensus 411 ~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~ 486 (517)
....+++++.++++++...+......+...+.+.++.+.+.....+...+.+|+.||++||+||++ .|.|.+.+..
T Consensus 663 ~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~NLl~NAik~~~~~~~~~~i~i~~~~ 742 (807)
T PRK13560 663 SEDLADIDFLDYIESLTAHLKNSFAIDFGRIDCKIDADDGCLDIDKAIPCGLIISELLSNALKHAFPDGAAGNIKVEIRE 742 (807)
T ss_pred cccchhccHHHHHHHHHHHHHHHhccccCceEEEEecCccccccccccchHHHHHHHHHHHHHhhccCCCCceEEEEEEE
Confidence 123457999999999999988777666666666665554443444666789999999999999974 3567777766
Q ss_pred cCCCc--cccCCCCCCCCCC
Q 010147 487 AKPES--LSDWRPPEFYPVS 504 (517)
Q Consensus 487 ~~~~~--~~~~~~~~~~~~~ 504 (517)
..++. +.+.|+|.|+|..
T Consensus 743 ~~~~~v~i~V~D~G~GI~~~ 762 (807)
T PRK13560 743 QGDGMVNLCVADDGIGLPAG 762 (807)
T ss_pred cCCCEEEEEEEeCCCcCCcc
Confidence 53443 3356888887744
No 42
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=99.44 E-value=1.9e-11 Score=133.10 Aligned_cols=189 Identities=17% Similarity=0.200 Sum_probs=142.0
Q ss_pred HHHHHHHHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecc--cc--ccc
Q 010147 129 LDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN--QI--QIG 204 (517)
Q Consensus 129 l~~~~~~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~--~~--~~~ 204 (517)
.++..+.++++.+..+.+.++++.+.+..|+++++..+++.+.+.+++++|.|+++|+++..+.+....+. .. ..+
T Consensus 170 ~~~~~~~L~~~r~~~~~L~eIs~~l~s~~dl~ell~~I~~~i~~~~~a~~~~I~L~d~~~~~L~~~aa~g~~~~~~~~~~ 249 (686)
T PRK15429 170 NNVDYELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYLDKQHPAHEQ 249 (686)
T ss_pred HHHHHHHHHhhHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCcEEEEEecccChhhccccc
Confidence 33444445555566889999999999999999999999999999999999999999998887765443321 21 123
Q ss_pred cccccCCchhHHHhhccCceeecCCCchhhhhhcc---CCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEee
Q 010147 205 SSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLV---GRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLP 281 (517)
Q Consensus 205 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~ 281 (517)
...+..++.+..++.++++..+++...++...... ........+.+++||.. ++.++|++.+.
T Consensus 250 ~~~~~~~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~~~~~~~~~~s~l~vPL~~--------------~~~v~GvL~l~ 315 (686)
T PRK15429 250 SEVDEAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLMS--------------GDTMLGVLKLA 315 (686)
T ss_pred ccCCcccchHHHHHhcCceEEEECccCcccchhhhhhhhcccccceEEEEEeEEE--------------CCEEEEEEEEe
Confidence 34566678999999999999997765544322111 11122346677788643 34468888887
Q ss_pred cCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 282 TDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALD 331 (517)
Q Consensus 282 ~~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~ 331 (517)
+.+...|+++|++++..+|+++|+|++++..+++.++..+++++++..+.
T Consensus 316 ~~~~~~F~~~dl~lL~~iA~~~A~Aie~a~~~~~~~~~~~~L~~e~~~lt 365 (686)
T PRK15429 316 QCEEKVFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALT 365 (686)
T ss_pred eCCCCcCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhhHHHHHH
Confidence 66778999999999999999999999999999998888877766554433
No 43
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.40 E-value=2.5e-11 Score=120.11 Aligned_cols=164 Identities=34% Similarity=0.476 Sum_probs=125.4
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCC-cccccccccHHH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGS-LELDNGPFNLQI 421 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~-~~l~~~~~~l~~ 421 (517)
.+..|.+.++||+|||++.+.+..+.+... ..+...+.+..+...++++..++++++++++.+.+. .....+..++..
T Consensus 114 ~~~~~~~~~~hel~~pl~~i~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 192 (336)
T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEG-LLDPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELVDLAE 192 (336)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCCCcCHHH
Confidence 477899999999999999999988866554 222267788888899999999999999999998752 334467888999
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCC-CccccCCCCCC
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKP-ESLSDWRPPEF 500 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~-~~~~~~~~~~~ 500 (517)
+++++...+......+++.+....+ .+..+.+|+.++.+++.||++||+||++.|.+.|.+...++ -...+.++|++
T Consensus 193 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~v~~~~~~l~~vl~nLi~NAi~~~~~~~i~i~~~~~~~~i~i~V~D~G~G 270 (336)
T COG0642 193 LLEEVVRLLAPLAQEKGIELAVDLP--ELPYVLGDPERLRQVLVNLLSNAIKYTPGGEITISVRQDDEQVTISVEDTGPG 270 (336)
T ss_pred HHHHHHHHHHHHHHHcCCEEEEecC--CCceEeeCHHHHHHHHHHHHHHHhccCCCCeEEEEEEecCCeEEEEEEcCCCC
Confidence 9999999999888778888886543 22347889999999999999999999987777777765543 12334455555
Q ss_pred CCCCCCCce
Q 010147 501 YPVSTDGHF 509 (517)
Q Consensus 501 ~~~~~~~~~ 509 (517)
.+.....++
T Consensus 271 i~~~~~~~i 279 (336)
T COG0642 271 IPEEELERI 279 (336)
T ss_pred CCHHHHHHh
Confidence 554433333
No 44
>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=99.40 E-value=2.7e-12 Score=95.91 Aligned_cols=66 Identities=36% Similarity=0.652 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhc-CCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCC
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLE-TDLTPEQ-RVMIETVLKSSNLLTTLVDDVLDLSRLEDG 408 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~-~~~~~~~-~~~l~~i~~~~~rl~~li~~ll~~sr~~~~ 408 (517)
++++|+++++||+||||++|.++++++.+ ...+++. +++++.+..+++++..+++++++++|.++|
T Consensus 1 s~~~~~~~isHelr~PL~~i~~~~~~l~~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~sr~~~G 68 (68)
T PF00512_consen 1 SKGEFLASISHELRNPLTAIRGYLELLERDSDLDPEQLREYLDRIRSAADRLNELINDLLDFSRIESG 68 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCSSCC-HHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred CHHHHHHHHhHHHHHHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccC
Confidence 36889999999999999999999999999 6777776 999999999999999999999999998876
No 45
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=99.39 E-value=5.4e-11 Score=128.91 Aligned_cols=274 Identities=14% Similarity=0.119 Sum_probs=181.8
Q ss_pred hHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecc--ccccccccccCCchhHHHhhc
Q 010147 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN--QIQIGSSVPINLPIVTDVFNS 220 (517)
Q Consensus 143 ~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 220 (517)
+..++++++.+.++.|++++++.+++.+.+.+++++|.+|+.|+++..+......+. .......++.+.+.++.+..+
T Consensus 2 L~~L~eIs~~L~s~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~geGi~G~Va~t 81 (748)
T PRK11061 2 LTRLREIVEKVASAPRLNEALDILVTETCLAMDTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDEGIVGLVGRL 81 (748)
T ss_pred hHHHHHHHHHHhccCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCcchHHHHhcc
Confidence 345899999999999999999999999999999999999999998887766665553 222234567788999999999
Q ss_pred cCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHH
Q 010147 221 AQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVA 300 (517)
Q Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va 300 (517)
++++.++|...++++.........+.++.+++||... +.++|++.+.++.++.|++++.+++..+|
T Consensus 82 g~pV~V~Dv~~dprf~~~~~~~~~~~~S~L~VPL~~~--------------geVIGVL~v~~~~~~~Fs~~d~~lL~~LA 147 (748)
T PRK11061 82 AEPINLADAQKHPSFKYIPSVKEERFRAFLGVPIIYR--------------RQLLGVLVVQQRELRQFDESEESFLVTLA 147 (748)
T ss_pred CceEEECCcccCcccccCccccCccceEEEEEEEeeC--------------CEEEEEEEEeeCCCCCCCHHHHHHHHHHH
Confidence 9999999999988876433333456778889997533 34699999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH------------------------H--------HHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 301 DQVAVALSHAAILEDSMRARNQ------------------------L--------MEQNVALDSARREAEKAIHARNDFR 348 (517)
Q Consensus 301 ~qva~al~~a~l~~~~~~~~~~------------------------l--------~~~~~~l~~~~~~~~~~~~~~~~~~ 348 (517)
.++|+||+|+++.+.....+.. . .+...|.++.++..+.+.+...++.
T Consensus 148 ~~aAiAL~na~l~~~~~~~~~~~l~G~~~s~Gia~G~~~~~~~~~~~~~~~~~~~~~~e~E~~Rl~~A~~~a~~eL~~l~ 227 (748)
T PRK11061 148 TQLAAILSQSQLTALFGQYRQTRIRALPASPGVAIAEGWQDATQPLLEQVYPASTLDPALERERLTGALEEAANEFRRYS 227 (748)
T ss_pred HHHHHHHHHHhhccccccccccccCceEccCeEEEEEEEEeccccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999998777422110 0 0011122222222233333334444
Q ss_pred HHHHHHHHhHHHHH-HHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhhcCCCcccccccccHHHHHHHH
Q 010147 349 AVMNHEMRTLMHAI-IALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVL-DLSRLEDGSLELDNGPFNLQIVLREV 426 (517)
Q Consensus 349 ~~iaHelrnPL~~I-~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll-~~sr~~~~~~~l~~~~~~l~~li~~~ 426 (517)
..+..++...-..| ..+..+|.+....++..+.+..-.....-....++++. .|.++++. -+.-...|+.++-+.+
T Consensus 228 ~~~~~~~g~~~a~If~ah~~mL~D~~l~~~v~~~I~~~~~Ae~Av~~~~~~~~~~f~~~dd~--ylreRa~Di~Dv~~Rv 305 (748)
T PRK11061 228 KRFAAGAQKETAAIFDLYSHLLNDPRLRRELFAEVDKGSVAEWAVKQVIEKFAEQFAALSDN--YLRERAGDLRALGQRL 305 (748)
T ss_pred HHHHhhhCHHHHHHHHHHHHHhCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHhCCCH--HHHHHHHHHHHHHHHH
Confidence 44444444444444 45566665543334443433322222233333333322 23333322 2334457888888888
Q ss_pred HHHHhh
Q 010147 427 IKLIKP 432 (517)
Q Consensus 427 ~~~~~~ 432 (517)
+..+..
T Consensus 306 l~~L~g 311 (748)
T PRK11061 306 LFHLDD 311 (748)
T ss_pred HHHhCC
Confidence 877753
No 46
>PRK13557 histidine kinase; Provisional
Probab=99.38 E-value=1.1e-11 Score=132.05 Aligned_cols=137 Identities=18% Similarity=0.229 Sum_probs=110.4
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccc
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLET-----DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPF 417 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~-----~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~ 417 (517)
...++.+.++||+||||+.|.++++++.+. ...+...+.++.+.+.++++..++++++++++.. ......+
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 467799999999999999999999988643 1345567889999999999999999999998843 3455679
Q ss_pred cHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCC-CeEEEEEE
Q 010147 418 NLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKE-GYVSIIAS 485 (517)
Q Consensus 418 ~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~-g~i~i~~~ 485 (517)
++..+++++...+... ..+++.+.+..++..+. +.+|+.++.|++.||+.||+||++. |.+.+...
T Consensus 238 ~l~~~i~~~~~~~~~~-~~~~~~i~~~~~~~~~~-~~~d~~~l~~vl~nll~NA~~~~~~~~~i~i~~~ 304 (540)
T PRK13557 238 NLNGLVSGMGELAERT-LGDAVTIETDLAPDLWN-CRIDPTQAEVALLNVLINARDAMPEGGRVTIRTR 304 (540)
T ss_pred CHHHHHHHHHHHHHHh-cCCCeEEEEecCCCCCc-eeeCHHHHHHHHHHHHHHHHHhcccCCeEEEEEe
Confidence 9999999888776643 35677888777666665 7789999999999999999999874 55555544
No 47
>PRK13559 hypothetical protein; Provisional
Probab=99.29 E-value=5e-11 Score=120.42 Aligned_cols=123 Identities=12% Similarity=0.174 Sum_probs=92.2
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHH
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVL 423 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li 423 (517)
+.+|++.++||+||||+.|.++.+++... .+..++++.+.+.+.++..+++++++.++ .+++++.+++
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 45688899999999999999999988632 22345778888999999999998886543 3479999999
Q ss_pred HHHHHHHhhhhhcCCcEEEEEeCCCCCceEEcc-HHHHHHHHHHHHHHHhhc---CC-CCeEEEEEE
Q 010147 424 REVIKLIKPVASCKKLSMTLIMAPELPTYAVGD-EKRLMQTILNIVGNAVKF---TK-EGYVSIIAS 485 (517)
Q Consensus 424 ~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D-~~~l~qvl~NLl~NAik~---~~-~g~i~i~~~ 485 (517)
++++..+... +.++.++. ++.+ +..+ ...|.|||.||++||+|| ++ .|.|.|.+.
T Consensus 238 ~~~~~~~~~~----~~~i~~~~-~~~~--~~~~~~~~l~~vl~nLi~NA~k~~~~~~~~g~i~v~~~ 297 (361)
T PRK13559 238 RAQVAPYAPR----ATRVAFEG-PGIR--LGAASVQPLGLVLHELAVNAIKHGALSADQGRISISWK 297 (361)
T ss_pred HHHHHhhcCC----CceEEEEC-CCee--eCHHHHHHHHHHHHHHHHhHHHhccccCCCcEEEEEEE
Confidence 9998877632 45555543 2222 2222 356999999999999999 43 588888873
No 48
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=99.22 E-value=4.1e-08 Score=105.43 Aligned_cols=182 Identities=15% Similarity=0.126 Sum_probs=114.8
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH---
Q 010147 290 DHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALS--- 366 (517)
Q Consensus 290 ~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~--- 366 (517)
..+..++..++.+++.++......++.++ +. ..+....++||+++|++.+..+.
T Consensus 329 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~-------------------~~~~~~~la~el~~~l~~~l~~~~~~ 385 (565)
T PRK10935 329 CPDEPLMNNVAQMLGRGLYFNQAQKQQQQ----LL-------------------LMEERATIARELHDSLAQVLSYLKIQ 385 (565)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHHH----HH-------------------HHHHHHHHHHHhcchHHHHHHHHHHH
Confidence 56778899999888887744332222110 00 01112236677766666655444
Q ss_pred -HHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEE
Q 010147 367 -SLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTL 443 (517)
Q Consensus 367 -~~l~~~--~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~ 443 (517)
+++.+. ...++..+.+..+.+...++...+.+++...+ ...+++++.+.+++++..+.... ++.+.+
T Consensus 386 ~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~~~~-------~~~~~~~l~~~l~~~~~~~~~~~---~~~i~~ 455 (565)
T PRK10935 386 LTLLKRSLDEDNAKAQSIIAEFDQALSDAYRQLRELLTTFR-------LTIQEANLGSALEEMLDQLRNQT---DAKITL 455 (565)
T ss_pred HHHHHHhcccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-------CCCCCCCHHHHHHHHHHHHHHhh---CCeEEE
Confidence 334432 23455667888888888888888888876443 34458899999999999887643 333443
Q ss_pred EeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCc--cccCCCCCCCCCC
Q 010147 444 IMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPES--LSDWRPPEFYPVS 504 (517)
Q Consensus 444 ~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~--~~~~~~~~~~~~~ 504 (517)
+.+.+.+.....++.++.|++.|++.||+||++.|.+.+.....+++. +.+.++|.|.|..
T Consensus 456 ~~~~~~~~~~~~~~~~l~qv~~nll~NA~k~~~~~~i~i~~~~~~~~~~~i~V~D~G~Gi~~~ 518 (565)
T PRK10935 456 DCRLPSQALDAQQQVHLLQIIREATLNAIKHANASEIAVSCVTNPDGEHTVSIRDDGIGIGEL 518 (565)
T ss_pred EeeCCCCCCCHHHHHHHHHHHHHHHHHHHhcCCCCeEEEEEEEcCCCEEEEEEEECCcCcCCC
Confidence 322221112333456699999999999999999888888887654443 3345777776644
No 49
>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=99.21 E-value=8.3e-10 Score=116.94 Aligned_cols=161 Identities=13% Similarity=0.156 Sum_probs=127.2
Q ss_pred hHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEE-EEeccccccccccccCCchhHHHhhcc
Q 010147 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELS-YTLNNQIQIGSSVPINLPIVTDVFNSA 221 (517)
Q Consensus 143 ~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~ 221 (517)
+..++++++.+.++.|++++++.+++.+.+.+++++|+|++.|+++..+..+ +++.........++...++++.++.++
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 5679999999999999999999999999999999999999999877654333 222222222345677889999999999
Q ss_pred CceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCC-CCccccchhHHHHHHH
Q 010147 222 QAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-GRKWRDHELELIDVVA 300 (517)
Q Consensus 222 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~-~~~~~~~e~~ll~~va 300 (517)
+++.++|...++++.........+..+.+++||. .++.++|++++.+.. ++.|+++|++++..+|
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 9999999988877653322334456788899964 334468888888764 5678999999999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q 010147 301 DQVAVALSHAAILEDSM 317 (517)
Q Consensus 301 ~qva~al~~a~l~~~~~ 317 (517)
.++|.+|.+++++...+
T Consensus 150 ~~ia~aI~~~~~~~~~~ 166 (534)
T TIGR01817 150 NLIGQTVRLHRLVAQRR 166 (534)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 99999999888776444
No 50
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=99.12 E-value=1.3e-09 Score=92.23 Aligned_cols=129 Identities=22% Similarity=0.328 Sum_probs=100.0
Q ss_pred CHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccccccccccccCCchhHHHhhccCceeecCCCchhhhhh
Q 010147 158 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRL 237 (517)
Q Consensus 158 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 237 (517)
|++++++.+++.+.+.++++++.+|+.|+++..+....+++........++...+.+..++.++++...++.....
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 6789999999999999999999999999998888888777443333346778888999999999887776543321
Q ss_pred ccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHHHHHHH
Q 010147 238 LVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSH 309 (517)
Q Consensus 238 ~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~al~~ 309 (517)
..+..+.+.+|+...+ ..+|++++....++.|+++++++++.+|++++.||+|
T Consensus 77 -----~~~~~s~~~vPl~~~~--------------~~~Gvl~~~~~~~~~~~~~d~~~l~~~a~~~a~alen 129 (129)
T PF13492_consen 77 -----FLGIRSLLVVPLRSRD--------------RVIGVLCLDSREPEEFSDEDLQLLESLANQLAIALEN 129 (129)
T ss_dssp -----TTTTCEEEEEEEEETT--------------EEEEEEEEEECTTCG-SHHHHHHHHHHHHHHHHHHH-
T ss_pred -----CCCCCEEEEEEEeECC--------------EEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHhCC
Confidence 1455777889975554 3588888888888899999999999999999999976
No 51
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=99.01 E-value=2e-07 Score=88.29 Aligned_cols=206 Identities=12% Similarity=0.074 Sum_probs=143.2
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Q 010147 290 DHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAE-KAIHARNDFRAVMNHEMRTLMHAIIALSSL 368 (517)
Q Consensus 290 ~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~-~~~~~~~~~~~~iaHelrnPL~~I~~~~~~ 368 (517)
.+..+++-.++.|.-.-+..-....+.++.++.+++...+-+...+++- ..+..+.+.++.+++|+.+-+++|...+.+
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 5677888888888433333333333344444444333222222222222 223468889999999999999999999999
Q ss_pred HhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCC
Q 010147 369 LLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKLSMTLIMAPE 448 (517)
Q Consensus 369 l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~ 448 (517)
.++..+++..++.-+.|++-+-|+.+-+++++.--| +...+...+.+.++.+++.++ ..+++|...++...+
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 999888888888899999999999999999986554 445557889999999999887 457888777765433
Q ss_pred CCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCC-CccccCCCCCCCCC
Q 010147 449 LPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKP-ESLSDWRPPEFYPV 503 (517)
Q Consensus 449 ~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~-~~~~~~~~~~~~~~ 503 (517)
....-..-+..+.++.++++.|-+||.+...|+|....+++ -...+.|+|.|.|.
T Consensus 400 ~~~ldet~rvTLyRl~QE~LNNI~KHA~AS~V~i~l~~~~e~l~Lei~DdG~Gl~~ 455 (497)
T COG3851 400 ETALDETQRVTLYRLCQELLNNICKHADASAVTIQLWQQDERLMLEIEDDGSGLPP 455 (497)
T ss_pred cccCCcceeEeHHHHHHHHHHHHHhccccceEEEEEeeCCcEEEEEEecCCcCCCC
Confidence 21111122345889999999999999999999988876654 23445566666653
No 52
>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=98.97 E-value=4.8e-09 Score=91.82 Aligned_cols=136 Identities=19% Similarity=0.231 Sum_probs=104.9
Q ss_pred CHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccccc--cccccccCCchhHHHhhccCceeecCCCchhhh
Q 010147 158 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQ--IGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 235 (517)
Q Consensus 158 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (517)
|++++++.+++.+.+.+++++|++++.+.++..+......+.... .+...+...+.+..++.+++++.+.+...++.+
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 688999999999999999999999999999998877766654432 334455667889999999999999988777654
Q ss_pred hhccCC---------------CCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCC-CccccchhHHHHHH
Q 010147 236 RLLVGR---------------YVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGG-RKWRDHELELIDVV 299 (517)
Q Consensus 236 ~~~~~~---------------~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~-~~~~~~e~~ll~~v 299 (517)
...... ...+.++.+++|+...+ ..+|++.+.+..+ +.|+++|+++++.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi~~~g--------------~~~G~l~l~~~~~~~~~~~~d~~ll~~~ 146 (154)
T PF01590_consen 81 APQIAAQSALRALSSAERPFLAEYGVRSYLCVPIISGG--------------RLIGVLSLYRTRPGRPFTEEDLALLESF 146 (154)
T ss_dssp SCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEEEETT--------------EEEEEEEEEEESSSSS--HHHHHHHHHH
T ss_pred cccccccccccccccccccccccccCceeeEeeeeccc--------------CcEEEEEEEECCCCCCcCHHHHHHHHHH
Confidence 422111 14567788888854443 4578887777776 99999999999999
Q ss_pred HHHHHHHH
Q 010147 300 ADQVAVAL 307 (517)
Q Consensus 300 a~qva~al 307 (517)
|.++++||
T Consensus 147 a~~~a~ai 154 (154)
T PF01590_consen 147 AQQLAIAI 154 (154)
T ss_dssp HHHHHHHH
T ss_pred HHHHHhhC
Confidence 99999986
No 53
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.96 E-value=3e-08 Score=108.21 Aligned_cols=174 Identities=10% Similarity=0.061 Sum_probs=130.6
Q ss_pred hHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccc-cc--cccccccCCchhHHHhh
Q 010147 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ-IQ--IGSSVPINLPIVTDVFN 219 (517)
Q Consensus 143 ~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~-~~--~~~~~~~~~~~~~~~~~ 219 (517)
...|.++++.+.+..|++++++.+...+.+.+.+|++.|.++|+....+.. +..+.. .+ .........++.+.+++
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 345889999999999999999999999999999999999999987776654 222221 11 11223356778889999
Q ss_pred ccCceeecCCCchhhhhhc-cCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHH
Q 010147 220 SAQAMRLPYNCPLARIRLL-VGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDV 298 (517)
Q Consensus 220 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~ 298 (517)
+++++..++..-..++... .....++..+-+.+||.. ++.++|++++....+..|+++|.+++..
T Consensus 87 ~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~lgvPl~~--------------~~~v~G~l~l~~~~~~~Ft~~d~~ll~~ 152 (686)
T PRK15429 87 RPDTLHCSYEEFCETWPQLAAGGLYPKFGHYCLMPLAA--------------EGHIFGGCEFIRYDDRPWSEKEFNRLQT 152 (686)
T ss_pred cCceEEEchHHhhhccHHHhhcccccCccceEEeceee--------------CCeeEEEEEEEEcCCCCCCHHHHHHHHH
Confidence 9999988765444433321 122334445555577543 4456888888877789999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 299 VADQVAVALSHAAILEDSMRARNQLMEQNVALD 331 (517)
Q Consensus 299 va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~ 331 (517)
+|.++++|++|++++++.++..+.|+++..+++
T Consensus 153 la~~a~~aie~~~~~e~~~~~~~~L~~~r~~~~ 185 (686)
T PRK15429 153 FTQIVSVVTEQIQSRVVNNVDYELLCRERDNFR 185 (686)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 999999999999999999888888766655543
No 54
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=98.86 E-value=1.5e-07 Score=98.99 Aligned_cols=171 Identities=15% Similarity=0.119 Sum_probs=125.6
Q ss_pred HHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccc-cccccccccCC-chhHHHhhcc
Q 010147 144 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ-IQIGSSVPINL-PIVTDVFNSA 221 (517)
Q Consensus 144 ~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~ 221 (517)
..++++++.+.++.|++++++.+++.+.+.++++.|.+.+.+++ .+...+..+.. ......++.++ |.+..+..++
T Consensus 4 ~~l~eis~~L~~s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~--~l~~~as~gl~~~~~~~~~~~geGP~l~av~~~g 81 (509)
T PRK05022 4 DALLPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGD--QLVPLAIDGLSPDVLGRRFALEEHPRLEAILRAG 81 (509)
T ss_pred HHHHHHHHHHhcCCCHHHHHHHHHHHHHHHcCCCEEEEEecCCC--cEEEEEEcCCChHhhCCccCCCcchHHHHHHhcC
Confidence 45899999999999999999999999999999999999998864 33433333321 11122444444 4778888778
Q ss_pred CceeecCCCchhhhh--h-ccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHH
Q 010147 222 QAMRLPYNCPLARIR--L-LVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDV 298 (517)
Q Consensus 222 ~~~~~~~~~~~~~~~--~-~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~ 298 (517)
.++.+++....+.+- . .......+..+.+++||... +..+|++.+.+..+..|++++.+++..
T Consensus 82 ~~v~v~~~~~~p~~~~~~~~~~~~~~gi~S~l~vPL~~~--------------~~~~GvL~l~~~~~~~f~~~~~~~l~~ 147 (509)
T PRK05022 82 DPVRFPADSELPDPYDGLIPGVQESLPVHDCMGLPLFVD--------------GRLIGALTLDALDPGQFDAFSDEELRA 147 (509)
T ss_pred CeEEEecCCCCCcccccccccccccCCcceEEEEEEEEC--------------CEEEEEEEEeeCCCCcCCHHHHHHHHH
Confidence 888887665444321 0 01122335568889996443 346899999888888999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 299 VADQVAVALSHAAILEDSMRARNQLMEQNVAL 330 (517)
Q Consensus 299 va~qva~al~~a~l~~~~~~~~~~l~~~~~~l 330 (517)
+|.+++.|+.+++.+++.++..+++....+.+
T Consensus 148 ~a~~~a~Al~~a~~~~~l~~~~~~~~~~~~~~ 179 (509)
T PRK05022 148 LAALAAATLRNALLIEQLESQAELPQDVAEFL 179 (509)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999888777666554443
No 55
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=98.80 E-value=5.9e-05 Score=76.48 Aligned_cols=144 Identities=16% Similarity=0.101 Sum_probs=89.4
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 422 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~l 422 (517)
...+-++..+||+.|-|++|.|++++-.. + +..+.|.+.++.-.+.++.+..--+ +--+..+
T Consensus 332 ~ya~aLRaq~HEfmNkLhtI~GLlql~~y----d---~a~~~I~~~~~~qq~~~~~l~~~i~-----------~~~lAg~ 393 (537)
T COG3290 332 QYAEALRAQSHEFMNKLHTILGLLQLGEY----D---DALDYIQQESEEQQELIDSLSEKIK-----------DPVLAGF 393 (537)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHhhccH----H---HHHHHHHHHHhhhhhhHHHHHHhcc-----------cHHHHHH
Confidence 34456678899999999999999987432 2 3334444444444555544432111 1123333
Q ss_pred HHHHHHHHhhhhhcCCcEEEEEeCCCCCce-EEccHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEEcCCCc-cccCC
Q 010147 423 LREVIKLIKPVASCKKLSMTLIMAPELPTY-AVGDEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKPES-LSDWR 496 (517)
Q Consensus 423 i~~~~~~~~~~~~~~~i~i~~~~~~~~~~~-v~~D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~~~~~~-~~~~~ 496 (517)
+-.-. ..+++.|+.+.++....+|.. -.-+...+--++-||++||+++.- ++.|.+..+..++.- .++-+
T Consensus 394 LlgK~----~rArElgv~l~Id~~S~l~~~p~~~~~~~litIlGNLidNA~eA~~~~~~~k~I~l~i~~~~~~lvieV~D 469 (537)
T COG3290 394 LLGKI----SRARELGVSLIIDPNSQLPQLPSELQPHDLVTILGNLIDNALEALLAPEENKEIELSLSDRGDELVIEVAD 469 (537)
T ss_pred HHhHH----HHHHHcCceEEEcCCCcCCCCCCccChHHHHHHHHHHHHHHHHHhhccCCCcEEEEEEEecCCEEEEEEeC
Confidence 32222 345578999998876665541 223888999999999999999853 356666666655543 33557
Q ss_pred CCCCCCCCCCCc
Q 010147 497 PPEFYPVSTDGH 508 (517)
Q Consensus 497 ~~~~~~~~~~~~ 508 (517)
+|+|+|......
T Consensus 470 ~G~GI~~~~~~~ 481 (537)
T COG3290 470 TGPGIPPEVRDK 481 (537)
T ss_pred CCCCCChHHHHH
Confidence 788777544333
No 56
>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=98.80 E-value=1.5e-07 Score=80.34 Aligned_cols=144 Identities=22% Similarity=0.271 Sum_probs=100.8
Q ss_pred CHHHHHHHHHHHHHhhhCCceeEEEccCCC-CCeEEEEEEecccc-ccccccccCCchhHHHhhccCceeecCCCchhhh
Q 010147 158 DRHTILKTTLVELGRTLGLEECALWMPSRT-GLNLELSYTLNNQI-QIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 235 (517)
Q Consensus 158 d~~~il~~~~~~l~~~l~~~~~~i~l~~~~-~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (517)
|++++++.+++.+.+.++++++.+++.+++ ...+......+... ..+..++...+....++.++++..+++.......
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDRGELVLVAADGLTLPLLGLRYPLGEGLAGRVAETGRPLNIPDVEADPVF 80 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCCCcEEEEEecCCCcccceEEecCCCChHHHHHHcCCeEEeechhhCCcc
Confidence 467889999999999999999999999983 44443333333221 2234456667888999999988888766544311
Q ss_pred hhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecC-CCCccccchhHHHHHHHHHHHHHHHHHHHHH
Q 010147 236 RLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GGRKWRDHELELIDVVADQVAVALSHAAILE 314 (517)
Q Consensus 236 ~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~-~~~~~~~~e~~ll~~va~qva~al~~a~l~~ 314 (517)
.........+..+.+++|+...+ ..+|++++... .++.|+.+++++++.++++++.++++.++.+
T Consensus 81 ~~~~~~~~~~~~s~~~~Pl~~~~--------------~~~G~l~~~~~~~~~~~~~~~~~~l~~~~~~i~~~l~~~~~~~ 146 (149)
T smart00065 81 ALDLLGRYQGVRSFLAVPLVADG--------------ELVGVLALHNKDSPRPFTEEDEELLQALANQLAIALANAQLYE 146 (149)
T ss_pred ccccccceeceeeEEEeeeeecC--------------EEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11111111225667777864433 34677777766 6889999999999999999999999998776
Q ss_pred H
Q 010147 315 D 315 (517)
Q Consensus 315 ~ 315 (517)
+
T Consensus 147 ~ 147 (149)
T smart00065 147 E 147 (149)
T ss_pred h
Confidence 5
No 57
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=98.80 E-value=2.3e-07 Score=93.14 Aligned_cols=154 Identities=18% Similarity=0.202 Sum_probs=128.6
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEE--EeccccccccccccCCchhHHHhhccCc
Q 010147 146 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSY--TLNNQIQIGSSVPINLPIVTDVFNSAQA 223 (517)
Q Consensus 146 l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 223 (517)
++++-+.+.+..++.+-++.+++.+...+..+-|.+|+.+.++..+++-. ++++.......+..+++.++.+.+..+|
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 66777778999999999999999999999999999999999886665544 4443333334566789999999999999
Q ss_pred eeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHH
Q 010147 224 MRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQV 303 (517)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qv 303 (517)
+.+.|.+..++|.+.....+..-++-+.+|+++.+ ..+||++++++..|.|.++|.+++++.|.|+
T Consensus 85 lNLsdAqsHPsF~Y~petgEE~Y~sFLGvPIi~~~--------------r~lGVLVVQqk~~R~y~E~Eve~L~T~A~~l 150 (756)
T COG3605 85 LNLADAQSHPSFKYLPETGEERYHSFLGVPIIRRG--------------RLLGVLVVQQRELRQYDEDEVEFLVTLAMQL 150 (756)
T ss_pred CChhhhhhCCccccccccchHHHHHhhccceeecC--------------ceeEEEEEecccccccchHHHHHHHHHHHHH
Confidence 99999999999987665555555666677765444 4599999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 010147 304 AVALSHAAIL 313 (517)
Q Consensus 304 a~al~~a~l~ 313 (517)
|..+.++++.
T Consensus 151 A~iva~~el~ 160 (756)
T COG3605 151 AEIVAQSQLT 160 (756)
T ss_pred HHHHHhhhhh
Confidence 9999999877
No 58
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.76 E-value=3.6e-08 Score=105.27 Aligned_cols=138 Identities=14% Similarity=0.081 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHH-HHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH
Q 010147 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETV-LKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (517)
Q Consensus 343 ~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i-~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~ 421 (517)
...++++.++||+||||+.|.|++++... ++..+++..+ .+...++..+++++. . ++ +..
T Consensus 338 ~~~~~l~~~sHel~npL~~I~g~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~----------~----~~-~~~ 398 (542)
T PRK11086 338 NYADALRAQSHEFMNKLHVILGLLHLKSY----DQLEDYILKTANNYQEEIGSLLGKIK----------S----PV-IAG 398 (542)
T ss_pred HHHHHHHhhchhhcCHHHHHHHHHHhCch----HHHHHHHHHHHHHHHHHHHHHHHhcc----------C----HH-HHH
Confidence 34556778999999999999999886432 2233333322 222233333333221 0 11 111
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceE-EccHHHHHHHHHHHHHHHhhcCC---CCeEEEEEEEcCCCc-cccCC
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYA-VGDEKRLMQTILNIVGNAVKFTK---EGYVSIIASVAKPES-LSDWR 496 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v-~~D~~~l~qvl~NLl~NAik~~~---~g~i~i~~~~~~~~~-~~~~~ 496 (517)
++ ......+..+++.+.++.++..|... ..+...+.+|+.||++||+||++ +|.|.+.+...++.- +...+
T Consensus 399 ~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~I~i~~~~~~~~~~i~V~D 474 (542)
T PRK11086 399 FL----LGKISRARELGITLIISEDSQLPDSGDEDQVHELITILGNLIENALEAVGGEEGGEISVSLHYRNGWLHCEVSD 474 (542)
T ss_pred HH----HHHHHHHHHcCCEEEEeCCCCCCcccccccHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEEcCCEEEEEEEE
Confidence 11 11223345678888887766555321 12345799999999999999963 467777776554322 33446
Q ss_pred CCCCCCC
Q 010147 497 PPEFYPV 503 (517)
Q Consensus 497 ~~~~~~~ 503 (517)
+|+++|.
T Consensus 475 ~G~gi~~ 481 (542)
T PRK11086 475 DGPGIAP 481 (542)
T ss_pred CCCCCCH
Confidence 6666553
No 59
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=98.73 E-value=6.5e-08 Score=70.99 Aligned_cols=64 Identities=44% Similarity=0.669 Sum_probs=56.5
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLED 407 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~ 407 (517)
+++|.+.++||+||||+.|.++++.+.+...+++..++++.+.++++++..++++++++++.+.
T Consensus 2 ~~~~~~~i~Hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~~ 65 (66)
T smart00388 2 KREFLANLSHELRTPLTAIRGYLELLEDTELSEEQREYLETILRSAERLLRLINDLLDLSRIEA 65 (66)
T ss_pred HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4679999999999999999999999887555666688999999999999999999999998653
No 60
>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=98.67 E-value=2.3e-07 Score=80.42 Aligned_cols=135 Identities=19% Similarity=0.219 Sum_probs=89.2
Q ss_pred cCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccccccccc--cccCC---------chhHHHhhccCcee
Q 010147 157 LDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSS--VPINL---------PIVTDVFNSAQAMR 225 (517)
Q Consensus 157 ~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~~~~--~~~~~---------~~~~~~~~~~~~~~ 225 (517)
.|++++++.+++.+.+.++++.+.+++.|+++......+........... .+... +....++.+++++.
T Consensus 2 ~~~~ell~~~~~~~~~~~~~~~~~i~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (148)
T PF13185_consen 2 EDLEELLQQILDALLELTGADAGAIYLYDPDGQLLPVAASGDPSEFLKEEIPLPPPPDEPPAYAAVGLWEGVLRTGEPII 81 (148)
T ss_dssp HHHHHHHHHHHHHHHHHHS-SEEEEEEEETTSEEEEEEEESSSCTSTCCECCCCCCCESCHHHCCEETTSHHHHHTS-EE
T ss_pred cCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCcEEEEEEeCCchhhhhhhcccCcccccccchhhhhHHHHHHhcCceEE
Confidence 46789999999999999999999999998887545555444332211111 22221 11122388899999
Q ss_pred ec-CCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHH
Q 010147 226 LP-YNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVA 304 (517)
Q Consensus 226 ~~-~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva 304 (517)
++ +...... .......+..+.+++||...+ ..+|++.+.+..++.|+++++++++.+|++++
T Consensus 82 ~~~~~~~~~~---~~~~~~~~~~s~l~vPl~~~~--------------~~~Gvl~l~~~~~~~f~~~~~~~l~~la~~~a 144 (148)
T PF13185_consen 82 INDDDSSFPP---WELARHPGIRSILCVPLRSGG--------------EVIGVLSLYSKEPNAFSEEDLELLEALADQIA 144 (148)
T ss_dssp ESCCCGGGST---THHHCCTT-SEEEEEEEEETT--------------EEEEEEEEEESSTT---HHHHHHHHHHHHHHH
T ss_pred EeCccccccc---hhhhccccCCEEEEEEEeECC--------------EEEEEEEEeeCCCCCcCHHHHHHHHHHHHHHH
Confidence 88 2211111 223445677888899975444 45899999998888999999999999999999
Q ss_pred HHHH
Q 010147 305 VALS 308 (517)
Q Consensus 305 ~al~ 308 (517)
.||+
T Consensus 145 ~aie 148 (148)
T PF13185_consen 145 IAIE 148 (148)
T ss_dssp HHHH
T ss_pred HHhC
Confidence 9985
No 61
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=98.66 E-value=3.3e-07 Score=97.95 Aligned_cols=135 Identities=17% Similarity=0.106 Sum_probs=84.5
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHH
Q 010147 346 DFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLRE 425 (517)
Q Consensus 346 ~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~ 425 (517)
+.+..++||++|||++|.++.++- +..+.++.+.+.+.++..+++.+...... -.+..++..
T Consensus 340 e~l~~~~he~~n~L~~i~g~l~~~-------~~~~~~~~i~~~s~~~~~l~~~l~~~~~~-----------~~~~~~l~~ 401 (545)
T PRK15053 340 ESLRTLRHEHLNWMSTLNGLLQMK-------EYDRVLEMVQGESQAQQQLIDSLREAFAD-----------RQVAGLLFG 401 (545)
T ss_pred HHHHHHHHHHhhhHHHHHHHHhhc-------hhhHHHHHHHHHHHHHHHHHHHHHHhccc-----------HHHHHHHHH
Confidence 345568999999999999987753 22346777888888888888888764321 112222211
Q ss_pred HHHHHhhhhhcCCcEEEEEeCCCCC-ceEEccHHHHHHHHHHHHHHHhhcC---CC--CeEEEEEEEcCCCc-cccCCCC
Q 010147 426 VIKLIKPVASCKKLSMTLIMAPELP-TYAVGDEKRLMQTILNIVGNAVKFT---KE--GYVSIIASVAKPES-LSDWRPP 498 (517)
Q Consensus 426 ~~~~~~~~~~~~~i~i~~~~~~~~~-~~v~~D~~~l~qvl~NLl~NAik~~---~~--g~i~i~~~~~~~~~-~~~~~~~ 498 (517)
- ...+..+++.+.+..+.+.. ....+|+..+.|++.||++||+||. ++ +.|.+.+...++.- +.+.++|
T Consensus 402 ~----~~~~~~~~i~~~~~~~~~~~~l~~~~~~~~l~~vl~nLl~NAi~~~~~~~~~~~~i~i~~~~~~~~~~i~V~D~G 477 (545)
T PRK15053 402 K----VQRARELGLKMVIVPGSQLSQLPPGLDSTEFAAIVGNLLDNAFEASLRSDEGNKIVELFLSDEGDDVVIEVADQG 477 (545)
T ss_pred H----HHHHHHhCCceEEcCCCccccccccCCHHHHHHHHHHHHHHHHHHHhhCCCCCceEEEEEEECCCEEEEEEEeCC
Confidence 1 22344567777765443321 1145699999999999999999994 33 45666555443221 3344666
Q ss_pred CCCC
Q 010147 499 EFYP 502 (517)
Q Consensus 499 ~~~~ 502 (517)
+++|
T Consensus 478 ~Gi~ 481 (545)
T PRK15053 478 CGVP 481 (545)
T ss_pred CCcC
Confidence 6655
No 62
>COG3920 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.65 E-value=3.5e-06 Score=78.05 Aligned_cols=150 Identities=15% Similarity=0.146 Sum_probs=107.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHH
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVL 423 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li 423 (517)
+..+..-++|.+||-|+.|.+.+.+-.+...++ ..+.+.........|...-+.|.. + ....++...++
T Consensus 19 ~~~ll~Ei~HRVKNnLqiIsSll~lq~r~~~~~-~~~~~~~~~~Ri~sla~~He~L~~-s---------~~~~~~~~~~~ 87 (221)
T COG3920 19 KELLLREIHHRVKNNLQIISSLLRLQARKFEDE-VLEALRESQNRIQSLALIHELLYK-S---------GDDTWDFASYL 87 (221)
T ss_pred HHHHHHHhhhhhhhHHHHHHHHHHHHHhhcCCH-HHHHHHHHHHHHHHHHHHHHHHhc-C---------CcceEcHHHHH
Confidence 566888899999999999999998887765555 556666666666666555554431 1 23468888888
Q ss_pred HHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC----CCCeEEEEEEEcCCC---ccccCC
Q 010147 424 REVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT----KEGYVSIIASVAKPE---SLSDWR 496 (517)
Q Consensus 424 ~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~----~~g~i~i~~~~~~~~---~~~~~~ 496 (517)
+.+...+.+....+.+.+....++++.. -.--..-|--++..|++||+||. +.|.|.|..+..+++ ....|+
T Consensus 88 ~~L~~~l~~~~~~~~~~~~~~~~~~~~l-~~d~A~~Lgliv~EL~tNa~Khaf~~~~~G~I~I~~~~~~~~~~~~l~v~d 166 (221)
T COG3920 88 ELLASNLFPSYGGKDIRLILDSGPNVFL-DPDTAVPLGLIVHELVTNALKHAFLSRPGGEIRITLSREGDGGRFLLTVWD 166 (221)
T ss_pred HHHHHHHHHhcCCCCceEEEecCCceEE-CchhhHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEEEEcCCCCeEEEEEEE
Confidence 8888888876445667777665553211 11235568889999999999995 468999999987776 366999
Q ss_pred CCCCCCCCC
Q 010147 497 PPEFYPVST 505 (517)
Q Consensus 497 ~~~~~~~~~ 505 (517)
++.|+|...
T Consensus 167 eg~G~~~~~ 175 (221)
T COG3920 167 EGGGPPVEA 175 (221)
T ss_pred CCCCCCCCC
Confidence 999988653
No 63
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=98.61 E-value=1e-08 Score=112.30 Aligned_cols=140 Identities=35% Similarity=0.513 Sum_probs=128.5
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHH
Q 010147 347 FRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREV 426 (517)
Q Consensus 347 ~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~ 426 (517)
|.+.++||+|+|+.. |....+.....+.+++.+.......+.....+++++++.++.+.|..++.-.++++..+++.+
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 999999999999998 555555566778889999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcC
Q 010147 427 IKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAK 488 (517)
Q Consensus 427 ~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~ 488 (517)
+..+.+.+..++..+....+.+.|..+.+|+..+.|++.|++.||+|++..|.+...+...+
T Consensus 302 ~~~~~e~~~~~~~~l~~~~~~~~p~~v~~de~~~~qv~~n~v~naik~t~~~~i~~~~~~~~ 363 (786)
T KOG0519|consen 302 ISLLSELSQAKYAILVLDLSSGVPRNVRGDEARLRQVIANLVSNAIKFTHAGHLEESVIARE 363 (786)
T ss_pred hhhhHHHhhcCCeEEEEecCCCCcceeeccceeeeeeehhhccceecccccceEEEEEEeeh
Confidence 99999999999999999888888888999999999999999999999999999888877654
No 64
>cd00082 HisKA Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-autophosphorylation by the catalytic domain of the histidine kinase. They subsequently transfer the phosphoryl group to the Asp acceptor residue of a response regulator protein. Two-component signalling systems, consisting of a histidine protein kinase that senses a signal input and a response regulator that mediates the output, are ancient and evolutionarily conserved signaling mechanisms in prokaryotes and eukaryotes.
Probab=98.44 E-value=1.3e-06 Score=63.50 Aligned_cols=61 Identities=38% Similarity=0.492 Sum_probs=53.8
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~-~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr 404 (517)
++++.+.++||+|||++.+.+.++.+.+.. .+++..+.++.+.++++++..++++++++++
T Consensus 4 ~~~~~~~~~hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 65 (65)
T cd00082 4 KGEFLANVSHELRTPLTAIRGALELLEEELLDDEEQREYLERIREEAERLLRLINDLLDLSR 65 (65)
T ss_pred HHHHHHHHhHHhcchHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 677999999999999999999999988653 3566788999999999999999999998864
No 65
>COG4585 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.22 E-value=0.00027 Score=71.39 Aligned_cols=155 Identities=15% Similarity=0.155 Sum_probs=94.7
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccH
Q 010147 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLE--TDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 419 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~~I~~~~~~l~~--~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l 419 (517)
+.+.++++.+++.+-.-|+++....+.... +..+++.++.++.+.+.++...+-++.+..--| +...+...+
T Consensus 169 ~ER~RIARdLHDsv~q~L~~i~m~~~~~~~~~~~~~e~~~~~l~~i~~~~~e~l~evR~~v~~Lr------p~~l~~~~l 242 (365)
T COG4585 169 EERNRIARDLHDSVGQSLTAISMLLALLLLLADEDAEKAQEELKEIEKLLREALQEVRALVRDLR------PVELEGLGL 242 (365)
T ss_pred HHHHHHHHHHhhHHhhHHHHHHHHHHHHHHHhhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC------CchhhcchH
Confidence 668899999999999999999773332222 234455566666665555444444444332111 222223445
Q ss_pred HHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCC-ccccCCCC
Q 010147 420 QIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPE-SLSDWRPP 498 (517)
Q Consensus 420 ~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~-~~~~~~~~ 498 (517)
.+-++..++.++. ..++.+.....+..+..-..-+..+.++++..++||+||++...+.|.....+++ .+.+.|+|
T Consensus 243 ~~~l~~~~~~~~~---~~~~~~~~~~~~~~~~L~~~~e~~l~rivQEaltN~~rHa~A~~v~V~l~~~~~~l~l~V~DnG 319 (365)
T COG4585 243 VEALRALLADFEE---RTGITVDLSLGSELERLPPEAEDALFRIVQEALTNAIRHAQATEVRVTLERTDDELRLEVIDNG 319 (365)
T ss_pred HHHHHHHHHHHHh---hcCeEEEEecCcccccCChhHHHHHHHHHHHHHHHHHhccCCceEEEEEEEcCCEEEEEEEECC
Confidence 5555555555543 3455555544322111123467889999999999999999988999988887765 24455777
Q ss_pred CCCCCCC
Q 010147 499 EFYPVST 505 (517)
Q Consensus 499 ~~~~~~~ 505 (517)
.|.+...
T Consensus 320 ~Gf~~~~ 326 (365)
T COG4585 320 VGFDPDK 326 (365)
T ss_pred cCCCccc
Confidence 7665443
No 66
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=98.20 E-value=5.9e-05 Score=75.56 Aligned_cols=176 Identities=18% Similarity=0.143 Sum_probs=130.4
Q ss_pred hHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecccccc--ccccccCCchhHHHhhc
Q 010147 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQI--GSSVPINLPIVTDVFNS 220 (517)
Q Consensus 143 ~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~ 220 (517)
.+.+.+++..+....+.+..+..+.+.+...+|++.+++..+++++.......+....... .......++.+..++..
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 4578999999999999999999999999999999999999999887444444433333211 13455678899999999
Q ss_pred cCceeecCCCchhhhhhc---cCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHH
Q 010147 221 AQAMRLPYNCPLARIRLL---VGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELID 297 (517)
Q Consensus 221 ~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~ 297 (517)
+.++.+.+......-... .....++..+.+.+|+ ..|+..+|++.+.+..+..|+..--+.+.
T Consensus 113 ~~p~~~~~~d~~~~~~~~~l~~~~~~~~~~a~i~~PL--------------~~~~~~~G~Ltld~~~~~~f~~~~~~~lr 178 (550)
T COG3604 113 GRPLVFHPADSLFPDPYDGLLPDTEGNKKHACIGVPL--------------KSGDKLIGALTLDHTEPDQFDEDLDEELR 178 (550)
T ss_pred CCcEEEecCCcccCCcccccccCccCCcceeEEeeee--------------eeCCeeeeeEEeeeecccccchhHHHHHH
Confidence 999998221111111111 1112223467778885 44555699999998887789888888999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 298 VVADQVAVALSHAAILEDSMRARNQLMEQNVALDS 332 (517)
Q Consensus 298 ~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~~ 332 (517)
.++..++.+..++.+.++....++.+++++.+++.
T Consensus 179 ~La~~a~la~~~~~l~~~l~~~~~~l~~e~~~~~~ 213 (550)
T COG3604 179 FLAALAALAVANALLHRELSSLKERLEEENLALEE 213 (550)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 99999999999999999999998888777665543
No 67
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=98.20 E-value=1.9e-06 Score=76.00 Aligned_cols=160 Identities=22% Similarity=0.275 Sum_probs=105.2
Q ss_pred hHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCC--e-EEEEEEec--cc-ccccccc-ccCCchhH
Q 010147 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGL--N-LELSYTLN--NQ-IQIGSSV-PINLPIVT 215 (517)
Q Consensus 143 ~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~--~-l~~~~~~~--~~-~~~~~~~-~~~~~~~~ 215 (517)
...++++++.+..+.+.+++++.+++.+.+.++.+++.++..+.+.. . ........ .. ....... +.......
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (175)
T COG2203 3 EALLNELAAKIAQDLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEAAEAGLEQLIDELFGLVILPACLIG 82 (175)
T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHHhcchhhhhHHHHhcccCcchhhhh
Confidence 34578889999999999999999999999999999999999987753 1 10000000 00 0000011 11222345
Q ss_pred HHhhccCceeecCCCchhhhhhccCCCCCC-ceeEEeeeeccccCccccCccccCccccEEEEEEeecCC-CCccccchh
Q 010147 216 DVFNSAQAMRLPYNCPLARIRLLVGRYVPP-DIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-GRKWRDHEL 293 (517)
Q Consensus 216 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~-~~~~~~~e~ 293 (517)
.....+.+..+.+...++...........+ ..+.+++|+...+. .+|+++..... .+.|+++++
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~vPl~~~~~--------------~~G~l~~~~~~~~~~~~~~e~ 148 (175)
T COG2203 83 IALREGRPVVVEDILQDPRFRDNPLVLLEPPIRSYLGVPLIAQGE--------------LLGLLCVHDSEPRRQWSEEEL 148 (175)
T ss_pred hhhcCCceEEeeccccCcccccCHHHHHHHHHHHheeeeeeECCE--------------eeEEeeeeccCCCCCCCHHHH
Confidence 566677777777776665544221121222 35566777644443 35555555554 447999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010147 294 ELIDVVADQVAVALSHAAILEDS 316 (517)
Q Consensus 294 ~ll~~va~qva~al~~a~l~~~~ 316 (517)
.+++.+|.+++.|+++++++++.
T Consensus 149 ~ll~~la~~~a~ai~~~~~~~~~ 171 (175)
T COG2203 149 ELLEELAEQVAIAIERARLYEEL 171 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999988773
No 68
>PRK13558 bacterio-opsin activator; Provisional
Probab=97.95 E-value=0.00053 Score=75.25 Aligned_cols=147 Identities=14% Similarity=0.075 Sum_probs=98.6
Q ss_pred HHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecc-cccccccccc-CCchhHHHhhc--
Q 010147 145 HVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN-QIQIGSSVPI-NLPIVTDVFNS-- 220 (517)
Q Consensus 145 ~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~-- 220 (517)
.++.+++.+....+.+++++.+++.+....+.+.+.++.+++++..+......+. ....+..+.. ..+.....+.+
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 4677888888899999999999999999999999999999988777644433221 1111111111 22233444444
Q ss_pred cCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHH
Q 010147 221 AQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVA 300 (517)
Q Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va 300 (517)
+.+..+.+........ .....+.+++||. .++..+|++.+....++.|+++++++++.+|
T Consensus 369 ~~~~~~~~~~~~~~~~------~~~~~s~~~vPL~--------------~~g~~~GvL~v~~~~~~~f~~~e~~ll~~la 428 (665)
T PRK13558 369 AETEAVESTDVDGVSG------TVDGSAVAAVPLV--------------YRETTYGVLVVYTAEPDEIDDRERVVLEALG 428 (665)
T ss_pred CceEEecCCCcccccc------ccCCceEEEEeEE--------------ECCEEEEEEEEeeCCCCCCCHHHHHHHHHHH
Confidence 4444444332211111 0011277788854 4445589999998889999999999999999
Q ss_pred HHHHHHHHHHH
Q 010147 301 DQVAVALSHAA 311 (517)
Q Consensus 301 ~qva~al~~a~ 311 (517)
.+++.||.+.+
T Consensus 429 ~~ia~aI~~~~ 439 (665)
T PRK13558 429 RAVGAAINALE 439 (665)
T ss_pred HHHHHHHHHHH
Confidence 99999996554
No 69
>COG4564 Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.69 E-value=0.054 Score=51.70 Aligned_cols=156 Identities=12% Similarity=0.082 Sum_probs=108.0
Q ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH
Q 010147 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~ 421 (517)
..+.+++..+++.+.+-|-+..-.++++.++-.++.... -..+.+++++++.-|+++..+|.- -.+--.+...|..
T Consensus 249 dEr~rlaRELHDGIsQ~LVs~k~~lela~~ql~~p~~~a-~~aieKaa~aL~~Ai~EVRRiSH~---LRP~~LDDLGL~a 324 (459)
T COG4564 249 DERARLARELHDGISQNLVSVKCALELAARQLNPPKGGA-HPAIEKAADALNGAIKEVRRISHD---LRPRALDDLGLTA 324 (459)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccCCCCCCCC-chhhhhHHHHHHHHHHHHHHhccc---cChhhhhhhhHHH
Confidence 456788999999999999999999999987644433211 145677788899999988887751 1122234566677
Q ss_pred HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCc-cccCCCCCC
Q 010147 422 VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASVAKPES-LSDWRPPEF 500 (517)
Q Consensus 422 li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~-~~~~~~~~~ 500 (517)
.++..++.++ +..++.++++.+.........-.+.+.+|.+.-++|-=+|++...|+|......+.- ..+.++|+|
T Consensus 325 ALe~L~~~f~---~~tg~~itle~~~~p~~l~~e~~talyRv~QEaltNIErHa~Atrv~ill~~~~d~vql~vrDnG~G 401 (459)
T COG4564 325 ALEALLEDFK---ERTGIEITLEFDTQPGKLKPEVATALYRVVQEALTNIERHAGATRVTILLQQMGDMVQLMVRDNGVG 401 (459)
T ss_pred HHHHHHHHhh---hccCeEEEEEecCCcccCCcHHHHHHHHHHHHHHHHHHhhcCCeEEEEEeccCCcceEEEEecCCCC
Confidence 7777777666 356888887765443223344578899999999999999997777888776554432 224466776
Q ss_pred CCCC
Q 010147 501 YPVS 504 (517)
Q Consensus 501 ~~~~ 504 (517)
+++.
T Consensus 402 F~~~ 405 (459)
T COG4564 402 FSVK 405 (459)
T ss_pred ccch
Confidence 6643
No 70
>COG3275 LytS Putative regulator of cell autolysis [Signal transduction mechanisms]
Probab=97.18 E-value=0.33 Score=49.00 Aligned_cols=270 Identities=15% Similarity=0.083 Sum_probs=139.4
Q ss_pred HHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEeccccccccccccCCchhHHHhhccCceeecCCCchhhhhhccCCC
Q 010147 163 LKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRY 242 (517)
Q Consensus 163 l~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (517)
+..+.+.+.+.++++.+++ +|.+.-.-.+-.+.++..+ +.++..+....+++.++.+..+.... ...+ ..
T Consensus 227 ~~~va~Ii~~~~~~~AVai--Td~e~ilA~vg~g~dhhi~---g~~i~s~~t~~ai~~g~vv~~~~~e~---~~cs--h~ 296 (557)
T COG3275 227 LMKVAEIIYEELGAGAVAI--TDREKLLAFVGIGDDHHIP---GKPIISSLTRKAIKTGEVVYADGNEV---YECS--HP 296 (557)
T ss_pred HHHHHHHHHHHhCCCeEEe--cCHHHHHHhhcccccccCC---CCeeccHHHHHHHhhCCEEEEccchh---hccC--CC
Confidence 3466777788888865554 3322211111111222222 23344455567777777665543333 1111 23
Q ss_pred CCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 243 VPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQ 322 (517)
Q Consensus 243 ~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~ 322 (517)
..+..+.+..|+... +.++|-+...-..++.++.-+.++.+-++.-+..-++.-+
T Consensus 297 ~c~l~s~lViPL~~~--------------g~ViGTiK~y~~~~~lis~~~r~la~Gia~l~SaQie~ge----------- 351 (557)
T COG3275 297 TCKLGSALVIPLRGK--------------GRVIGTIKLYEAKARLISSINRELAEGIAQLLSAQIEAGE----------- 351 (557)
T ss_pred CCCcCCceEeecccC--------------CceeeeEEEEeccHhHhhHHHHHHHHHHHHHHHHHHHHhH-----------
Confidence 344566677775433 4457777766666667887777777766665554442221
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 323 LMEQNVALDSARREAEKAIHARNDFRAV-MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (517)
Q Consensus 323 l~~~~~~l~~~~~~~~~~~~~~~~~~~~-iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~ 401 (517)
.+++.+.+.+++ ...+-+. =.|=+=|-|++|++... .+.+...+++-+|-.
T Consensus 352 ~e~q~~ll~~AE---------ik~LqaQvnPHFLFNaLNTIsa~IR-------------------~npdkAreLil~LS~ 403 (557)
T COG3275 352 AERQRELLKQAE---------IKALQAQVNPHFLFNALNTISAVIR-------------------RNPDKARELILYLST 403 (557)
T ss_pred HHHHHHHHHHHH---------HHHHHhccChHHHHHHHHHHHHHhc-------------------CChHHHHHHHHHHHH
Confidence 111111111111 1112222 25667777777754322 223334444445555
Q ss_pred HhhhcCCCcccccccccHHHHHHHHHHHHhh---hhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC---
Q 010147 402 LSRLEDGSLELDNGPFNLQIVLREVIKLIKP---VASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT--- 475 (517)
Q Consensus 402 ~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~---~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~--- 475 (517)
|-|..-. ....+.+.|.+-++++-.-++- .+ +...++.+++|+.+.. +. =|. .+++=|+.||+||.
T Consensus 404 yfR~NL~--~~~~~~v~L~kEl~~v~AYl~IEkARF-~~rL~v~i~id~~l~~-~~-iP~---filQPLVENAIKHG~~~ 475 (557)
T COG3275 404 YFRYNLE--NNTQEIVTLSKELEHVNAYLSIEKARF-GDRLDVVIDIDEELRQ-VQ-IPS---FILQPLVENAIKHGISQ 475 (557)
T ss_pred HHHHHhc--CCcceEeehHHHHHHHHHHHHHHHHhc-CCceEEEEecCHHHhh-cc-Cch---hhhhHHHHHHHHhcccc
Confidence 5443211 1113467888777777665532 22 3345666666665432 22 122 45667899999995
Q ss_pred --CCCeEEEEEEEcCCCc-cccCCCCCCCCC
Q 010147 476 --KEGYVSIIASVAKPES-LSDWRPPEFYPV 503 (517)
Q Consensus 476 --~~g~i~i~~~~~~~~~-~~~~~~~~~~~~ 503 (517)
+.|.|+|.+...+.+- ..+.+++.+.+.
T Consensus 476 ~~~~g~V~I~V~~~d~~l~i~VeDng~li~p 506 (557)
T COG3275 476 LKDTGRVTISVEKEDADLRIEVEDNGGLIQP 506 (557)
T ss_pred hhcCCceEEEEEEeCCeEEEEEecCCCCcCC
Confidence 3588999988776552 335566666544
No 71
>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=96.83 E-value=0.0008 Score=55.13 Aligned_cols=48 Identities=27% Similarity=0.332 Sum_probs=36.7
Q ss_pred ccHHHHHHHHHHHHHHHhhcCCC-CeEEEEEEEcCCC-ccccCCCCCCCC
Q 010147 455 GDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAKPE-SLSDWRPPEFYP 502 (517)
Q Consensus 455 ~D~~~l~qvl~NLl~NAik~~~~-g~i~i~~~~~~~~-~~~~~~~~~~~~ 502 (517)
||+.++.+++.||+.||++|+++ |.|.|.+...++. .+..++.+.+.|
T Consensus 1 gd~~~l~~il~~ll~Na~~~~~~~~~I~i~~~~~~~~~~i~i~d~G~gi~ 50 (111)
T PF02518_consen 1 GDPDRLRQILSELLDNAIKHSPEGGKIDITIEEDDDHLSIEISDNGVGIP 50 (111)
T ss_dssp ETHHHHHHHHHHHHHHHHHHHHHTSEEEEEEEEETTEEEEEEEESSSSTT
T ss_pred CcHHHHHHHHHHHHHHHHHHhcCCCEEEEEEEEecCeEEEEEEecccccc
Confidence 69999999999999999999975 8888888876533 233445555433
No 72
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=96.81 E-value=0.059 Score=46.02 Aligned_cols=121 Identities=10% Similarity=0.090 Sum_probs=86.5
Q ss_pred HHHHHHHHhhhC-CceeEEEccCCCCCeEEEEEEeccccccccccccCCchhHHHhhccCceeecCCCchhhhhhccCCC
Q 010147 164 KTTLVELGRTLG-LEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRY 242 (517)
Q Consensus 164 ~~~~~~l~~~l~-~~~~~i~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (517)
..+...+.+.++ .+.+.+|+.+ +..+.+-.-. +.+.-..+|...++++...++++...++|....+. ....
T Consensus 38 an~sall~~~l~~~nW~GFYl~~--~~~LvLgPFq--G~~acv~I~~GkGVCg~A~~~~~t~~V~DV~~~~g----hiaC 109 (163)
T COG1956 38 ANASALLKERLPDVNWVGFYLLE--GDELVLGPFQ--GKVACVRIPFGKGVCGTAAATGETVRVDDVHAFPG----HIAC 109 (163)
T ss_pred HHHHHHHHhhccCCceEEEEEec--CCeEEEeccc--CCcceEEeccCcchhHHHHhcCCeEEecccccCCC----cccc
Confidence 344444444444 8899999998 3333322211 22344578899999999999999999998765433 1234
Q ss_pred CCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHHHH
Q 010147 243 VPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVA 306 (517)
Q Consensus 243 ~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~a 306 (517)
.+..++.+++|++..++ .+|++-..+..+..|+++|...|+.++..++-.
T Consensus 110 D~as~SEIVvPi~~~g~--------------~iGvlDiDS~~~~~Fd~~D~~~Le~~~~~l~~~ 159 (163)
T COG1956 110 DAASNSEIVVPIFKDGK--------------LIGVLDIDSPTPGRFDEEDEAGLEKLAALLEKS 159 (163)
T ss_pred ccccCceEEEEEEECCE--------------EEEEEecCCCCcccCCHHHHHHHHHHHHHHHHH
Confidence 45667888999765444 599999999999999999999999988877543
No 73
>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=96.57 E-value=0.42 Score=42.56 Aligned_cols=148 Identities=16% Similarity=0.226 Sum_probs=90.3
Q ss_pred HHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEcc-------CCCCCeEEEEEEeccc-cccccc
Q 010147 135 LILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMP-------SRTGLNLELSYTLNNQ-IQIGSS 206 (517)
Q Consensus 135 ~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~-------~~~~~~l~~~~~~~~~-~~~~~~ 206 (517)
.+.+..+-++.+-+-+..+-+..++++....++.++...++.+...++.. +.+...+.+..+.+.- ...+.+
T Consensus 13 ~Ie~~R~GLe~Ii~as~~L~~~~sl~~fa~gvL~Ql~~Ll~~~~~~l~~~~~~~~~~~~~~~~~~VlaatG~f~~~~~~~ 92 (174)
T PF11849_consen 13 TIERNRQGLEKIIEASASLFQIRSLQEFASGVLTQLSALLGLEDDGLYCSVRSAFPDDSDDNEFRVLAATGRFESLIGQP 92 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhCCCCCeEEEecccccCCCCCCCCEEEEEEeccchhhcCCc
Confidence 34445556777888888899999999999999999999999998887771 1111234444443331 111111
Q ss_pred cc-cCCc----hhHHHhhccCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEee
Q 010147 207 VP-INLP----IVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLP 281 (517)
Q Consensus 207 ~~-~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~ 281 (517)
+. ..++ .+...+.+++...-+ ....+.+| .....-+++++.
T Consensus 93 ~~~~~~~~i~~~~~~a~~~~~~~~~~------------------~~~~ly~~----------------~~~g~~~~iyl~ 138 (174)
T PF11849_consen 93 LDDLLPPEIRAALQQALSSKRSIFEE------------------DHFVLYFP----------------SSSGRESLIYLE 138 (174)
T ss_pred ccccCCHHHHHHHHHHHHcCCeEecC------------------CeEEEEEe----------------cCCCCEEEEEEe
Confidence 11 1111 223333333322211 11111212 111224455565
Q ss_pred cCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 282 TDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMR 318 (517)
Q Consensus 282 ~~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~ 318 (517)
.. +++++.|.++++.++..++++++|..+++++++
T Consensus 139 ~~--~~l~~~d~~LlevF~~Nvs~afdNv~L~~~l~~ 173 (174)
T PF11849_consen 139 GD--RPLSETDRQLLEVFCNNVSIAFDNVSLNEELEE 173 (174)
T ss_pred CC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 55 479999999999999999999999999988653
No 74
>COG2972 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]
Probab=96.44 E-value=0.34 Score=50.49 Aligned_cols=117 Identities=21% Similarity=0.232 Sum_probs=58.7
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHH--
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI-- 421 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~-- 421 (517)
+.-=+..--|.+.|-|.+|.+++..-. +++ ..+....+..+.+ .+++..+ + ..++.+
T Consensus 259 ~~lqsqi~pHfL~NtL~~I~~~~~~~~----~~~-------~~~~v~~l~~llR--~~l~~~~--~------~~~l~~E~ 317 (456)
T COG2972 259 RALQSQINPHFLYNTLETIRMLAEEDD----PEE-------AAKVVKALSKLLR--YSLSNLD--N------IVTLEIEL 317 (456)
T ss_pred HHHHhhcchHHHHhHHHHHHHHHHhcC----HHH-------HHHHHHHHHHHHH--HHhhCCC--C------eeeHHHHH
Confidence 334455678999999999987766421 111 1122222233322 1222211 1 223322
Q ss_pred -HHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcC-----CCCeEEEEEEEc
Q 010147 422 -VLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFT-----KEGYVSIIASVA 487 (517)
Q Consensus 422 -li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~-----~~g~i~i~~~~~ 487 (517)
+++..+..-.... +..+++..++++..... .| ..-+++.|++||++|+ ++|.|.+.....
T Consensus 318 ~~~~kyl~iq~~r~-~~~le~~~~i~~~~~~l--~~---p~l~lqpLvENAi~hgi~~~~~~~~I~i~~~~~ 383 (456)
T COG2972 318 LLIEKYLEIQKLRI-GDRLEVPLPIDEELEPL--ID---PKLVLQPLVENAIEHGIEPKRPGGSIAISAKKQ 383 (456)
T ss_pred HHHHHHHHHHHhcc-CcceEEEeccCcccccc--cC---chHHHhHHHHHHHHHhcccCCCCCEEEEEEEEc
Confidence 2223332222222 23344444444443221 24 4577889999999996 346777777666
No 75
>PF04340 DUF484: Protein of unknown function, DUF484; InterPro: IPR007435 This family consists of several proteins of uncharacterised function.; PDB: 3E98_B.
Probab=96.39 E-value=0.037 Score=51.65 Aligned_cols=162 Identities=12% Similarity=0.111 Sum_probs=86.0
Q ss_pred HHHHHHHHHHHHH----HHHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEe
Q 010147 122 LKNRADELDREMG----LILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTL 197 (517)
Q Consensus 122 ~~~~~~~l~~~~~----~l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~ 197 (517)
+|+++++++.+.+ ..++.+...+.+.++...+-...+++++.+.+...+.+.|+++.+.+++.++........
T Consensus 52 LR~~~~~L~~~l~~Li~~Ar~Ne~~~~~~~~l~l~LL~a~sl~~l~~~L~~~l~~~f~~~~v~L~L~~~~~~~~~~~--- 128 (225)
T PF04340_consen 52 LRERNRQLEEQLEELIENARENEAIFQRLHRLVLALLAARSLQELLQALDDGLREDFDVDAVRLRLFDDDAAPGPSL--- 128 (225)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--SHHHHHHHHHHHHHHTS--SEEEEEEE-SS---SEE----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCeEEEEeeccccccccch---
Confidence 3444444444444 445555567788999999999999999999999999999999999999988654421100
Q ss_pred ccccccccccccCCchhH----HHhhccCceeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCcccc
Q 010147 198 NNQIQIGSSVPINLPIVT----DVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSY 273 (517)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~ 273 (517)
... +........ ..+..+++..-+........-+. ....+..+...+|+. .+.
T Consensus 129 ~~~------~~~~~~~~~~~~~~~l~~~~p~~G~~~~~~~~~lF~--~~~~~v~S~AlipL~---------------~~~ 185 (225)
T PF04340_consen 129 TDH------VWLSRDAFAQVFIDLLGLQQPYCGRLSEEEAALLFG--DEAAQVGSVALIPLG---------------SGR 185 (225)
T ss_dssp -----------E-HHHHHHHHCCCHTT---CCCS--HHHHHHHHH--HCHCC-SEEEEEEEE---------------SSS
T ss_pred hhc------ccccHHHHHHHHHHHhCCCCceeCCCCcchhHHhcC--CCCccccchheeecc---------------CCC
Confidence 000 000000001 11111122211111111110000 122344556666754 223
Q ss_pred EEEEEEeecCCCCcccc-chhHHHHHHHHHHHHHHHH
Q 010147 274 AVMVLMLPTDGGRKWRD-HELELIDVVADQVAVALSH 309 (517)
Q Consensus 274 ~~~v~~~~~~~~~~~~~-~e~~ll~~va~qva~al~~ 309 (517)
.+|++++.+..+..|++ ....+++.+|.-++.++.+
T Consensus 186 ~~G~LalGS~D~~rF~p~mgT~fL~~La~vv~~~L~r 222 (225)
T PF04340_consen 186 PIGLLALGSRDPDRFQPDMGTDFLEQLAEVVSAALER 222 (225)
T ss_dssp EEEEEEEEESSTTCCCSTTTTHHHHHHHHHHHHHGGG
T ss_pred ceEEEEecCCChhhCCCCccHHHHHHHHHHHHHHHhc
Confidence 47888888776556655 5788999999999888753
No 76
>PRK10547 chemotaxis protein CheA; Provisional
Probab=96.28 E-value=0.064 Score=57.98 Aligned_cols=69 Identities=13% Similarity=0.188 Sum_probs=44.5
Q ss_pred ccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHH---HHHHHHHHhhcC------------C-CCeE
Q 010147 417 FNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQT---ILNIVGNAVKFT------------K-EGYV 480 (517)
Q Consensus 417 ~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qv---l~NLl~NAik~~------------~-~g~i 480 (517)
+.+..++...-..++..+...+.++++.+.... +..|+..+.++ +.||+.||++|+ | .|.|
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 335555555555555555444455555554442 56699999998 679999999995 2 3667
Q ss_pred EEEEEEcC
Q 010147 481 SIIASVAK 488 (517)
Q Consensus 481 ~i~~~~~~ 488 (517)
.+.....+
T Consensus 420 ~l~a~~~~ 427 (670)
T PRK10547 420 ILSAEHQG 427 (670)
T ss_pred EEEEEEcC
Confidence 77766543
No 77
>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=95.46 E-value=0.17 Score=38.18 Aligned_cols=73 Identities=16% Similarity=0.257 Sum_probs=60.0
Q ss_pred HHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHH
Q 010147 351 MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLI 430 (517)
Q Consensus 351 iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~ 430 (517)
+.|.+||-|..|.+++.+-.+...+++.++.+..+......|..+-+.|..- .....+|+.+.+++++..+
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 6899999999999999998888888888899999988888888877766532 1234799999999998876
Q ss_pred hh
Q 010147 431 KP 432 (517)
Q Consensus 431 ~~ 432 (517)
..
T Consensus 73 ~~ 74 (76)
T PF07568_consen 73 RQ 74 (76)
T ss_pred HH
Confidence 53
No 78
>PRK14868 DNA topoisomerase VI subunit B; Provisional
Probab=94.94 E-value=0.021 Score=61.13 Aligned_cols=77 Identities=10% Similarity=0.035 Sum_probs=48.6
Q ss_pred CCcEEEEEeCCCCCce-EEccHHHHHHHHHHHHHHHhhcCCCC----eEEEEEEEcCCC-ccccCCCCCCCCCCCCCceE
Q 010147 437 KKLSMTLIMAPELPTY-AVGDEKRLMQTILNIVGNAVKFTKEG----YVSIIASVAKPE-SLSDWRPPEFYPVSTDGHFY 510 (517)
Q Consensus 437 ~~i~i~~~~~~~~~~~-v~~D~~~l~qvl~NLl~NAik~~~~g----~i~i~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 510 (517)
+.+.+..-+....+.. +..|...|.+++.||++||++|++.+ .|.|.+...+.. .+.+.++|+|+|..+-.++|
T Consensus 23 ~~iS~aEfF~kN~~~lgfD~d~r~L~tVLkNLIeNALDAs~~~gilp~I~V~Ie~~g~~v~I~VeDNG~GIp~EdLp~IF 102 (795)
T PRK14868 23 REISIAEFFEKNKHMLGFDSGARGLVTAVKEAVDNALDATEEAGILPDIYVEIEEVGDYYRLVVEDNGPGITKEQIPKVF 102 (795)
T ss_pred cccceeeecccCcceeeccCCHHHHHHHHHHHHHHHHHhCcccCCCceEEEEEEECCCEEEEEEEEcCCCCCHHHHHHHh
Confidence 5566665555554431 22357789999999999999998754 466666543322 24456778877755555555
Q ss_pred EEE
Q 010147 511 LRV 513 (517)
Q Consensus 511 ~~~ 513 (517)
-+|
T Consensus 103 erf 105 (795)
T PRK14868 103 GKL 105 (795)
T ss_pred hhh
Confidence 443
No 79
>COG5385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=93.54 E-value=1.9 Score=37.05 Aligned_cols=122 Identities=15% Similarity=0.129 Sum_probs=73.3
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHH
Q 010147 347 FRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREV 426 (517)
Q Consensus 347 ~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~ 426 (517)
+.+-+.||+=.|.++|.+-+++|.+...+++. ++.|..++..++. .+.|+|+--|..--.-..+|-.+.=+-+
T Consensus 18 LcsRvCHDiISPvgAInnGLeLLdeg~addDA---m~LIrsSArnas~----rLqFaR~AFGAsgSag~~iDtgeaek~A 90 (214)
T COG5385 18 LCSRVCHDIISPVGAINNGLELLDEGGADDDA---MDLIRSSARNASV----RLQFARLAFGASGSAGASIDTGEAEKAA 90 (214)
T ss_pred HHHHHHhhccCcHHHhhchhhhhccCCccHHH---HHHHHHHhhhHHH----HHHHHHHHhcccccccccccchhHHHHH
Confidence 67789999999999999999999887666544 5666666666653 4678887654322222345554432222
Q ss_pred HHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCe-EEEEEE
Q 010147 427 IKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGY-VSIIAS 485 (517)
Q Consensus 427 ~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~-i~i~~~ 485 (517)
...+. ...-+++.+.+... + .+.+. ..+.||+-=|.-+.|.|+ +.+++.
T Consensus 91 ~~~~a----~ekpe~~W~g~r~~---~--~Kn~v-kllLNl~lia~~aiPrGG~~~vtle 140 (214)
T COG5385 91 QDFFA----NEKPELTWNGPRAI---L--PKNRV-KLLLNLFLIAYGAIPRGGSLVVTLE 140 (214)
T ss_pred HHHHh----ccCCcccccCChhh---c--CcchH-HHHHHHHHHHcccCCCCCeeEEEee
Confidence 22222 22244555433322 2 23333 467898888888888654 445444
No 80
>TIGR01052 top6b DNA topoisomerase VI, B subunit. This model describes DNA topoisomerase VI, an archaeal type II DNA topoisomerase (DNA gyrase).
Probab=92.60 E-value=0.076 Score=54.78 Aligned_cols=59 Identities=14% Similarity=0.097 Sum_probs=39.3
Q ss_pred EEccHHHHHHHHHHHHHHHhhcCCC-C---eEEEEEEEcCCC--ccccCCCCCCCCCCCCCceEE
Q 010147 453 AVGDEKRLMQTILNIVGNAVKFTKE-G---YVSIIASVAKPE--SLSDWRPPEFYPVSTDGHFYL 511 (517)
Q Consensus 453 v~~D~~~l~qvl~NLl~NAik~~~~-g---~i~i~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 511 (517)
+.+|...|.+++.||++||++|++. | .|.|.+...+.+ .+.+.++|.++|..+-..+|-
T Consensus 22 f~~~~~~L~~VlkELVeNAIDA~~~~g~~p~I~V~i~~~g~~~~~I~V~DNG~GIp~edl~~iF~ 86 (488)
T TIGR01052 22 YSGKIRSLTTVIHELVTNSLDACEEAGILPDIKVEIEKIGKDHYKVTVEDNGPGIPEEYIPKVFG 86 (488)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCceEEEEEEECCCCCCHHHHHhhhh
Confidence 5568999999999999999999864 4 466666543322 244556777666444334443
No 81
>PRK04184 DNA topoisomerase VI subunit B; Validated
Probab=92.21 E-value=0.055 Score=56.47 Aligned_cols=52 Identities=13% Similarity=0.089 Sum_probs=34.7
Q ss_pred EEccHHHHHHHHHHHHHHHhhcCCCC----eEEEEEEEc--CCCc--cccCCCCCCCCCC
Q 010147 453 AVGDEKRLMQTILNIVGNAVKFTKEG----YVSIIASVA--KPES--LSDWRPPEFYPVS 504 (517)
Q Consensus 453 v~~D~~~l~qvl~NLl~NAik~~~~g----~i~i~~~~~--~~~~--~~~~~~~~~~~~~ 504 (517)
..++...|.|++.||++||+||++.+ .|.|.+... +++. +.+.|+|.|+|..
T Consensus 30 f~~p~~~L~qVLkNLIeNAIDa~~~~gilp~I~I~I~~~~~~~~~~~I~V~DNG~GIp~e 89 (535)
T PRK04184 30 FDNPARALYTTVKELVDNSLDACEEAGILPDIKIEIKRVDEGKDHYRVTVEDNGPGIPPE 89 (535)
T ss_pred ecCCHHHHHHHHHHHHHHHHHHhhhcCCCceEEEEEEEccCCCcEEEEEEEcCCCCCCHH
Confidence 44467889999999999999998753 466666543 2221 3345667665543
No 82
>COG0643 CheA Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]
Probab=92.18 E-value=4.1 Score=44.67 Aligned_cols=94 Identities=18% Similarity=0.232 Sum_probs=51.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhh--cCCcEEEEEeCCCCCceEEccHHHHH
Q 010147 384 TVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVAS--CKKLSMTLIMAPELPTYAVGDEKRLM 461 (517)
Q Consensus 384 ~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~--~~~i~i~~~~~~~~~~~v~~D~~~l~ 461 (517)
.......++..++.+|.+--. . .. -+.+..++...-+..+..+. .|++++.++ ... ...|+.-+.
T Consensus 365 el~~~~~~l~~~~~~LQd~vm-~-----~R--MvP~~~vf~RfpR~VRdla~~lgK~V~L~ie--G~~---telDksIlE 431 (716)
T COG0643 365 ELDEALRQLSRLTTDLQDEVM-K-----IR--MVPFEQVFSRFPRMVRDLARKLGKQVELVIE--GED---TELDKSILE 431 (716)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-H-----Hh--ceeHHHHHhhccHHHHHHHHHhCCeeEEEEe--cCC---eeehHHHHH
Confidence 344445555555555544321 1 11 22333444333333333333 356666664 332 334888888
Q ss_pred HH---HHHHHHHHhhcC-------------CCCeEEEEEEEcCCC
Q 010147 462 QT---ILNIVGNAVKFT-------------KEGYVSIIASVAKPE 490 (517)
Q Consensus 462 qv---l~NLl~NAik~~-------------~~g~i~i~~~~~~~~ 490 (517)
++ |.+|+.||++|. +.|.|+++....++.
T Consensus 432 ~l~dPL~HLvRNAvDHGIE~pE~R~a~GKp~~G~I~L~A~~~gn~ 476 (716)
T COG0643 432 RLGDPLTHLVRNAVDHGIETPEERRAAGKPEEGTITLSAYHEGNN 476 (716)
T ss_pred HhcccHHHHHhcchhccCCCHHHHHHcCCCCcceEEEEEEcCCCe
Confidence 77 789999999994 347888877765544
No 83
>PRK10963 hypothetical protein; Provisional
Probab=92.08 E-value=10 Score=35.26 Aligned_cols=64 Identities=19% Similarity=0.234 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHH----HHhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCC
Q 010147 122 LKNRADELDREMGL----ILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSR 186 (517)
Q Consensus 122 ~~~~~~~l~~~~~~----l~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~ 186 (517)
+|++..+++.+..+ .++.+...+.+..+..++....+.+++..++. .+.+.|+++.+.+++.++
T Consensus 49 LR~r~~~Le~~l~~Li~~A~~Ne~l~~~~~~l~l~Ll~a~~~~~l~~~L~-~~~~~f~~~~v~l~L~~~ 116 (223)
T PRK10963 49 QRNHIHVLEEEMTLLMEQAIANEDLFYRLLPLQSRLAAADSLQDMLMRLH-RWARDLGLAGAKIRLFPD 116 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHH-HHHHHcCCCceEEEEecc
Confidence 34444444444443 34445556678888999999999999999996 679999999999998764
No 84
>smart00387 HATPase_c Histidine kinase-like ATPases. Histidine kinase-, DNA gyrase B-, phytochrome-like ATPases.
Probab=91.05 E-value=0.51 Score=37.41 Aligned_cols=34 Identities=35% Similarity=0.597 Sum_probs=28.4
Q ss_pred ccHHHHHHHHHHHHHHHhhcCCC-CeEEEEEEEcC
Q 010147 455 GDEKRLMQTILNIVGNAVKFTKE-GYVSIIASVAK 488 (517)
Q Consensus 455 ~D~~~l~qvl~NLl~NAik~~~~-g~i~i~~~~~~ 488 (517)
+|+..+.+++.|++.||++|... +.+.|.+...+
T Consensus 1 ~~~~~l~~~~~~l~~n~~~~~~~~~~v~i~~~~~~ 35 (111)
T smart00387 1 GDPDRLRQVLSNLLDNAIKYTPEGGRITVTLERDG 35 (111)
T ss_pred CCHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEEcC
Confidence 47889999999999999999875 77777776554
No 85
>PF10090 DUF2328: Uncharacterized protein conserved in bacteria (DUF2328); InterPro: IPR018762 Members of this family of hypothetical bacterial proteins have no known function.
Probab=90.91 E-value=5.8 Score=35.52 Aligned_cols=113 Identities=13% Similarity=0.093 Sum_probs=69.6
Q ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhhhhhcCCc
Q 010147 360 HAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKPVASCKKL 439 (517)
Q Consensus 360 ~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~~~~~~~i 439 (517)
.+|.+.+++|.+...+++. +.++-|.+++..+...++ |.|+--|...- -+.+|..++-+-+-..+ ....+
T Consensus 2 GAI~NGLELL~~~~~~~~~-~~~~LI~~Sa~~A~aRl~----F~RlAFGaag~-~~~i~~~e~~~~~~~~~----~~~r~ 71 (182)
T PF10090_consen 2 GAINNGLELLDDEGDPEMR-PAMELIRESARNASARLR----FFRLAFGAAGS-GQQIDLGEARSVLRGYF----AGGRI 71 (182)
T ss_pred cchhhhHHHHcCCCCccch-HHHHHHHHHHHHHHHHHH----HHHHHcCCCCC-CCCCCHHHHHHHHHHHH----hCCce
Confidence 4678889998876553333 378888888888877653 44554343222 34677776533333333 24456
Q ss_pred EEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCC-CCeEEEEEEEcC
Q 010147 440 SMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTK-EGYVSIIASVAK 488 (517)
Q Consensus 440 ~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~-~g~i~i~~~~~~ 488 (517)
++....+.+. + ++ ..-+++.|++-=|..+.| .|.|+|.+....
T Consensus 72 ~l~W~~~~~~---~--~k-~~vklllnl~l~a~~alprGG~i~V~~~~~~ 115 (182)
T PF10090_consen 72 TLDWQVERDL---L--PK-PEVKLLLNLLLCAEDALPRGGEITVSIEGSE 115 (182)
T ss_pred EEEccCcccc---C--CH-HHHHHHHHHHHHHHhhcCCCCEEEEEEeccC
Confidence 6666554442 1 22 334899999999999998 567777654433
No 86
>PRK14867 DNA topoisomerase VI subunit B; Provisional
Probab=89.96 E-value=0.24 Score=52.99 Aligned_cols=56 Identities=9% Similarity=0.043 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCC-C---eEEEEEEEcCCCc--cccCCCCCCCCCCCCCceEEE
Q 010147 457 EKRLMQTILNIVGNAVKFTKE-G---YVSIIASVAKPES--LSDWRPPEFYPVSTDGHFYLR 512 (517)
Q Consensus 457 ~~~l~qvl~NLl~NAik~~~~-g---~i~i~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 512 (517)
...|.+++.||++||++|.+. | .|.|.+...+.+. +.+.++|.|+|...-..+|-+
T Consensus 34 ~r~L~~VVkELVeNAIDA~~~~g~~p~I~V~I~~~g~~~~~I~V~DNG~GIp~e~l~~iFer 95 (659)
T PRK14867 34 LRSMTTIIHELVTNSLDACEEAEILPDIKVEIEKLGSDHYKVAVEDNGPGIPPEFVPKVFGK 95 (659)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCCceEEEEEEECCCcEEEEEEEeeCeeCCHHHHhhhhcc
Confidence 334559999999999999864 3 5777665543332 445577777765554445444
No 87
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=88.96 E-value=2.7 Score=30.20 Aligned_cols=46 Identities=20% Similarity=0.197 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 010147 346 DFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTL 395 (517)
Q Consensus 346 ~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~l 395 (517)
+....--||+.|=|..|.|++++ ...++..+|++.+.+..+..+.+
T Consensus 14 ~~lR~~RHD~~NhLqvI~gllql----g~~~~a~eYi~~~~~~~~~~s~l 59 (62)
T PF14689_consen 14 DSLRAQRHDFLNHLQVIYGLLQL----GKYEEAKEYIKELSKDLQQESEL 59 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHT----T-HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHHHHHHHHHHHHHC----CCHHHHHHHHHHHHHHHHHHHHH
Confidence 34466799999999999999985 34566778888888777776554
No 88
>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=87.82 E-value=0.94 Score=38.35 Aligned_cols=34 Identities=24% Similarity=0.278 Sum_probs=25.8
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEEcCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKP 489 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~~~~ 489 (517)
|...+..++.|+++||++|+- +|.+.+.+...++
T Consensus 36 ~~~~l~~~l~eli~Nai~h~~~~~~~~~I~v~~~~~~~ 73 (137)
T TIGR01925 36 ELTDIKTAVSEAVTNAIIHGYEENCEGVVYISATIEDH 73 (137)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCcEEEEEEEEeCC
Confidence 667899999999999999851 4567777665443
No 89
>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=85.44 E-value=0.43 Score=46.96 Aligned_cols=45 Identities=7% Similarity=-0.038 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCccccCCCCCCCCC
Q 010147 458 KRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPV 503 (517)
Q Consensus 458 ~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~ 503 (517)
..+.+++.||+.||+++.. ..|.|.+...+...+.+.|+|.|.+.
T Consensus 21 ~~~~~~l~eLi~Na~dA~a-~~I~i~~~~~~~~~i~V~DnG~Gi~~ 65 (312)
T TIGR00585 21 ERPASVVKELVENSLDAGA-TRIDVEIEEGGLKLIEVSDNGSGIDK 65 (312)
T ss_pred hhHHHHHHHHHHHHHHCCC-CEEEEEEEeCCEEEEEEEecCCCCCH
Confidence 4577999999999999864 56766665432222455677766654
No 90
>KOG0787 consensus Dehydrogenase kinase [Signal transduction mechanisms]
Probab=85.43 E-value=38 Score=33.61 Aligned_cols=126 Identities=10% Similarity=0.076 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcc----cccccccHHHHHHHHHHHHhhhhhcC---CcEEEEEeCCCC
Q 010147 377 EQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLE----LDNGPFNLQIVLREVIKLIKPVASCK---KLSMTLIMAPEL 449 (517)
Q Consensus 377 ~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~----l~~~~~~l~~li~~~~~~~~~~~~~~---~i~i~~~~~~~~ 449 (517)
..+..++....+==.+..|+++=+.+-.-..+..+ .-...+++.++|+++.+..+..+... .-+++++...+.
T Consensus 172 ~iqyFLdr~y~sRIsiRMLv~qh~~l~~~~kp~~~~~iG~I~~~c~v~~vi~~a~e~ar~lCd~yy~~sPel~i~~~~a~ 251 (414)
T KOG0787|consen 172 NIQYFLDRFYMSRISIRMLVNQHLLLFASGKPDHPRHIGIIDPRCSVKKVIKDASENARFLCDQYYLNSPELIIEGHNAL 251 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhheecCCCCCCcceeeeeCCCCCHHHHHHHHHHHHHHHHHHhccCCCeeEecCcccc
Confidence 34567777666555566667654433221111111 12345899999999999887655422 223444433443
Q ss_pred CceEEccHHHHHHHHHHHHHHHhhcC-----CCCe----EEEEEEEcCCCc-cccCCCCCCCCC
Q 010147 450 PTYAVGDEKRLMQTILNIVGNAVKFT-----KEGY----VSIIASVAKPES-LSDWRPPEFYPV 503 (517)
Q Consensus 450 ~~~v~~D~~~l~qvl~NLl~NAik~~-----~~g~----i~i~~~~~~~~~-~~~~~~~~~~~~ 503 (517)
...|. -|..|..++..|+.||.++| ..|. |.|.+...+++- ++.-|.|.|+|.
T Consensus 252 ~~~vy-vPshL~ymlfElfKNamrATve~h~~~~~~~ppI~V~V~~gdeDl~ikISDrGGGV~~ 314 (414)
T KOG0787|consen 252 SFTVY-VPSHLYYMLFELFKNAMRATVEHHGDDGDELPPIKVTVAKGDEDLLIKISDRGGGVPH 314 (414)
T ss_pred cCccc-cchHHHHHHHHHHHHHHHHHHHHhccCCCCCCCeEEEEecCCcceEEEEecCCCCcCh
Confidence 33222 58899999999999999985 2343 666665544332 334455555543
No 91
>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=81.82 E-value=11 Score=28.78 Aligned_cols=69 Identities=16% Similarity=0.168 Sum_probs=42.7
Q ss_pred HHHHHHhHHHHHHHHHHHHhcCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHH
Q 010147 351 MNHEMRTLMHAIIALSSLLLETDLTP-EQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKL 429 (517)
Q Consensus 351 iaHelrnPL~~I~~~~~~l~~~~~~~-~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~ 429 (517)
+.|.+||-|+.|.+.+....+...+. +..+.+..=..+..+..++ + + .-..+.++|.++++..+.-
T Consensus 2 L~HRvKN~lavv~ai~~~t~r~~~s~~~~~~~~~~Rl~ALa~a~~l----l--~-------~~~~~~~~L~~lv~~~l~p 68 (83)
T PF07536_consen 2 LNHRVKNLLAVVQAIARQTARSAASVEEFAEAFSGRLQALARAHDL----L--S-------RSDWEGVSLRDLVEAELAP 68 (83)
T ss_pred chhHHHHHHHHHHHHHHHHcccCCCHHHHHHHHHHHHHHHHHHHHH----H--h-------cCCCCCccHHHHHHHHHHh
Confidence 68999999999999999887654333 3322222222222222222 2 1 1223479999999999987
Q ss_pred Hhh
Q 010147 430 IKP 432 (517)
Q Consensus 430 ~~~ 432 (517)
+..
T Consensus 69 ~~~ 71 (83)
T PF07536_consen 69 YGS 71 (83)
T ss_pred ccC
Confidence 764
No 92
>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=81.32 E-value=2.3 Score=32.86 Aligned_cols=29 Identities=34% Similarity=0.499 Sum_probs=22.4
Q ss_pred HHHHHHHHHHHHhhcCC--CCeEEEEEEEcC
Q 010147 460 LMQTILNIVGNAVKFTK--EGYVSIIASVAK 488 (517)
Q Consensus 460 l~qvl~NLl~NAik~~~--~g~i~i~~~~~~ 488 (517)
+.+++.+++.||++|.. .+.+.+.+...+
T Consensus 1 l~~~~~~ll~Na~~~~~~~~~~v~i~~~~~~ 31 (103)
T cd00075 1 LQQVLLNLLSNAIKHTPEGGGRITISVERDG 31 (103)
T ss_pred CHHHHHHHHHHHHHhCcCCCCeEEEEEEecC
Confidence 46889999999999987 466777666543
No 93
>COG3159 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.45 E-value=45 Score=30.27 Aligned_cols=64 Identities=19% Similarity=0.277 Sum_probs=47.0
Q ss_pred HHHHHHHHHHHHHH----HhHHHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCC
Q 010147 123 KNRADELDREMGLI----LTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSR 186 (517)
Q Consensus 123 ~~~~~~l~~~~~~l----~~~~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~ 186 (517)
+++..+++.+...+ +..+..-..+..+...+....+.++++.++-+..++-||...+.+.+..+
T Consensus 51 R~~~~~Le~~l~~L~~~A~~N~~lf~r~~~lq~~Ll~a~sl~d~l~~v~~~~a~~f~l~~a~l~L~~~ 118 (218)
T COG3159 51 RNRIRELEEELAALMENARANERLFYRLHALQLDLLDARSLDDLLRRVDRSWARDFGLAAASLRLFQD 118 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhCCCceEEEEech
Confidence 33444444444443 33333445578889999999999999999999999999999888887654
No 94
>PRK03660 anti-sigma F factor; Provisional
Probab=80.39 E-value=2.7 Score=35.94 Aligned_cols=33 Identities=18% Similarity=0.257 Sum_probs=25.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEEcC
Q 010147 456 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAK 488 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~~~ 488 (517)
|...+.+++.|++.||++|+. +|.+.+.....+
T Consensus 36 ~~~~l~~~l~eli~Nai~h~~~~~~~~~i~i~~~~~~ 72 (146)
T PRK03660 36 ELTEIKTAVSEAVTNAIIHGYENNPDGVVYIEVEIEE 72 (146)
T ss_pred HHHhHHHHHHHHHHHHHHHhcCCCCCCEEEEEEEECC
Confidence 667899999999999999852 256777665443
No 95
>KOG3689 consensus Cyclic nucleotide phosphodiesterase [Signal transduction mechanisms]
Probab=78.86 E-value=20 Score=38.94 Aligned_cols=157 Identities=9% Similarity=0.102 Sum_probs=99.1
Q ss_pred cccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEE-EEecc------ccc----cccccccCCchhHHHhhccCc
Q 010147 155 STLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELS-YTLNN------QIQ----IGSSVPINLPIVTDVFNSAQA 223 (517)
Q Consensus 155 ~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~-~~~~~------~~~----~~~~~~~~~~~~~~~~~~~~~ 223 (517)
...+....+..++-.+.......+|.+.+++.+....... ..... ..+ ......++....+.+..++..
T Consensus 179 ~~~~~~~~~~~~~~~~~~~~~~~~~si~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~l~g~va~t~~~ 258 (707)
T KOG3689|consen 179 EQTDRESIFPKILYTARSLLQCTRCSIQLLDMSTLEEFSWVLDVLETEQTKPSTSDMAEIEFKKLLDYGLRGYVASTGEG 258 (707)
T ss_pred HhcchhcccchhhhhhhhhhhhcccceeeeccccchhhhhhhHHHhhhhcCCCCchhhhHHHHhhhhhhhhheeecccCc
Confidence 3556677777777777788889999999988765432111 00000 000 011112233344556667777
Q ss_pred eeecCCCchhhhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHH
Q 010147 224 MRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQV 303 (517)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qv 303 (517)
..+++...+..+.........+....+++|+.... +..++....+++..+..|+..+..+.+..+-.+
T Consensus 259 ~ni~~~~~~~~f~~q~d~~~~~~~~il~~pi~~~~------------~~~igv~~~~nk~~g~~f~~~de~~~~~~~~~~ 326 (707)
T KOG3689|consen 259 LNISNAIADPRFDKQVDEDGTGIRPILCIPIKNKK------------GEVIGVQQLVNKEDGNPFSRNDEDLFEAFTIFC 326 (707)
T ss_pred CCCCCccccccccccccccccccceeEEEeccccc------------CceecceeeeccccCCccccchHHHHHHHHHHH
Confidence 77777777776665433223333446777764431 233444555666677789999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010147 304 AVALSHAAILEDSMRARNQL 323 (517)
Q Consensus 304 a~al~~a~l~~~~~~~~~~l 323 (517)
+..+.++..|......+.+.
T Consensus 327 gl~i~~~~~y~~~~~s~~r~ 346 (707)
T KOG3689|consen 327 GLSIHNTHMYSKINKSEPRQ 346 (707)
T ss_pred hhhhhhhhhHHHHhhhcccc
Confidence 99999999998877665433
No 96
>PF14501 HATPase_c_5: GHKL domain
Probab=78.33 E-value=4.6 Score=32.03 Aligned_cols=33 Identities=24% Similarity=0.380 Sum_probs=23.8
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEEcC
Q 010147 456 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAK 488 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~~~ 488 (517)
|+..|-.+|.||++||+++.. +..|.+.+...+
T Consensus 2 ~~~dl~~il~nlldNAiea~~~~~~~~~I~i~~~~~~ 38 (100)
T PF14501_consen 2 DDLDLCRILGNLLDNAIEACKKYEDKRFISISIREEN 38 (100)
T ss_pred CHHHHHHHHHHHHHHHHHHHHhcCCCcEEEEEEEecC
Confidence 566788999999999999853 345555555444
No 97
>COG3462 Predicted membrane protein [Function unknown]
Probab=77.99 E-value=21 Score=28.45 Aligned_cols=45 Identities=11% Similarity=-0.087 Sum_probs=28.6
Q ss_pred hhcccchh----hHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCcH
Q 010147 74 WTFTVHSK----AVAVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTR 118 (517)
Q Consensus 74 ~~~~~~~~----~~~~~~~~~~~~ta~vs~~~a~~l~~l~p~~l~l~s~ 118 (517)
+++|+-.| +.+..+.++..+.+++|++..+.+...+-...+-++.
T Consensus 32 g~~y~~gy~gm~GG~yGm~lImpI~~~vvli~lvvfm~~~~g~~r~~~~ 80 (117)
T COG3462 32 GAFYPGGYRGMMGGLYGMWLIMPIFWAVVLIFLVVFMFYILGAVRRGSD 80 (117)
T ss_pred CcccCCCccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccch
Confidence 45554444 3334455677778888888887777777666665553
No 98
>COG2172 RsbW Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]
Probab=76.71 E-value=4.1 Score=35.06 Aligned_cols=44 Identities=23% Similarity=0.305 Sum_probs=33.6
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC-----CeEEEEEEEcCCC-ccccCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTKE-----GYVSIIASVAKPE-SLSDWRPPE 499 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~-----g~i~i~~~~~~~~-~~~~~~~~~ 499 (517)
+-.+++-++..++.||++|+-+ |.|.|.++..++. .+..||.|+
T Consensus 37 ~~~~l~~av~E~~~N~v~Ha~~~~~~~g~I~i~~~~~~~~~~i~i~D~G~ 86 (146)
T COG2172 37 DIADLAIAVSEALTNAVKHAYKLDPSEGEIRIEVSLDDGKLEIRIWDQGP 86 (146)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCCCCceEEEEEEEcCCeEEEEEEeCCC
Confidence 6788999999999999999633 8888888876654 244666663
No 99
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=75.88 E-value=78 Score=30.53 Aligned_cols=88 Identities=15% Similarity=0.135 Sum_probs=49.9
Q ss_pred HHHHHHHhHHHHHHHHHHhcCCCchHHHHHHH---HHHHHHhhh--------HHHHHHhhcccch-hhHHHHHHHHHHHH
Q 010147 27 LIALAYFSIPVELIYFVQKSAFFPYRWVLMQF---GSFIILCGL--------THFISLWTFTVHS-KAVAVVMTIAKMAC 94 (517)
Q Consensus 27 ~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~---~~fi~~cg~--------~h~~~~~~~~~~~-~~~~~~~~~~~~~t 94 (517)
++++..|++-.+++.++...+- ++..++.++ .+++...|- +-++.++++-.|. .+.+|..+..-++.
T Consensus 3 ~~~~~~~~~~s~~~~l~~~~~~-l~~~~~~~~~F~~~ml~~~G~r~~~i~~~~Ll~~v~t~~~~~~~~~~~~~~~l~~~G 81 (284)
T PF12805_consen 3 IATLLCFALASLLVGLLFPYPW-LLILVLALLTFFFGMLGVYGPRAATIGFATLLVAVYTMAGPSPGPEALEHALLFLAG 81 (284)
T ss_pred HHHHHHHHHHHHHHHHHhhccH-HHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHH
Confidence 4566667666677776665542 222222111 112222221 1223344543333 44677888888889
Q ss_pred HHHHHHHHHHHHHhhhhcccc
Q 010147 95 AFVSCITALMLVHIIPDLLSV 115 (517)
Q Consensus 95 a~vs~~~a~~l~~l~p~~l~l 115 (517)
+++.....+..|++-|..-.-
T Consensus 82 glwy~~lsl~~~~l~p~r~~r 102 (284)
T PF12805_consen 82 GLWYLLLSLLWWPLRPYRPVR 102 (284)
T ss_pred HHHHHHHHHHHHHHcCCCHHH
Confidence 999999999999998874443
No 100
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=75.05 E-value=1.2e+02 Score=32.45 Aligned_cols=42 Identities=17% Similarity=0.040 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccC
Q 010147 144 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPS 185 (517)
Q Consensus 144 ~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~ 185 (517)
+....+.+.++...|..+.|-.--..+....+++.+++|+-+
T Consensus 328 ~~~arl~~~ma~~~~~~d~L~~~~~dll~L~~adGaal~fg~ 369 (750)
T COG4251 328 EHHARLLRYMAHAADFVDGLIDHQDDLLDLMPADGAALCFGG 369 (750)
T ss_pred HHHHHHHHHHhhhcchhhhhcCCchhhHhhccCCceEEEECC
Confidence 334455566666777777666667778888999999988744
No 101
>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=74.52 E-value=62 Score=28.73 Aligned_cols=36 Identities=19% Similarity=0.278 Sum_probs=22.8
Q ss_pred EEEEEeecCCCCccccchhHHHHHHHHHHHHHHHHHH
Q 010147 275 VMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAA 311 (517)
Q Consensus 275 ~~v~~~~~~~~~~~~~~e~~ll~~va~qva~al~~a~ 311 (517)
+|-+.+.+. ...|+++|+-+.+..|.-+++-|-++.
T Consensus 122 LGTLvl~r~-~~~F~ddDLILaEY~ATVVGmEiLr~~ 157 (177)
T PF06018_consen 122 LGTLVLARF-DKEFTDDDLILAEYGATVVGMEILRSK 157 (177)
T ss_dssp EEEEEEEES-S----HHHHHHHHHHHHHHHHHHHHHH
T ss_pred EEEEEEEEc-CCCCChhhhHHHHHHHHHHHHHHHHHH
Confidence 444444443 237999999999999999988885544
No 102
>COG4587 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=73.90 E-value=21 Score=33.23 Aligned_cols=51 Identities=12% Similarity=0.105 Sum_probs=35.0
Q ss_pred HHHHHHhhhHHHHHHH---HhHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHhhhH
Q 010147 17 LVRYQYISDILIALAY---FSIPVELIYFVQKS--AFFPYRWVLMQFGSFIILCGLT 68 (517)
Q Consensus 17 ~~~~~~~~~~~ia~ay---~~i~~~l~~f~~~~--~~~~~~~~~~~~~~fi~~cg~~ 68 (517)
.+|.|..+|.....+- |.+|+.++++.... -..+-.|.++ +.+..++||.+
T Consensus 103 ~l~~~~a~~~~~~~~~~lp~~~vL~lifa~l~~~~~~~l~~~~l~-~~~l~la~~~~ 158 (268)
T COG4587 103 YLFHELAAHLGERASRGLPFLLVLLLIFALLYGAILQFLSPWTLY-LFVLALALLFL 158 (268)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhHHhhcCCHHHHH-HHHHHHHHHHH
Confidence 5799999999999988 88999999997654 2223344444 23344556544
No 103
>COG5381 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=72.41 E-value=6.6 Score=33.04 Aligned_cols=30 Identities=30% Similarity=0.313 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhhcCCCCeEEEEEEEcC
Q 010147 459 RLMQTILNIVGNAVKFTKEGYVSIIASVAK 488 (517)
Q Consensus 459 ~l~qvl~NLl~NAik~~~~g~i~i~~~~~~ 488 (517)
.+..+...|+.||+||...|.|+|..+..+
T Consensus 63 svgYl~NELiENAVKfra~geIvieasl~s 92 (184)
T COG5381 63 SVGYLANELIENAVKFRATGEIVIEASLYS 92 (184)
T ss_pred hHHHHHHHHHHhhhcccCCCcEEEEEEecc
Confidence 345677889999999998899999887654
No 104
>PRK04069 serine-protein kinase RsbW; Provisional
Probab=70.95 E-value=7.5 Score=34.00 Aligned_cols=45 Identities=13% Similarity=0.035 Sum_probs=29.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEEcCCCc-cccCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKPES-LSDWRPPEF 500 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~~~~~~-~~~~~~~~~ 500 (517)
+...+..++.+++.||++|+. +|.+.|.+...++.- +...+.|.+
T Consensus 39 ~~~~l~lav~Ea~~Nai~Hg~~~~~~~~I~I~~~~~~~~l~i~V~D~G~g 88 (161)
T PRK04069 39 DIEDMKIAVSEACTNAVQHAYKEDEVGEIHIRFEIYEDRLEIVVADNGVS 88 (161)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEECCEEEEEEEECCcC
Confidence 556788899999999999974 356777766544321 223444443
No 105
>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=70.60 E-value=36 Score=24.36 Aligned_cols=56 Identities=14% Similarity=0.081 Sum_probs=37.6
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDV 399 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~--~~~~~~~~~l~~i~~~~~rl~~li~~l 399 (517)
+.+++..+++++-.-|+++...++.+... ..+++..+.++.+.+.+.....-+.++
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 45788889999999999999999999853 233455555665555554444433333
No 106
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=69.95 E-value=51 Score=26.92 Aligned_cols=11 Identities=27% Similarity=0.404 Sum_probs=6.0
Q ss_pred HHHHHHhcCCC
Q 010147 39 LIYFVQKSAFF 49 (517)
Q Consensus 39 l~~f~~~~~~~ 49 (517)
+++.++|++.-
T Consensus 19 ii~~vr~~~l~ 29 (115)
T PF10066_consen 19 IIRLVRKRKLR 29 (115)
T ss_pred HHHHHHHhhcc
Confidence 44556666543
No 107
>PRK10263 DNA translocase FtsK; Provisional
Probab=69.06 E-value=40 Score=39.40 Aligned_cols=15 Identities=20% Similarity=0.645 Sum_probs=10.3
Q ss_pred HHHHHHHHhHHHHHH
Q 010147 26 ILIALAYFSIPVELI 40 (517)
Q Consensus 26 ~~ia~ay~~i~~~l~ 40 (517)
.+.+++.|.+|+.++
T Consensus 77 ~LFGl~AYLLP~LL~ 91 (1355)
T PRK10263 77 FIFGVMAYTIPVIIV 91 (1355)
T ss_pred HHHhHHHHHHHHHHH
Confidence 356778888887664
No 108
>PF13581 HATPase_c_2: Histidine kinase-like ATPase domain
Probab=68.85 E-value=8.2 Score=31.82 Aligned_cols=45 Identities=20% Similarity=0.108 Sum_probs=29.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC----CeEEEEEEEcCCCc-cccCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTKE----GYVSIIASVAKPES-LSDWRPPEF 500 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~----g~i~i~~~~~~~~~-~~~~~~~~~ 500 (517)
+...+.-++..++.||++|+.. +.+.+.+....+.- +...+.|.+
T Consensus 28 ~~~~~~lav~E~~~Nav~H~~~~~~~~~v~v~~~~~~~~l~i~v~D~G~~ 77 (125)
T PF13581_consen 28 DRDDLELAVSEALTNAVEHGYPGDPDGPVDVRLEVDPDRLRISVRDNGPG 77 (125)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCCCcEEEEEEEEcCCEEEEEEEECCCC
Confidence 4567889999999999999753 56666665554432 223344443
No 109
>TIGR01666 YCCS hypothetical membrane protein, TIGR01666. This model represents a clade of sequences from gamma and beta proteobacteria. These proteins are 700 amino acids long and many have been annotated as putative membrane proteins. The gene from Salmonella has been annotated as a putative efflux transporter. The gene from E. coli has the name yccS.
Probab=68.76 E-value=1.6e+02 Score=32.61 Aligned_cols=89 Identities=15% Similarity=0.233 Sum_probs=49.2
Q ss_pred HHHHhhhHHHHHHHHhHHHHHHHHHHhcCCCchHHHHHH-----HHHHHHHh----------hhHHHHHHhhc-ccchhh
Q 010147 19 RYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQ-----FGSFIILC----------GLTHFISLWTF-TVHSKA 82 (517)
Q Consensus 19 ~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~-----~~~fi~~c----------g~~h~~~~~~~-~~~~~~ 82 (517)
+-|.+-.+++++.+|+|....+.++.-.+ |.|.+ --+|+++. +.+-+++++|. .+..++
T Consensus 53 ~~~R~~~l~~t~~~f~i~sl~v~ll~~~p-----~lf~~~l~~~tf~~~mlga~G~Rya~Iaf~tLliaiytmlg~~~~~ 127 (704)
T TIGR01666 53 LTGRLKNVIFTLICFSIASFSVELLFGKP-----WLFAVGLTVSTFGFIMLGAVGQRYATIAFGSLLVALYTMLGYIEVN 127 (704)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCc-----HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhcccccc
Confidence 34667778889999999888887754333 33321 11122211 12222344443 222223
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 010147 83 VAVVMTIAKMACAFVSCITALMLVHIIPDL 112 (517)
Q Consensus 83 ~~~~~~~~~~~ta~vs~~~a~~l~~l~p~~ 112 (517)
.+|...+.-.+.|+.-....+..+.+.|..
T Consensus 128 ~w~~~pllll~GalwY~llsl~~~~l~p~r 157 (704)
T TIGR01666 128 VWFIQPVMLLCGTLWYSVVTLIVHLFFPNR 157 (704)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 344455666667777777777777777763
No 110
>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=68.62 E-value=87 Score=27.95 Aligned_cols=124 Identities=12% Similarity=0.094 Sum_probs=69.5
Q ss_pred cCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEEEEecccc-ccccccccCCchhHHHhhccCceeecCCCchhhh
Q 010147 157 LDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI-QIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 235 (517)
Q Consensus 157 ~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (517)
.++.+..+.+.+.+.+.+++ ++.+.|. ..+-+..+.+... ..+ + -......++.+++.....+... ..+
T Consensus 52 ~~~~~~A~~~aeII~~~t~~---aVaITDr--~~ILA~~G~g~d~~~~~---~-is~~t~~~i~~gk~~~~~~~~~-~~i 121 (180)
T TIGR02851 52 GELGDFAKEYAESLYQSLGH---IVLITDR--DTVIAVAGVSKKEYLNK---P-ISDELEDTMEERKTVILSDTKD-GPI 121 (180)
T ss_pred cchHHHHHHHHHHHHHHhCC---EEEEECC--CcEEEEECCChhhcCCC---c-cCHHHHHHHHcCCEEEecCCcc-cee
Confidence 45566777888888888888 5555553 3333333333221 111 3 3345577888888777664321 001
Q ss_pred hhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecC-CCCccccchhHHHHHHHHHHHH
Q 010147 236 RLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GGRKWRDHELELIDVVADQVAV 305 (517)
Q Consensus 236 ~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~-~~~~~~~~e~~ll~~va~qva~ 305 (517)
. .......+..+.+.+|+...+. ++|.+.+..+ ....+++-+.++.+.+|.-++.
T Consensus 122 ~-c~~~~~~~l~s~ii~Pl~~~g~--------------viGtLkly~k~~~~~~~~~e~~la~glA~lLS~ 177 (180)
T TIGR02851 122 E-IIDGQEFEYTSQVIAPIIAEGD--------------PIGAVIIFSKEPGEKLGEVEQKAAETAAAFLGK 177 (180)
T ss_pred c-cccCCCCCcceEEEEEEEECCe--------------EEEEEEEEECCccCCCCHHHHHHHHHHHHHHHH
Confidence 1 0011222357788888754443 3554444422 2347899999998888877664
No 111
>PRK05415 hypothetical protein; Provisional
Probab=65.85 E-value=1.3e+02 Score=29.94 Aligned_cols=45 Identities=16% Similarity=0.059 Sum_probs=21.3
Q ss_pred HhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccCcHHH
Q 010147 73 LWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTREL 120 (517)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~l~p~~l~l~s~~~ 120 (517)
+.+.|..+.|++|+ .-++.+++..+.+...++=.-.+.+++..+.
T Consensus 89 i~~~~~~~~wlg~~---~~~~~~~~~~~~~~~~~rE~~~l~rL~~~~~ 133 (341)
T PRK05415 89 LRDAFQRSDWLGLG---AAVVGALIVLAGLGIVVREWRRLRRLRQRAH 133 (341)
T ss_pred HHHHHHhCcHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445444454443 3444555555555555554444444444333
No 112
>PF14248 DUF4345: Domain of unknown function (DUF4345)
Probab=63.02 E-value=77 Score=26.21 Aligned_cols=52 Identities=25% Similarity=0.188 Sum_probs=39.0
Q ss_pred HHHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhhHHHHHHhhcccchh
Q 010147 28 IALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSK 81 (517)
Q Consensus 28 ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~~~~~~~~~ 81 (517)
++..|+++-+.++|...+.+. .+..+.+.+.++...|...+++.+.-..|+.
T Consensus 50 ~~G~~~g~Gl~~l~~~~~~~~--~~~al~~l~~~~~~~~lgRlis~~~dG~p~~ 101 (124)
T PF14248_consen 50 YGGLYLGLGLLLLWAAFKPEY--RRPALRLLALFIGGGGLGRLISLALDGPPSP 101 (124)
T ss_pred HHHHHHHHHHHHHHHHccHhH--HHHHHHHHHHHHHHHHHHHHHHHHHcCCCch
Confidence 466677888777877776554 5556677788899999999999988766653
No 113
>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=62.28 E-value=1.7e+02 Score=28.93 Aligned_cols=68 Identities=13% Similarity=0.177 Sum_probs=46.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 010147 334 RREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLS 403 (517)
Q Consensus 334 ~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~s 403 (517)
.+++++..+..+.-.++|+|.-+.. ..+...++.++.. .+++..+.++.+.+...+....+.|+-.+-
T Consensus 24 ~qKleel~~lQ~~C~ssI~~QkkrL-k~L~~sLk~~~~~-~~~e~~~~i~~L~~~Ik~r~~~l~DmEa~L 91 (330)
T PF07851_consen 24 KQKLEELSKLQDKCSSSISHQKKRL-KELKKSLKRCKKS-LSAEERELIEKLEEDIKERRCQLFDMEAFL 91 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhccC-CChhHHHHHHHHHHHHHHHHhhHHHHHhhC
Confidence 3455555666888899999988863 4444444444433 455677788888888888888888876554
No 114
>COG1389 DNA topoisomerase VI, subunit B [DNA replication, recombination, and repair]
Probab=61.60 E-value=6.2 Score=39.96 Aligned_cols=53 Identities=13% Similarity=0.071 Sum_probs=38.7
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC-C---eEEEEEEEcCCCc--cccCCCCCCCCCCCCCc
Q 010147 456 DEKRLMQTILNIVGNAVKFTKE-G---YVSIIASVAKPES--LSDWRPPEFYPVSTDGH 508 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~-g---~i~i~~~~~~~~~--~~~~~~~~~~~~~~~~~ 508 (517)
-...|.+++..|++|+++++.. | .|.|.+...+.+. +.+.|+|+|+|...-..
T Consensus 33 p~RsL~~tv~ElV~NSLDA~eeaGILPdI~v~I~~~~~d~y~v~veDNGpGIP~e~IPk 91 (538)
T COG1389 33 PIRSLTTTVHELVTNSLDACEEAGILPDIKVEIERIGKDHYKVIVEDNGPGIPEEQIPK 91 (538)
T ss_pred chhHHHHHHHHHHhcchhhHHhcCCCCceEEEEEecCCceEEEEEecCCCCCChhHhHH
Confidence 4567899999999999999863 3 4667776665443 45778999988654433
No 115
>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=61.57 E-value=51 Score=23.75 Aligned_cols=34 Identities=15% Similarity=0.292 Sum_probs=26.5
Q ss_pred HHHhcCCCchHHHHHHHHHHHHHhhhHHHHHHhh
Q 010147 42 FVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWT 75 (517)
Q Consensus 42 f~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~~~ 75 (517)
+.--.|+.....+..++|.+.+..|..++...+.
T Consensus 12 ~~l~~p~~~~~~~~~i~g~~~i~~Gi~~l~~~~~ 45 (72)
T PF03729_consen 12 LLLFNPDASLAALAIILGIWLIISGIFQLISAFR 45 (72)
T ss_pred HHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344455557777888999999999999998887
No 116
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=60.20 E-value=9.7 Score=36.00 Aligned_cols=39 Identities=13% Similarity=0.164 Sum_probs=21.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 010147 317 MRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRT 357 (517)
Q Consensus 317 ~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrn 357 (517)
...+++|.++++||++..+++++++++..+ .+++-+-||
T Consensus 63 ~~kq~eL~~rqeEL~Rke~ELdRREr~~a~--~g~~~~~nN 101 (313)
T KOG3088|consen 63 AKKQAELLKKQEELRRKEQELDRRERALAR--AGIVIRENN 101 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHhh--ccCcccccC
Confidence 334455666666666666666666555444 244445554
No 117
>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=59.71 E-value=15 Score=32.07 Aligned_cols=34 Identities=24% Similarity=0.245 Sum_probs=25.2
Q ss_pred cHHHHHHHHHHHHHHHhhcCC----CCeEEEEEEEcCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTK----EGYVSIIASVAKP 489 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~----~g~i~i~~~~~~~ 489 (517)
+...+..++.+++.||++|+. +|.|.|.+...++
T Consensus 39 ~~~~l~lav~Ea~~Nai~ha~~~~~~~~I~I~~~~~~~ 76 (159)
T TIGR01924 39 DIEDLKIAVSEACTNAVKHAYKEGENGEIGISFHIYED 76 (159)
T ss_pred HHHHHHHHHHHHHHHHHHhccCCCCCCeEEEEEEEeCC
Confidence 345688899999999999963 3577777665543
No 118
>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=56.76 E-value=89 Score=24.07 Aligned_cols=55 Identities=15% Similarity=0.180 Sum_probs=21.1
Q ss_pred HHHHHHHHhhhhccccCcHHHHHHHHHHHHHHHHHHHHhHHHH-hHHHHHHHHHHH
Q 010147 100 ITALMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEET-GRHVRMLTHEIR 154 (517)
Q Consensus 100 ~~a~~l~~l~p~~l~l~s~~~~~~~~~~~l~~~~~~l~~~~~~-~~~l~~l~~~i~ 154 (517)
+.+++.+.+++-+.++...-.-.++....++++...+..+... ++..+++...+.
T Consensus 9 af~vLvi~l~~~l~~l~~~l~~~~~ti~~l~~~~~~i~~e~~~ll~~~n~l~~dv~ 64 (90)
T PF06103_consen 9 AFAVLVIFLIKVLKKLKKTLDEVNKTIDTLQEQVDPITKEINDLLHNTNELLEDVN 64 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333344444444444322222233334444444444333222 333444444444
No 119
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=55.73 E-value=94 Score=24.00 Aligned_cols=19 Identities=26% Similarity=0.148 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 010147 89 IAKMACAFVSCITALMLVH 107 (517)
Q Consensus 89 ~~~~~ta~vs~~~a~~l~~ 107 (517)
++-+++|+++++.+++.|.
T Consensus 6 iv~~~~~v~~~i~~y~~~k 24 (87)
T PF10883_consen 6 IVGGVGAVVALILAYLWWK 24 (87)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455677777777777776
No 120
>PRK00095 mutL DNA mismatch repair protein; Reviewed
Probab=53.14 E-value=15 Score=39.82 Aligned_cols=45 Identities=11% Similarity=-0.025 Sum_probs=31.5
Q ss_pred HHHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCccccCCCCCCCCC
Q 010147 458 KRLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPV 503 (517)
Q Consensus 458 ~~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~ 503 (517)
.....|+.+|+.||+++. ...|.|.+...+...+.+.|+|.|++.
T Consensus 21 ~~~~svvkElveNsiDAg-at~I~v~i~~~g~~~i~V~DnG~Gi~~ 65 (617)
T PRK00095 21 ERPASVVKELVENALDAG-ATRIDIEIEEGGLKLIRVRDNGCGISK 65 (617)
T ss_pred cCHHHHHHHHHHHHHhCC-CCEEEEEEEeCCeEEEEEEEcCCCCCH
Confidence 346789999999999975 566777774333234666677777664
No 121
>PRK05559 DNA topoisomerase IV subunit B; Reviewed
Probab=51.64 E-value=13 Score=40.51 Aligned_cols=52 Identities=19% Similarity=0.173 Sum_probs=37.2
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-eEEEEEEEcCCCccccCCCCCCCCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEFYPVSTDG 507 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~~~~~~~~ 507 (517)
+...+.+++..++.||++....| .-.|.|....++.+.++++|.|+|+....
T Consensus 34 ~~~gl~~lv~EivdNaiDe~~ag~a~~I~V~i~~dg~I~V~DnGrGIP~~~~~ 86 (631)
T PRK05559 34 DTRGLHHLVQEVIDNSVDEALAGHGKRIEVTLHADGSVSVRDNGRGIPVGIHP 86 (631)
T ss_pred CCchhhhhhhhhhccccchhhcCCCCEEEEEEeCCCcEEEEEcCCCCCccccc
Confidence 56788999999999999975433 33444444445577788999998866444
No 122
>COG4377 Predicted membrane protein [Function unknown]
Probab=51.62 E-value=40 Score=30.19 Aligned_cols=37 Identities=14% Similarity=0.322 Sum_probs=27.3
Q ss_pred HHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHh
Q 010147 29 ALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILC 65 (517)
Q Consensus 29 a~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~c 65 (517)
|++..++|+-.+++.+|+-+...+.+++--.+|.++.
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 7788889999999888887777666665445565544
No 123
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=51.18 E-value=3.2e+02 Score=28.79 Aligned_cols=33 Identities=12% Similarity=0.067 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHhh------c-CCCCeEEEEEEEcCCC
Q 010147 458 KRLMQTILNIVGNAVK------F-TKEGYVSIIASVAKPE 490 (517)
Q Consensus 458 ~~l~qvl~NLl~NAik------~-~~~g~i~i~~~~~~~~ 490 (517)
.-++.++.|.++.+-. . ..++.+.+.+++++.+
T Consensus 413 ril~nlL~NAiKha~~~~I~I~l~~~~~~i~l~V~DnG~G 452 (495)
T PRK11644 413 RVCQEGLNNIVKHADASAVTLQGWQQDERLMLVIEDDGSG 452 (495)
T ss_pred HHHHHHHHHHHHhCCCCEEEEEEEEcCCEEEEEEEECCCC
Confidence 3356677777776522 1 1356788888776654
No 124
>PF14965 BRI3BP: Negative regulator of p53/TP53
Probab=49.18 E-value=1.9e+02 Score=25.53 Aligned_cols=29 Identities=14% Similarity=0.209 Sum_probs=18.2
Q ss_pred cccCcHHHHHHHHHHHHHHHHHHHHhHHH
Q 010147 113 LSVKTRELFLKNRADELDREMGLILTQEE 141 (517)
Q Consensus 113 l~l~s~~~~~~~~~~~l~~~~~~l~~~~~ 141 (517)
...+++..-++++.+.|++++++++.+.+
T Consensus 148 ~gs~~~~~~LE~kv~~LE~qvr~L~~R~~ 176 (177)
T PF14965_consen 148 VGSYWRSASLEAKVRHLERQVRELNIRQR 176 (177)
T ss_pred cCCCCCcccHHHHHHHHHHHHHHHHHHhc
Confidence 33344434566677778888887776654
No 125
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=48.96 E-value=98 Score=22.22 Aligned_cols=18 Identities=22% Similarity=0.302 Sum_probs=8.3
Q ss_pred HHHHHHHHHHHHHhHHHH
Q 010147 125 RADELDREMGLILTQEET 142 (517)
Q Consensus 125 ~~~~l~~~~~~l~~~~~~ 142 (517)
...+++++.+.++++.++
T Consensus 49 ~~~~~~k~l~~le~e~~~ 66 (68)
T PF06305_consen 49 RIRRLRKELKKLEKELEQ 66 (68)
T ss_pred HHHHHHHHHHHHHHHHHh
Confidence 344455555544444433
No 126
>TIGR01620 hyp_HI0043 conserved hypothetical protein, TIGR01620. This model includes putative membrane proteins from alpha and gamma proteobacteria, each making up their own clade. The two clades have less than 25% identity between them. We could not find support for the assignment to the sequence from Brucella of being a GTP-binding protein.
Probab=48.92 E-value=2.6e+02 Score=27.06 Aligned_cols=25 Identities=8% Similarity=0.085 Sum_probs=13.2
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHH
Q 010147 146 VRMLTHEIRSTLDRHTILKTTLVEL 170 (517)
Q Consensus 146 l~~l~~~i~~s~d~~~il~~~~~~l 170 (517)
.....+.+....|.++++.-.-+++
T Consensus 119 ~~r~~~~~~~~~d~~ell~L~e~~v 143 (289)
T TIGR01620 119 RAAWKETENEVIDGPELIELAEREV 143 (289)
T ss_pred HHHHHHhccccCCHHHHHHHHHHHh
Confidence 4444455555566666655544444
No 127
>PF10856 DUF2678: Protein of unknown function (DUF2678); InterPro: IPR022564 This family of proteins has no known function.
Probab=48.77 E-value=38 Score=27.49 Aligned_cols=15 Identities=20% Similarity=0.257 Sum_probs=5.6
Q ss_pred HHHHHHHHHHhcCCC
Q 010147 35 IPVELIYFVQKSAFF 49 (517)
Q Consensus 35 i~~~l~~f~~~~~~~ 49 (517)
++..++.+..|+.|+
T Consensus 73 ~s~~lLI~WYR~gdl 87 (118)
T PF10856_consen 73 ISAILLIFWYRQGDL 87 (118)
T ss_pred HHHHhheeehhcCCC
Confidence 333333333343333
No 128
>KOG3705 consensus Glycoprotein 6-alpha-L-fucosyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=48.64 E-value=3e+02 Score=27.73 Aligned_cols=51 Identities=14% Similarity=0.221 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhhcCCCcccccccccHHHHHHHHHHHHhh
Q 010147 382 IETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIKLIKP 432 (517)
Q Consensus 382 l~~i~~~~~rl~~li~~ll~~sr~~~~~~~l~~~~~~l~~li~~~~~~~~~ 432 (517)
-+...+.++++..++.++-.+.+.+..+---..+.-||.+++..-+..++.
T Consensus 156 ~~~LL~~~~h~rSlm~d~~~l~q~dG~e~wR~Kea~dlt~lvqrri~~LQN 206 (580)
T KOG3705|consen 156 TKILLETAEHMRSLMGDSAQLEQLDGSEEWRFKEATDLTQLVQRRIEKLQN 206 (580)
T ss_pred HHHHHhhHHHHHHHHhHHHHHHhccCcHHHHHhHHhHHHHHHHHHHHHhcC
Confidence 344567788999999998888777643333356678999999888877653
No 129
>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=48.20 E-value=1.1e+02 Score=28.27 Aligned_cols=36 Identities=11% Similarity=0.303 Sum_probs=23.1
Q ss_pred HHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhh
Q 010147 32 YFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGL 67 (517)
Q Consensus 32 y~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~cg~ 67 (517)
++.+|+.+.++.+||.....+..++-..+|+++...
T Consensus 2 ~~~~pi~l~~~~rk~~~~~~~~f~~Ga~~F~v~~~v 37 (223)
T PF10086_consen 2 SILLPILLFIYFRKRKKISWKPFILGALVFFVFAQV 37 (223)
T ss_pred eehHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHH
Confidence 357888888888887665555555545556665543
No 130
>KOG1734 consensus Predicted RING-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=47.51 E-value=30 Score=32.48 Aligned_cols=49 Identities=16% Similarity=0.370 Sum_probs=38.2
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHH-----HHHHhcCCCchHHHHHHHHHHHHHhh
Q 010147 18 VRYQYISDILIALAYFSIPVELI-----YFVQKSAFFPYRWVLMQFGSFIILCG 66 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~-----~f~~~~~~~~~~~~~~~~~~fi~~cg 66 (517)
..+|++|.+++.+.|.+|-.++. +|+.+..-+.|...|+++|.++-.-|
T Consensus 141 l~lyklSy~~g~vGyl~im~~~~g~n~~F~~~~~~~md~gi~~lfyglYyGvlg 194 (328)
T KOG1734|consen 141 LFLYKLSYLLGVVGYLAIMFAQFGLNFTFFYLKTTYMDFGISFLFYGLYYGVLG 194 (328)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhceeeEEeecchhHhhhhHHHHHHHHHHHhhh
Confidence 46789999999999999988776 33455555678888888888776654
No 131
>PRK04158 transcriptional repressor CodY; Validated
Probab=46.71 E-value=2.6e+02 Score=26.45 Aligned_cols=35 Identities=23% Similarity=0.348 Sum_probs=25.9
Q ss_pred EEEEEee-cCCCCccccchhHHHHHHHHHHHHHHHHHH
Q 010147 275 VMVLMLP-TDGGRKWRDHELELIDVVADQVAVALSHAA 311 (517)
Q Consensus 275 ~~v~~~~-~~~~~~~~~~e~~ll~~va~qva~al~~a~ 311 (517)
+|-+.+- .+. +|+++|+-+++.-|..++..+.+.+
T Consensus 124 LGTLvl~r~~~--~f~~dDliL~EyaATVVgLEIlR~~ 159 (256)
T PRK04158 124 LGTLILARFDK--EFTDDDLILAEYAATVVGMEILREK 159 (256)
T ss_pred EEEEEEEecCC--CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444443 443 7999999999999999998885554
No 132
>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=44.68 E-value=35 Score=24.25 Aligned_cols=48 Identities=23% Similarity=0.422 Sum_probs=30.0
Q ss_pred CCCCceeEEeeeeccccCcc--------ccCccccCccccEEEEEEeecCCCCccccc
Q 010147 242 YVPPDIVAVRVPLLHLSNFQ--------INDWPELPAKSYAVMVLMLPTDGGRKWRDH 291 (517)
Q Consensus 242 ~~~~~~~~~~~pl~~~~~~~--------~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~ 291 (517)
|..+....+++.|.+.++.+ ...++++++|.|.+.|.+.+..+ .|+..
T Consensus 2 y~~~~~~~Y~Y~l~g~d~~W~~~~~~~~~~~~~~L~~G~Y~l~V~a~~~~~--~~~~~ 57 (66)
T PF07495_consen 2 YSNPENIRYRYRLEGFDDEWITLGSYSNSISYTNLPPGKYTLEVRAKDNNG--KWSSD 57 (66)
T ss_dssp TTCCTTEEEEEEEETTESSEEEESSTS-EEEEES--SEEEEEEEEEEETTS---B-SS
T ss_pred CCCCCceEEEEEEECCCCeEEECCCCcEEEEEEeCCCEEEEEEEEEECCCC--CcCcc
Confidence 34555666666665444322 34578899999999999999887 45443
No 133
>PF11152 DUF2930: Protein of unknown function (DUF2930); InterPro: IPR021325 This family of proteins has no known function.
Probab=44.51 E-value=1.6e+02 Score=26.55 Aligned_cols=74 Identities=19% Similarity=0.181 Sum_probs=50.2
Q ss_pred CCchhHHHhhccCceeecCCCchh-hhhhccCCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCcc
Q 010147 210 NLPIVTDVFNSAQAMRLPYNCPLA-RIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKW 288 (517)
Q Consensus 210 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~ 288 (517)
..+++..++++.+...+.+..-.+ +.++. .......+.++.|+.. -|++.+..+.+|.|
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 456888999998888776554332 22222 2223346666777521 16777888889999
Q ss_pred ccchhHHHHHHHHHH
Q 010147 289 RDHELELIDVVADQV 303 (517)
Q Consensus 289 ~~~e~~ll~~va~qv 303 (517)
|+.|..-+..+|+.+
T Consensus 180 t~~D~~Wi~~iA~Kl 194 (195)
T PF11152_consen 180 TKSDEAWIAGIADKL 194 (195)
T ss_pred CHHHHHHHHHHHHhc
Confidence 999999999988763
No 134
>PRK05644 gyrB DNA gyrase subunit B; Validated
Probab=43.64 E-value=19 Score=39.16 Aligned_cols=47 Identities=19% Similarity=0.256 Sum_probs=35.1
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC---eEEEEEEEcCCCccccCCCCCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTKEG---YVSIIASVAKPESLSDWRPPEFYPVS 504 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~g---~i~i~~~~~~~~~~~~~~~~~~~~~~ 504 (517)
|+.-+.+++..|+.||++-...| .|.|.+. .++.+.++++|.|+|+.
T Consensus 34 ~~~gl~~~v~ElvdNaiDe~~ag~a~~I~V~i~--~~g~I~V~DnG~GIp~~ 83 (638)
T PRK05644 34 GERGLHHLVYEIVDNSIDEALAGYCDHIEVTIN--EDGSITVTDNGRGIPVD 83 (638)
T ss_pred ChhhHHhhhHHhhhcccccccCCCCCEEEEEEe--CCCcEEEEEeCccccCC
Confidence 56778999999999999944344 5555554 45578888888888865
No 135
>cd07955 Anticodon_Ia_Cys_like Anticodon-binding domain of cysteinyl tRNA synthetases and domain found in MshC. This domain is found in cysteinyl tRNA synthetases (CysRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. CysRS catalyzes the transfer of cysteine to the 3'-end of its tRNA. The family also includes a domain of MshC, the rate-determining enzyme in the mycothiol biosynthetic pathway, which is specific to actinomycetes. The anticodon-binding site of CysRS lies C-terminal to this model's footprint and is not shared by MshC.
Probab=43.34 E-value=66 Score=24.38 Aligned_cols=28 Identities=14% Similarity=0.101 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHhHHH--HHHHHHHHH
Q 010147 342 HARNDFRAVMNHEMRTLMH--AIIALSSLL 369 (517)
Q Consensus 342 ~~~~~~~~~iaHelrnPL~--~I~~~~~~l 369 (517)
....+|...|.+||+||.. .+..+...+
T Consensus 28 ~~~~~F~~AL~DDLNTp~Ala~L~~l~k~i 57 (81)
T cd07955 28 ALVARLREALADDLDTPKALAALDAWAREA 57 (81)
T ss_pred HHHHHHHHHHHhhCChHHHHHHHHHHHHHH
Confidence 3568899999999999964 334444444
No 136
>PRK10697 DNA-binding transcriptional activator PspC; Provisional
Probab=42.75 E-value=1.6e+02 Score=24.31 Aligned_cols=23 Identities=13% Similarity=0.062 Sum_probs=11.6
Q ss_pred CcHHHHHHHHHHHHHHHHHHHHh
Q 010147 116 KTRELFLKNRADELDREMGLILT 138 (517)
Q Consensus 116 ~s~~~~~~~~~~~l~~~~~~l~~ 138 (517)
+++.+.++++.++++.-...+++
T Consensus 77 ~s~~~~l~~~~~~~~~~e~Rlr~ 99 (118)
T PRK10697 77 PSSSELLDEVDRELAAGEQRLRE 99 (118)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHH
Confidence 35555555555555554333333
No 137
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=42.34 E-value=1.9e+02 Score=23.59 Aligned_cols=14 Identities=29% Similarity=0.237 Sum_probs=5.8
Q ss_pred HHHHHHHHHHHHHH
Q 010147 94 CAFVSCITALMLVH 107 (517)
Q Consensus 94 ta~vs~~~a~~l~~ 107 (517)
++.+.+..++.+..
T Consensus 78 v~~~~l~la~i~~~ 91 (121)
T PF07332_consen 78 VAGLYLLLALILLL 91 (121)
T ss_pred HHHHHHHHHHHHHH
Confidence 34444444443333
No 138
>cd00284 Cytochrome_b_N Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria, cytochrome b6 is analogous to eukaryote cytochrome b, containing two chains: helices A-D are encoded by the petB gene and helices E-H are encoded by the petD gene in these organisms. Cytochrome b/b6 contains two bound hemes and two ubiquinol/ubiquinone binding sites. The C-terminal portion of cytochrome b is described in a separate CD.
Probab=41.55 E-value=2.7e+02 Score=25.33 Aligned_cols=87 Identities=11% Similarity=0.226 Sum_probs=54.9
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHHHHh--cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhc--ccchhhHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYFVQK--SAFFPYRWVL----MQFGSFIILCGLTHFISLWTF--TVHSKAVAVVMTI 89 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f~~~--~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~--~~~~~~~~~~~~~ 89 (517)
...|++|-++.|.-|..-+. ..|--.. -++.||.|++ ...+.++++|-.-|.+-..-+ +-+.....|.+|+
T Consensus 33 ~~iqiiTGi~La~~Y~p~~~-~A~~Sv~~i~~ev~~G~liR~~H~~gas~~~~~~~lH~~r~~~~gsY~~pre~~W~~G~ 111 (200)
T cd00284 33 LVIQILTGVFLAMHYTPDVT-LAFSSVQYIMRDVNFGWLIRSLHANGASMFFLMLYLHIFRGLYYGSYKKPRELTWVIGV 111 (200)
T ss_pred HHHHHHHHHHHHHHHcCChH-HHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHH
Confidence 46688888888887765442 2222222 2678887777 556788888888898776432 2222356788888
Q ss_pred HHHHHHHHHHHHHHHH
Q 010147 90 AKMACAFVSCITALML 105 (517)
Q Consensus 90 ~~~~ta~vs~~~a~~l 105 (517)
+-.+..++...+.+.+
T Consensus 112 ~l~~l~~~~af~GY~L 127 (200)
T cd00284 112 ILLLLTMATAFMGYVL 127 (200)
T ss_pred HHHHHHHHHHHccccc
Confidence 8666666555555443
No 139
>PF07615 Ykof: YKOF-related Family; InterPro: IPR011522 This entry represents YkoF-related proteins. YkoF is involved in the hydroxymethyl pyrimidine (HMP) salvage pathway []. The domain is found in pairs in these proteins.; PDB: 1S7H_A 1S99_A 1SBR_B.
Probab=40.81 E-value=1.6e+02 Score=22.33 Aligned_cols=61 Identities=15% Similarity=0.128 Sum_probs=45.4
Q ss_pred ccHHHHHHHHHHHHhhhhhcCCcEEEEEeCCCCCceEEccHHHHHHHHHHHHHHHhhcCCCCeEEEEEEE
Q 010147 417 FNLQIVLREVIKLIKPVASCKKLSMTLIMAPELPTYAVGDEKRLMQTILNIVGNAVKFTKEGYVSIIASV 486 (517)
Q Consensus 417 ~~l~~li~~~~~~~~~~~~~~~i~i~~~~~~~~~~~v~~D~~~l~qvl~NLl~NAik~~~~g~i~i~~~~ 486 (517)
-|--+.|.++++.++ ..++..+. ......+.||...+..++.-+..+|.+.. +++++.++-
T Consensus 14 ~dy~~~I~~~i~~~~----~~gl~~~t---~~~sT~l~G~~~~Vf~~l~~~~~~a~~~~--~H~v~~~T~ 74 (81)
T PF07615_consen 14 DDYMDVILGAIDRLD----DSGLWVET---DHYSTQLRGDEEDVFDALEAAFERAAEEG--PHVVMVVTI 74 (81)
T ss_dssp TTHHHHHHHHHHHCH----HTTSEEEE---ETTEEEEECBHHHHHHHHHHHHHHHHCCS--SSEEEEEEE
T ss_pred ccHHHHHHHHHHHHh----hcCcEEee---cccEEEEECCHHHHHHHHHHHHHHHhccC--CeEEEEEEE
Confidence 355667778877766 57888776 45666799999999999999999998754 445544443
No 140
>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=40.05 E-value=23 Score=38.80 Aligned_cols=47 Identities=15% Similarity=0.180 Sum_probs=34.5
Q ss_pred cHHHHHHHHHHHHHHHhhcCCC---CeEEEEEEEcCCCccccCCCCCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTKE---GYVSIIASVAKPESLSDWRPPEFYPVS 504 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~---g~i~i~~~~~~~~~~~~~~~~~~~~~~ 504 (517)
++.-+.+++..|+.||++-... ..|.|.+. +++.+.++++|.|+|+.
T Consensus 27 ~~~gl~~vv~Elv~NaiDe~~ag~a~~I~V~i~--~~g~I~V~DnG~GIp~~ 76 (654)
T TIGR01059 27 GETGLHHLVYEVVDNSIDEAMAGYCDTINVTIN--DDGSVTVEDNGRGIPVD 76 (654)
T ss_pred CcchHHhhhHHhhhccccccccCCCCEEEEEEe--CCCcEEEEEeCCCcCcc
Confidence 5677999999999999994333 45555554 45567888888888864
No 141
>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=38.42 E-value=10 Score=35.68 Aligned_cols=37 Identities=24% Similarity=0.405 Sum_probs=0.0
Q ss_pred HHHHHHH-hhhHH----H---HHHHHhHHHHHHHHHHhcCCC-chH
Q 010147 16 LLVRYQY-ISDIL----I---ALAYFSIPVELIYFVQKSAFF-PYR 52 (517)
Q Consensus 16 ~~~~~~~-~~~~~----i---a~ay~~i~~~l~~f~~~~~~~-~~~ 52 (517)
+|+|+.+ .||.- . ..|..-|-+.++.|+.|||.+ |..
T Consensus 36 il~w~~iimsd~t~~a~~vl~sfAvvliiIIiIImlF~RrLLCPLG 81 (381)
T PF05297_consen 36 ILVWFFIIMSDLTQGALTVLYSFAVVLIIIIIIIMLFKRRLLCPLG 81 (381)
T ss_dssp ----------------------------------------------
T ss_pred HHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCcch
Confidence 5667665 56642 2 233344445566677788765 533
No 142
>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=37.50 E-value=3.4e+02 Score=28.98 Aligned_cols=21 Identities=24% Similarity=0.078 Sum_probs=10.7
Q ss_pred HHhhhHHHHHHHHhHHHHHHH
Q 010147 21 QYISDILIALAYFSIPVELIY 41 (517)
Q Consensus 21 ~~~~~~~ia~ay~~i~~~l~~ 41 (517)
|++-.+.|+++-|+--+.-+|
T Consensus 109 ~ili~~~i~i~a~~~~l~~g~ 129 (952)
T TIGR02921 109 HILINIGIAIAAFAACLFGGV 129 (952)
T ss_pred hHHHHHHHHHHHHHHHHhhcc
Confidence 444455555555555544444
No 143
>MTH00145 CYTB cytochrome b; Provisional
Probab=36.76 E-value=2.3e+02 Score=28.66 Aligned_cols=81 Identities=14% Similarity=0.198 Sum_probs=50.3
Q ss_pred HHHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHH
Q 010147 17 LVRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIA 90 (517)
Q Consensus 17 ~~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~ 90 (517)
....|++|-++.|.-|-.-+. ..|- +.. -+|.++.|.+ ...+.+.++|-.-|.+-..-+--...+..|.+|++
T Consensus 41 ~~~~qiitG~~L~~~Y~p~~~-~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~~lH~~r~~~~gsy~~~~~W~~Gv~ 119 (379)
T MTH00145 41 CLGIQILTGLFLSMHYTAHVD-LAFSSVIHIMRDVNYGWLLRSLHANGASFFFICIYLHIGRGLYYGSYLMQHTWNIGVT 119 (379)
T ss_pred HHHHHHHHHHHHHHHHcCCCc-hhHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccCchHHHHhHH
Confidence 345688888888887764432 1221 221 2678888877 55688999999999977643311123457888877
Q ss_pred HHHHHHHH
Q 010147 91 KMACAFVS 98 (517)
Q Consensus 91 ~~~ta~vs 98 (517)
-.+..+..
T Consensus 120 l~~l~~~~ 127 (379)
T MTH00145 120 LLLLSMGT 127 (379)
T ss_pred HHHHHHHH
Confidence 55544433
No 144
>COG3162 Predicted membrane protein [Function unknown]
Probab=36.17 E-value=2e+02 Score=22.66 Aligned_cols=21 Identities=10% Similarity=0.333 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 010147 85 VVMTIAKMACAFVSCITALMLVH 107 (517)
Q Consensus 85 ~~~~~~~~~ta~vs~~~a~~l~~ 107 (517)
|..++..++++. +.|++..++
T Consensus 64 ip~gvg~fv~tf--Vlt~IYv~r 84 (102)
T COG3162 64 IPFGVGVFVMTF--VLTGIYVRR 84 (102)
T ss_pred HhHHHHHHHHHH--HHHHHHhhH
Confidence 344444444444 455555544
No 145
>COG3781 Predicted membrane protein [Function unknown]
Probab=35.52 E-value=3.9e+02 Score=25.33 Aligned_cols=45 Identities=22% Similarity=0.340 Sum_probs=33.0
Q ss_pred CchHHHHHHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 49 FPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVH 107 (517)
Q Consensus 49 ~~~~~~~~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~ 107 (517)
+||.+.+.+-=..+++|-+.-+--+.++.+ .|.++|...++.++.
T Consensus 209 iPfAYtl~lhrtvyl~C~~LPF~lV~tlgw--------------~Tp~~s~lIayTffg 253 (306)
T COG3781 209 IPFAYTLHLHRTVYLFCFLLPFGLVETLGW--------------ATPFFSVLIAYTFFG 253 (306)
T ss_pred ccHHHHHHHHHHHHHHHHHhHHHHHHHccc--------------chHHHHHHHHHHHHH
Confidence 588888887888888997777766666532 167777777887776
No 146
>TIGR01055 parE_Gneg DNA topoisomerase IV, B subunit, proteobacterial. This protein is active as an alpha(2)beta(2) heterotetramer.
Probab=35.26 E-value=18 Score=39.24 Aligned_cols=48 Identities=17% Similarity=0.235 Sum_probs=33.8
Q ss_pred cHHHHHHHHHHHHHHHhh---cCCCCeEEEEEEEcCCCccccCCCCCCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVK---FTKEGYVSIIASVAKPESLSDWRPPEFYPVST 505 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik---~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~~~ 505 (517)
+.+...+++..|+.||++ +.....|.|.+ ..++.+.++++|.|+|+..
T Consensus 27 gs~~~~~lv~ElvdNsiDE~~ag~a~~I~V~i--~~d~~I~V~DnGrGIp~~~ 77 (625)
T TIGR01055 27 DTTRPNHLVQEVIDNSVDEALAGFASIIMVIL--HQDQSIEVFDNGRGMPVDI 77 (625)
T ss_pred CCCCcceeehhhhhcccchhhcCCCCEEEEEE--eCCCeEEEEecCCccCccc
Confidence 444457889999999999 43334555555 3446788889999998765
No 147
>COG4965 TadB Flp pilus assembly protein TadB [Intracellular trafficking and secretion]
Probab=35.20 E-value=4.3e+02 Score=25.84 Aligned_cols=37 Identities=14% Similarity=0.208 Sum_probs=25.8
Q ss_pred HHHhHHHHHHHHHHHcccCHHHHHHHHHHHHHhhhCC
Q 010147 140 EETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGL 176 (517)
Q Consensus 140 ~~~~~~l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~ 176 (517)
++--+.+..+.+.++....+.+.++.+.++..+-++.
T Consensus 136 ~qlP~aLdlivr~l~aG~~l~dAl~~~~~e~~~Pl~~ 172 (309)
T COG4965 136 QQLPEALDLIVRALRAGAPLPDALRLAAKETPEPLGT 172 (309)
T ss_pred HHhhHHHHHHHHHhhCCCCHHHHHHHHHhhCCCchHH
Confidence 3344567888888898888888887777765554433
No 148
>PF05884 ZYG-11_interact: Interactor of ZYG-11; InterPro: IPR008574 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=35.14 E-value=1.9e+02 Score=27.90 Aligned_cols=59 Identities=22% Similarity=0.291 Sum_probs=34.0
Q ss_pred HHHHHHHHhHHHHHHHHHHhcCC-C-chHHHHHHHHHHHHHhhhHHHHHHhhcccchhhHHHHH
Q 010147 26 ILIALAYFSIPVELIYFVQKSAF-F-PYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVM 87 (517)
Q Consensus 26 ~~ia~ay~~i~~~l~~f~~~~~~-~-~~~~~~~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~ 87 (517)
..+-++|+.||+..-|.+.++.- . -+|...+ .+.++=|.-+....-..|.++-|..++.
T Consensus 139 gAaila~iviP~~~~y~ln~~~~s~~~~R~~ll---~~a~~QGvL~Ga~ls~~~l~sePf~~LT 199 (299)
T PF05884_consen 139 GAAILAYIVIPLIAYYYLNKEDGSLAESRLALL---FFALFQGVLVGAGLSHLYLSSEPFIALT 199 (299)
T ss_pred hHHHHHHHHHHHHHHhhcccccCchHHHHHHHH---HHHHHHHHHHHHHhhcccccCCcHHHHH
Confidence 45678999999999887766522 1 2333333 2333344444444445677776765444
No 149
>COG3768 Predicted membrane protein [Function unknown]
Probab=33.93 E-value=4.6e+02 Score=25.61 Aligned_cols=58 Identities=7% Similarity=0.057 Sum_probs=26.0
Q ss_pred cCCCchHHHHHHHHHHHHHhhhHHHHH---HhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 46 SAFFPYRWVLMQFGSFIILCGLTHFIS---LWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVH 107 (517)
Q Consensus 46 ~~~~~~~~~~~~~~~fi~~cg~~h~~~---~~~~~~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~ 107 (517)
++-..|..+++.+++ +++|-..-+-+ ++.+|...-|++|....+ ++++..+.+..+.+
T Consensus 58 rpr~s~~k~~~~a~~-vLf~~Av~~q~~qwi~d~~qr~dWl~~~a~~v---~~l~vlagv~~v~r 118 (350)
T COG3768 58 RPRSSFWKIMLGAGG-VLFSLAVGLQSVQWIRDLFQRADWLGLGAAAV---GALIVLAGVGSVVR 118 (350)
T ss_pred cccchHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHH---HHHHHHHHHHHHHH
Confidence 444457776653333 22331111111 234566666777765443 44443444433333
No 150
>PRK14939 gyrB DNA gyrase subunit B; Provisional
Probab=32.93 E-value=32 Score=38.07 Aligned_cols=47 Identities=19% Similarity=0.188 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCC-eEEEEEEEcCCCccccCCCCCCCCCC
Q 010147 458 KRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEFYPVS 504 (517)
Q Consensus 458 ~~l~qvl~NLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~~~~~ 504 (517)
.-|.+++..++.||++-.-.| .-.|.|....++.+.++++|.|+|+.
T Consensus 36 ~GLhhlv~EivdNaiDE~~AG~a~~I~V~i~~dgsIsV~DnGrGIPvd 83 (756)
T PRK14939 36 TGLHHMVYEVVDNAIDEALAGHCDDITVTIHADGSVSVSDNGRGIPTD 83 (756)
T ss_pred cchhhhhhHhhcccccccccCCCCEEEEEEcCCCeEEEEEcCCcccCC
Confidence 568999999999999833233 23333443445678888999998865
No 151
>COG3447 Predicted integral membrane sensor domain [Signal transduction mechanisms]
Probab=32.61 E-value=4.8e+02 Score=25.45 Aligned_cols=18 Identities=44% Similarity=0.700 Sum_probs=7.9
Q ss_pred HHHHHHHhhhHHHHHHhh
Q 010147 58 FGSFIILCGLTHFISLWT 75 (517)
Q Consensus 58 ~~~fi~~cg~~h~~~~~~ 75 (517)
+|+++++|+++-+..+.|
T Consensus 239 ~ga~L~~~~~~l~~~~~t 256 (308)
T COG3447 239 FGASLIFCLLALFAILAT 256 (308)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 344444444444444433
No 152
>PTZ00127 cytochrome c oxidase assembly protein; Provisional
Probab=32.58 E-value=5.6e+02 Score=26.21 Aligned_cols=9 Identities=22% Similarity=0.047 Sum_probs=5.0
Q ss_pred cCCCCCCch
Q 010147 6 CIDTQWPPD 14 (517)
Q Consensus 6 ~~~~~~~~~ 14 (517)
|+|..||++
T Consensus 292 c~g~~iP~~ 300 (403)
T PTZ00127 292 MGGKFVPDD 300 (403)
T ss_pred CCCCCCCch
Confidence 556555543
No 153
>MTH00046 CYTB cytochrome b; Validated
Probab=32.35 E-value=2.8e+02 Score=27.83 Aligned_cols=83 Identities=14% Similarity=0.217 Sum_probs=50.9
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAK 91 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~~ 91 (517)
+..|++|-++.|.-|-.-+. ..|- +.. -+|.++.|.+ ...+.+.++|-.-|.+-..-+--...+..|..|++-
T Consensus 32 l~iQiiTGi~La~~Y~p~~~-~Af~Sv~~I~~~v~~GwliR~~H~~gAs~~f~~~ylHi~R~~~~gsY~~~~~W~~Gv~l 110 (355)
T MTH00046 32 MVIQVLTGVLLSLLYVADSL-CSFFCVMSLSNDSFFTWCVRYWHIWGVNVLFILLFIHMGRALYYSSYSKKGVWNVGFIL 110 (355)
T ss_pred HHHHHHHHHHHHHHHcCCch-HHHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHhHHH
Confidence 45688888888888775442 2222 222 2688888877 567889999998998765322111123467777664
Q ss_pred HHHHHHHHHHHHH
Q 010147 92 MACAFVSCITALM 104 (517)
Q Consensus 92 ~~ta~vs~~~a~~ 104 (517)
. ++++++|+.
T Consensus 111 ~---~l~m~~aF~ 120 (355)
T MTH00046 111 Y---LLVMVEAFL 120 (355)
T ss_pred H---HHHHHHHHe
Confidence 4 444555544
No 154
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=32.10 E-value=2.7e+02 Score=22.35 Aligned_cols=15 Identities=0% Similarity=0.076 Sum_probs=6.2
Q ss_pred HHHHHHHHHHhHHHH
Q 010147 128 ELDREMGLILTQEET 142 (517)
Q Consensus 128 ~l~~~~~~l~~~~~~ 142 (517)
+++++.+.++++.+.
T Consensus 38 ~~~~e~~~l~~~n~~ 52 (105)
T PRK00888 38 AQQQTNAKLKARNDQ 52 (105)
T ss_pred HHHHHHHHHHHHHHH
Confidence 334444444444433
No 155
>PRK06231 F0F1 ATP synthase subunit B; Validated
Probab=32.06 E-value=4e+02 Score=24.32 Aligned_cols=14 Identities=14% Similarity=0.503 Sum_probs=8.1
Q ss_pred HHHHHHHHHHhhhH
Q 010147 55 LMQFGSFIILCGLT 68 (517)
Q Consensus 55 ~~~~~~fi~~cg~~ 68 (517)
|++++.|.+.|.-.
T Consensus 18 ~~~~~~~~~~~~~~ 31 (205)
T PRK06231 18 FLIISLFLVSCTEN 31 (205)
T ss_pred HHHHHHHHHHccCC
Confidence 45556666677443
No 156
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=32.02 E-value=2e+02 Score=26.60 Aligned_cols=34 Identities=15% Similarity=0.188 Sum_probs=20.4
Q ss_pred HHHHHhcCCCchHHHHHHHHHHHHHhhhHHHHHHhh
Q 010147 40 IYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWT 75 (517)
Q Consensus 40 ~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~~~ 75 (517)
.|-+.|+.| -+.+.+++++|++..+..-++.+++
T Consensus 16 ~y~~trk~d--p~l~~~ml~a~l~~~~v~v~ig~l~ 49 (224)
T PF13829_consen 16 AYKMTRKED--PKLPWLMLGAFLGPIAVFVLIGLLF 49 (224)
T ss_pred HHHHHHHHC--cchHHHHHHHHHHHHHHHHHHHHHH
Confidence 455666666 4445556677777666655555544
No 157
>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=31.49 E-value=3.3e+02 Score=23.28 Aligned_cols=43 Identities=16% Similarity=0.371 Sum_probs=29.3
Q ss_pred HHHhhhHHHHHHHHhHHHHHHHH-HHhcCCCchHHHHHHHHHHH
Q 010147 20 YQYISDILIALAYFSIPVELIYF-VQKSAFFPYRWVLMQFGSFI 62 (517)
Q Consensus 20 ~~~~~~~~ia~ay~~i~~~l~~f-~~~~~~~~~~~~~~~~~~fi 62 (517)
.....+.+++++++...+.+.|. .+|++.+|...+.++....+
T Consensus 54 ~~~~~~~~~~~~~~~~~l~~~~lffkr~~~~P~~~I~~ll~~v~ 97 (149)
T PF10754_consen 54 ALWYFEVAINIAMWLFTLWLLYLFFKRKRRFPKLYIIWLLISVL 97 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHHHHHHHHHH
Confidence 44567778888777777666664 45667788877777655555
No 158
>PF11177 DUF2964: Protein of unknown function (DUF2964); InterPro: IPR021347 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=31.47 E-value=2e+02 Score=20.64 Aligned_cols=27 Identities=41% Similarity=0.581 Sum_probs=20.9
Q ss_pred chHHHHHHHHHHHHHhhhHHHHHHhhc
Q 010147 50 PYRWVLMQFGSFIILCGLTHFISLWTF 76 (517)
Q Consensus 50 ~~~~~~~~~~~fi~~cg~~h~~~~~~~ 76 (517)
++|.++-.++.|+-+.|+.-.+.-.-+
T Consensus 5 ~~RivlAtiavFiaLagl~~~I~GlLf 31 (62)
T PF11177_consen 5 EYRIVLATIAVFIALAGLAAVIHGLLF 31 (62)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhhhhhc
Confidence 478889999999999987766665544
No 159
>PRK13182 racA polar chromosome segregation protein; Reviewed
Probab=31.45 E-value=3.3e+02 Score=24.21 Aligned_cols=23 Identities=22% Similarity=0.450 Sum_probs=18.3
Q ss_pred cCCCCccccchhHHHHHHHHHHH
Q 010147 282 TDGGRKWRDHELELIDVVADQVA 304 (517)
Q Consensus 282 ~~~~~~~~~~e~~ll~~va~qva 304 (517)
..|.|.|+++|+..+..+-....
T Consensus 32 ~~G~R~y~~~dl~~L~~I~~l~~ 54 (175)
T PRK13182 32 EYGHYIFTEEDLQLLEYVKSQIE 54 (175)
T ss_pred CCCCEEECHHHHHHHHHHHHHHH
Confidence 34578999999999998886643
No 160
>COG5393 Predicted membrane protein [Function unknown]
Probab=31.10 E-value=2.9e+02 Score=22.53 Aligned_cols=31 Identities=6% Similarity=0.189 Sum_probs=16.7
Q ss_pred HhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 73 LWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVH 107 (517)
Q Consensus 73 ~~~~~~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~ 107 (517)
+|.+| |.|. ....+-...++...+.+++.|+
T Consensus 73 i~~f~-~tyR---l~a~~a~~~vl~vl~~i~ciW~ 103 (131)
T COG5393 73 IWAFD-PTYR---LNAMIATTAVLLVLALIGCIWT 103 (131)
T ss_pred HHHcC-cHHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 46666 3443 3233344445555566677887
No 161
>KOG3689 consensus Cyclic nucleotide phosphodiesterase [Signal transduction mechanisms]
Probab=30.80 E-value=20 Score=38.88 Aligned_cols=151 Identities=15% Similarity=0.224 Sum_probs=97.3
Q ss_pred ccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEEEE-EEecc--------ccccccccccCCchhHHHhhccCceee
Q 010147 156 TLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELS-YTLNN--------QIQIGSSVPINLPIVTDVFNSAQAMRL 226 (517)
Q Consensus 156 s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~-~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 226 (517)
+++.+.....++..+.-.+++++|..++. ..|....-. ..... ..+.. ..+.+.++++.+...+++..+
T Consensus 4 ~l~~~~~~~~~l~~~~~l~~a~r~~~f~~-~~g~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~a~~~~~~~~ 81 (707)
T KOG3689|consen 4 SLDTEALCHKILQRVAGLLQADRCSLFLV-RNGAELASRLISVLPDVCEESTLEEPDN-RFPWGKGIVGHVAETGETLNI 81 (707)
T ss_pred ccccccccchhhhhccccCCCCCcCeeee-ccCccccccccccCcccccccccccccc-cccccceeeeeecccccccCc
Confidence 44555666778888888999999988877 333221111 00000 01111 556677788888888899999
Q ss_pred cCCCchhhhhhcc-CCCCCCceeEEeeeeccccCccccCccccCccccEEEEEEeecCCCCccccchhHHHHHHHHHHHH
Q 010147 227 PYNCPLARIRLLV-GRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAV 305 (517)
Q Consensus 227 ~~~~~~~~~~~~~-~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~~~~~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~ 305 (517)
++...+..+.... .......+..++.|+.+... ..+.....++..+..|+..+-..+...-.-..+
T Consensus 82 ~~~~~~~~f~~~~d~~t~~~~~~~l~~pi~~~~~-------------~~~~~~~~~k~~~~~~~~~~~~~~~~~l~~~~i 148 (707)
T KOG3689|consen 82 PDAYEDSRFNSETDKLTGYKTKSILCMPIVNSRE-------------VVGVAQAINKSNGPTFTERDESVFSAYLGFCSI 148 (707)
T ss_pred cccccccccccccccccCCCccceeeccccchhH-------------HHHHHHhhccccccccccccHHHHHhhcCCcee
Confidence 8888777766432 33344556667777644431 122222333445668999999999998888999
Q ss_pred HHHHHHHHHHHHHHHH
Q 010147 306 ALSHAAILEDSMRARN 321 (517)
Q Consensus 306 al~~a~l~~~~~~~~~ 321 (517)
.+.+++++...+..++
T Consensus 149 ~~~~~ql~~~~~~~~~ 164 (707)
T KOG3689|consen 149 VLKNAQLLASSRIERK 164 (707)
T ss_pred eccHHHHHHHhhhHHH
Confidence 9999999887665543
No 162
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=30.34 E-value=2.7e+02 Score=27.23 Aligned_cols=49 Identities=14% Similarity=0.208 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 307 LSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEM 355 (517)
Q Consensus 307 l~~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHel 355 (517)
..+..+...+....+++++++++++...+++++..+..++|...++-++
T Consensus 28 ~l~~~l~~~l~~~~~~lr~e~~~l~~~~~~~~~~~~~~d~f~~~~~~~l 76 (308)
T PF11382_consen 28 PLQPNLIDSLEDQFDSLREENDELRAELDALQAQLNAADQFIAAVAPRL 76 (308)
T ss_pred hhchhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566666677777888888888888888888888888887776543
No 163
>PF14979 TMEM52: Transmembrane 52
Probab=30.29 E-value=56 Score=27.66 Aligned_cols=20 Identities=40% Similarity=1.046 Sum_probs=14.1
Q ss_pred hHHHHHHHHHHHHHhhhHHH
Q 010147 51 YRWVLMQFGSFIILCGLTHF 70 (517)
Q Consensus 51 ~~~~~~~~~~fi~~cg~~h~ 70 (517)
|-|++++.+...++||+|-.
T Consensus 21 yIwLill~~~llLLCG~ta~ 40 (154)
T PF14979_consen 21 YIWLILLIGFLLLLCGLTAS 40 (154)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 45677777888888986543
No 164
>PF14150 YesK: YesK-like protein
Probab=30.11 E-value=2.5e+02 Score=21.38 Aligned_cols=45 Identities=22% Similarity=0.242 Sum_probs=29.0
Q ss_pred HHHHHHHhHHHHHHHHHHhc-CCCchHHHHHHHHHHHHHhhhHHHHHH
Q 010147 27 LIALAYFSIPVELIYFVQKS-AFFPYRWVLMQFGSFIILCGLTHFISL 73 (517)
Q Consensus 27 ~ia~ay~~i~~~l~~f~~~~-~~~~~~~~~~~~~~fi~~cg~~h~~~~ 73 (517)
++.++++-+-..+.|+++|| |+-++.|++- ..++++|-.+-..+.
T Consensus 3 llg~~~~ii~f~~S~~lr~r~p~k~~~~il~--~ililis~~~v~~S~ 48 (81)
T PF14150_consen 3 LLGIVTFIIVFGVSVLLRKRFPKKQPEIILP--LILILISLLTVLISI 48 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCcchhHHHH--HHHHHHHHHHHHHHH
Confidence 45677888888888888887 5545555543 245666654555444
No 165
>COG3835 CdaR Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]
Probab=29.05 E-value=5.5e+02 Score=25.56 Aligned_cols=53 Identities=17% Similarity=0.099 Sum_probs=30.7
Q ss_pred EEEEEEeecCCCCccccchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 274 AVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALD 331 (517)
Q Consensus 274 ~~~v~~~~~~~~~~~~~~e~~ll~~va~qva~al~~a~l~~~~~~~~~~l~~~~~~l~ 331 (517)
.+||+...... ++-..+-+.+---+-..|+++++.++++..++..++-..++-
T Consensus 85 vVGViGITGeP-----~~Vr~y~ELVrm~AElliEQ~~~~Eq~qw~~r~rE~f~~~li 137 (376)
T COG3835 85 VVGVIGITGEP-----EEVRKYGELVRMTAELLIEQARLLEQLQWDRRYREEFVSDLI 137 (376)
T ss_pred eEEEEeccCCh-----HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 47777766543 233334444444456667777777777776655555444443
No 166
>MTH00100 CYTB cytochrome b; Provisional
Probab=28.98 E-value=4.7e+02 Score=26.51 Aligned_cols=86 Identities=13% Similarity=0.204 Sum_probs=53.2
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHHHHh--cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhc-ccchhhHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYFVQK--SAFFPYRWVL----MQFGSFIILCGLTHFISLWTF-TVHSKAVAVVMTIA 90 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f~~~--~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~-~~~~~~~~~~~~~~ 90 (517)
...|++|-++.|.-|-.-+. ..|.-.. -+|.++.|.+ ...+.+.++|-.-|.+-..-+ .+. .+..|..|++
T Consensus 41 ~~~qiiTG~~L~~~Y~p~~~-~a~~Sv~~i~~~v~~G~~iR~~H~~gas~~~~~~~~H~~r~~~~gsy~-~~~~W~~G~~ 118 (379)
T MTH00100 41 LILQILTGLFLAMHYTSDTT-TAFSSVAHICRDVNYGWIIRYLHANGASMFFICLFLHVGRGLYYGSYL-FLETWNIGII 118 (379)
T ss_pred HHHHHHHHHHHHHHHcCChh-hHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccc-CchHHHHHHH
Confidence 45688888888877766542 3333222 2688887776 556778888888888776432 111 2346888887
Q ss_pred HHHHHHHHHHHHHHH
Q 010147 91 KMACAFVSCITALML 105 (517)
Q Consensus 91 ~~~ta~vs~~~a~~l 105 (517)
-.+..+....+.+.+
T Consensus 119 l~~l~~~~af~Gy~L 133 (379)
T MTH00100 119 LLFTVMATAFMGYVL 133 (379)
T ss_pred HHHHHHHHHHHHhcc
Confidence 665555444444443
No 167
>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=28.87 E-value=2.5e+02 Score=26.01 Aligned_cols=54 Identities=24% Similarity=0.254 Sum_probs=34.7
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHHHHhcCC-CchHHHHHHHH----HHHHHhhhHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYFVQKSAF-FPYRWVLMQFG----SFIILCGLTHFI 71 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~-~~~~~~~~~~~----~fi~~cg~~h~~ 71 (517)
..-++.|..+...++|.|.+.+++++-++|. +-...++++++ ..+.+||..--+
T Consensus 56 ~ia~~~ss~~~~~~l~~~slsll~gvI~~r~~~l~pfl~~Qi~D~~~cll~~~g~yie~ 114 (258)
T TIGR00799 56 RIADLYSSFLLINALFIISVSLLMGVVKNREKYLYPFLSLQIMDFLLCLLTLLGSYIEL 114 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceeeHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 4456777788888889999999999766643 22333355444 445566655443
No 168
>cd04789 HTH_Cfa Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator. Putative helix-turn-helix (HTH) MerR-like transcription regulator; the N-terminal domain of Cfa, a cyclopropane fatty acid synthase and other related methyltransferases. Based on sequence similarity, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=28.81 E-value=1.4e+02 Score=23.62 Aligned_cols=20 Identities=20% Similarity=0.403 Sum_probs=15.4
Q ss_pred CCCCccccchhHHHHHHHHH
Q 010147 283 DGGRKWRDHELELIDVVADQ 302 (517)
Q Consensus 283 ~~~~~~~~~e~~ll~~va~q 302 (517)
.+.|.|++++++.+..+...
T Consensus 34 ~g~R~Y~~~~l~~l~~I~~l 53 (102)
T cd04789 34 NGYRLYPDSDLQRLLLIQQL 53 (102)
T ss_pred CCCeeCCHHHHHHHHHHHHH
Confidence 45688999999988876644
No 169
>PRK10209 acid-resistance membrane protein; Provisional
Probab=28.80 E-value=4.3e+02 Score=23.69 Aligned_cols=27 Identities=7% Similarity=0.092 Sum_probs=16.7
Q ss_pred hHHHHHHHHHHHHHhhhHHHHHHhhcc
Q 010147 51 YRWVLMQFGSFIILCGLTHFISLWTFT 77 (517)
Q Consensus 51 ~~~~~~~~~~fi~~cg~~h~~~~~~~~ 77 (517)
...+.+++|.+.+.-|...+...+..+
T Consensus 104 ~~~l~~l~g~~~iv~Gi~~i~~a~~~~ 130 (190)
T PRK10209 104 MFSLAAFIAGLFCVGGIIRLMSGYKQR 130 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 333445577777777777776665543
No 170
>CHL00070 petB cytochrome b6
Probab=28.59 E-value=2.9e+02 Score=25.47 Aligned_cols=79 Identities=11% Similarity=0.161 Sum_probs=46.9
Q ss_pred HHHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhc--ccchhhHHHHHH
Q 010147 17 LVRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTF--TVHSKAVAVVMT 88 (517)
Q Consensus 17 ~~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~--~~~~~~~~~~~~ 88 (517)
+...|++|-++-+.-|-.-+- -.|. +.. .++.||.|.+ ...+.+.++|-.-|.+-..-+ +-+.....|..|
T Consensus 43 ~~~iqiiTGi~L~~~Y~p~~~-~Af~Sv~~I~~ev~~Gwl~R~~H~~gas~~~~~~~lH~~r~~~~gsYk~pre~~W~~G 121 (215)
T CHL00070 43 CFLVQVATGFAMTFYYRPTVT-EAFASVQYIMTEVNFGWLIRSVHRWSASMMVLMMILHVFRVYLTGGFKKPRELTWVTG 121 (215)
T ss_pred HHHHHHHHHHHHHHHHcCChH-HHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcccCcHHH
Confidence 346678888877766654321 2222 111 2577888877 567889999999999776432 111123457787
Q ss_pred HHHHHHHH
Q 010147 89 IAKMACAF 96 (517)
Q Consensus 89 ~~~~~ta~ 96 (517)
++-.+..+
T Consensus 122 v~l~~l~m 129 (215)
T CHL00070 122 VVLAVLTV 129 (215)
T ss_pred HHHHHHHH
Confidence 77554443
No 171
>TIGR02978 phageshock_pspC phage shock protein C. All members of this protein family are the phage shock protein PspC. These proteins contain a PspC domain, as do other members of the larger family of proteins described by Pfam model pfam04024. The phage shock regulon is restricted to the Proteobacteria and somewhat sparsely distributed there. It is expressed, under positive control of a sigma-54-dependent transcription factor, PspF, which binds and is modulated by PspA. Stresses that induce the psp regulon include phage secretin overexpression, ethanol, heat shock, and protein export defects.
Probab=28.55 E-value=3.4e+02 Score=22.45 Aligned_cols=7 Identities=14% Similarity=0.235 Sum_probs=3.2
Q ss_pred HHHhhhh
Q 010147 105 LVHIIPD 111 (517)
Q Consensus 105 l~~l~p~ 111 (517)
+|.++|.
T Consensus 54 ~w~~lp~ 60 (121)
T TIGR02978 54 LWLLLDK 60 (121)
T ss_pred HHHHHhc
Confidence 4444444
No 172
>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=28.25 E-value=1.1e+02 Score=30.06 Aligned_cols=24 Identities=29% Similarity=0.355 Sum_probs=17.7
Q ss_pred hhhHHHHHHHHhHHHHHHHHHHhc
Q 010147 23 ISDILIALAYFSIPVELIYFVQKS 46 (517)
Q Consensus 23 ~~~~~ia~ay~~i~~~l~~f~~~~ 46 (517)
++|+++++..+.+...+++.+++.
T Consensus 25 vgdi~~~~~il~ll~~~~~~~~~~ 48 (318)
T PF12725_consen 25 VGDILYYLLILFLLYYLIRLIRKI 48 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 678888888777777777776544
No 173
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=28.24 E-value=2.2e+02 Score=28.63 Aligned_cols=45 Identities=18% Similarity=0.206 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Q 010147 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKS 388 (517)
Q Consensus 344 ~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~ 388 (517)
..++-..+...+||-.....++++.+.+-.+.++..+.+....+.
T Consensus 248 L~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~ 292 (400)
T COG3071 248 LKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKR 292 (400)
T ss_pred HHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHh
Confidence 446778888899996666778888887766666665555444433
No 174
>TIGR00219 mreC rod shape-determining protein MreC. MreC (murein formation C) is involved in the rod shape determination in E. coli, and more generally in cell shape determination of bacteria whether or not they are rod-shaped. Cells defective in MreC are round. Species with MreC include many of the Proteobacteria, Gram-positives, and spirochetes.
Probab=27.97 E-value=3.7e+02 Score=25.97 Aligned_cols=16 Identities=13% Similarity=0.387 Sum_probs=6.6
Q ss_pred HHHHHHHHHHHHHHHH
Q 010147 311 AILEDSMRARNQLMEQ 326 (517)
Q Consensus 311 ~l~~~~~~~~~~l~~~ 326 (517)
.+++|.++.++++.+.
T Consensus 70 ~l~~EN~~Lr~e~~~l 85 (283)
T TIGR00219 70 NLEYENYKLRQELLKK 85 (283)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3444444444444333
No 175
>COG3074 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=27.97 E-value=2.4e+02 Score=20.54 Aligned_cols=20 Identities=20% Similarity=0.403 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 010147 294 ELIDVVADQVAVALSHAAIL 313 (517)
Q Consensus 294 ~ll~~va~qva~al~~a~l~ 313 (517)
++++.+-..+--|++...++
T Consensus 4 Ev~ekLE~KiqqAvdTI~LL 23 (79)
T COG3074 4 EVFEKLEAKVQQAIDTITLL 23 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44555555566666555544
No 176
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.73 E-value=1.2e+02 Score=29.07 Aligned_cols=31 Identities=16% Similarity=0.263 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 309 HAAILEDSMRARNQLMEQNVALDSARREAEK 339 (517)
Q Consensus 309 ~a~l~~~~~~~~~~l~~~~~~l~~~~~~~~~ 339 (517)
.+...+++++.+++|+++.+||++.++++..
T Consensus 62 ~~~kq~eL~~rqeEL~Rke~ELdRREr~~a~ 92 (313)
T KOG3088|consen 62 LAKKQAELLKKQEELRRKEQELDRRERALAR 92 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhh
Confidence 3444566777777788888888777766655
No 177
>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=27.64 E-value=2.9e+02 Score=29.47 Aligned_cols=18 Identities=33% Similarity=0.576 Sum_probs=14.5
Q ss_pred HHHHHhHHHHHHHHHHhc
Q 010147 29 ALAYFSIPVELIYFVQKS 46 (517)
Q Consensus 29 a~ay~~i~~~l~~f~~~~ 46 (517)
-+++|+||.+.++|...-
T Consensus 158 ~l~~~~ip~~~gff~l~~ 175 (952)
T TIGR02921 158 LLAFFAIPAAAGFFELLE 175 (952)
T ss_pred HHHHHhhhHHhHHHHHHH
Confidence 468999999999996543
No 178
>COG3556 Predicted membrane protein [Function unknown]
Probab=27.53 E-value=3.7e+02 Score=22.47 Aligned_cols=67 Identities=15% Similarity=0.083 Sum_probs=43.8
Q ss_pred HHHhcCCCc---------hHHHHHHHHHHHHHhhhHHHHHH---hhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 010147 42 FVQKSAFFP---------YRWVLMQFGSFIILCGLTHFISL---WTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHII 109 (517)
Q Consensus 42 f~~~~~~~~---------~~~~~~~~~~fi~~cg~~h~~~~---~~~~~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~l~ 109 (517)
++.-|.|+| ...++.+.++-++..|+..++=. +.|+++ .|..|..--.-.+.+++|+...+.+....
T Consensus 26 ~vllr~dl~~e~~krLa~~D~~YGl~A~aVlisGi~rv~~~~KG~dfYv~-n~~F~aKmglFvlvgLlSi~PTv~fl~W~ 104 (150)
T COG3556 26 AVLLRGDLPLETLKRLAIIDRVYGLSASAVLISGIARVFWSGKGVDFYVH-NWMFHAKMGLFVLVGLLSIIPTVRFLSWN 104 (150)
T ss_pred HhhhCCCCCHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccceeEEEe-chHHHHHHHHHHHHHHHhccchhHHHHHH
Confidence 345566765 55667888888888887776543 345444 36666665666778888888776555443
No 179
>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=26.45 E-value=44 Score=36.38 Aligned_cols=49 Identities=24% Similarity=0.246 Sum_probs=33.6
Q ss_pred cHHHHHHHHHHHHHHHhhcCCCC-eEEEEEEEcCCCccccCCCCCCCCCC
Q 010147 456 DEKRLMQTILNIVGNAVKFTKEG-YVSIIASVAKPESLSDWRPPEFYPVS 504 (517)
Q Consensus 456 D~~~l~qvl~NLl~NAik~~~~g-~i~i~~~~~~~~~~~~~~~~~~~~~~ 504 (517)
|+.-|.+++..++.||++-.-.| .-.|.+....++.+.++++|.|+|+.
T Consensus 31 ~~~GL~hlv~EIvdNavDE~~ag~~~~I~V~i~~dgsitV~DnGrGIPv~ 80 (637)
T TIGR01058 31 DSKGLHHLVWEIVDNSVDEVLAGYADNITVTLHKDNSITVQDDGRGIPTG 80 (637)
T ss_pred CcchhheehhhhhcchhhhhhcCCCcEEEEEEcCCCeEEEEECCCcccCc
Confidence 56678888899999999843222 22344444456678888999888864
No 180
>MTH00033 CYTB cytochrome b; Provisional
Probab=26.37 E-value=4.3e+02 Score=26.80 Aligned_cols=84 Identities=15% Similarity=0.222 Sum_probs=51.2
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~~~ 92 (517)
...|++|-++.|.-|-.-+..-..-+.. -+|.++.|.+ ...+.+.++|-.-|..-..-+--......|..|++-.
T Consensus 38 ~~~qiiTGi~La~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gAs~~f~~~ylHi~R~~~~gsY~r~~~W~~Gv~ll 117 (383)
T MTH00033 38 LGIQILTGVLLAMHYRSDVSLAFSSVAHIVRDVNYGWILRYVHANGASLFFICVYCHIGRGLYYGGYSRVLTWIVGVLIF 117 (383)
T ss_pred HHHHHHHHHHHHhhhcCCCcchHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccChHHHHHhHHHH
Confidence 3568889888888776533211111221 2577887776 5678889999889987764331112355788877755
Q ss_pred HHHHHHHHH
Q 010147 93 ACAFVSCIT 101 (517)
Q Consensus 93 ~ta~vs~~~ 101 (517)
+..+....+
T Consensus 118 ~l~m~~aF~ 126 (383)
T MTH00033 118 FIMMLTAFI 126 (383)
T ss_pred HHHHHHHHh
Confidence 555443333
No 181
>PF13633 N_methyl_3: Prokaryotic N-terminal methylation site
Probab=26.33 E-value=76 Score=17.52 Aligned_cols=17 Identities=35% Similarity=0.485 Sum_probs=12.6
Q ss_pred hHHHHHHHHhHHHHHHH
Q 010147 25 DILIALAYFSIPVELIY 41 (517)
Q Consensus 25 ~~~ia~ay~~i~~~l~~ 41 (517)
+.+||++.++|-....|
T Consensus 5 EvlIa~~i~~i~~~g~~ 21 (22)
T PF13633_consen 5 EVLIAIAILGILALGAY 21 (22)
T ss_pred HHHHHHHHHHHHHHhhC
Confidence 56788888888776654
No 182
>PRK04949 putative sulfate transport protein CysZ; Validated
Probab=25.96 E-value=3.9e+02 Score=25.29 Aligned_cols=44 Identities=0% Similarity=-0.015 Sum_probs=25.0
Q ss_pred HHhhcccchhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccccC
Q 010147 72 SLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHIIPDLLSVK 116 (517)
Q Consensus 72 ~~~~~~~~~~~~~~~~~~~~~~ta~vs~~~a~~l~~l~p~~l~l~ 116 (517)
+-++-|.|+ |..|+..+...+.++......+.++..+...+..|
T Consensus 57 ~~l~~~~p~-wl~wl~~ll~~l~~l~~l~l~~~lf~~v~~~IaaP 100 (251)
T PRK04949 57 DWLMSQLPD-WLSWLSYLLWPLAVLSVLLVFSFFFSTLANFIAAP 100 (251)
T ss_pred HHHHhcCcc-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334445665 45667766666666655555555555555555544
No 183
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=25.77 E-value=4.7e+02 Score=23.19 Aligned_cols=21 Identities=19% Similarity=0.550 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHhhhHHHHHH
Q 010147 53 WVLMQFGSFIILCGLTHFISL 73 (517)
Q Consensus 53 ~~~~~~~~fi~~cg~~h~~~~ 73 (517)
.+++..|..++++|++-+...
T Consensus 9 i~~iilgilli~~gI~~Lv~~ 29 (191)
T PF04156_consen 9 IILIILGILLIASGIAALVLF 29 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 445556666677776664333
No 184
>PRK09458 pspB phage shock protein B; Provisional
Probab=25.68 E-value=2.8e+02 Score=20.73 Aligned_cols=20 Identities=10% Similarity=-0.044 Sum_probs=8.2
Q ss_pred HHHHHHHHHHHhHHHHhHHH
Q 010147 127 DELDREMGLILTQEETGRHV 146 (517)
Q Consensus 127 ~~l~~~~~~l~~~~~~~~~l 146 (517)
++|+...+..++-+++.+.+
T Consensus 42 ~~L~~L~~~A~rm~~RI~tL 61 (75)
T PRK09458 42 QRLAQLTEKAERMRERIQAL 61 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444443333
No 185
>PF05961 Chordopox_A13L: Chordopoxvirus A13L protein; InterPro: IPR009236 This family consists of A13L proteins from the Chordopoxviruses. A13L or p8 is one of the three most abundant membrane proteins of the intracellular mature Vaccinia virus [].
Probab=25.62 E-value=1e+02 Score=22.31 Aligned_cols=26 Identities=15% Similarity=0.290 Sum_probs=22.0
Q ss_pred HhhhHHHHHHHHhHHHHHHHHHHhcC
Q 010147 22 YISDILIALAYFSIPVELIYFVQKSA 47 (517)
Q Consensus 22 ~~~~~~ia~ay~~i~~~l~~f~~~~~ 47 (517)
+++|++..+-|.+|-..++|.+..|+
T Consensus 1 MI~d~iLi~ICVaii~lIlY~iYnr~ 26 (68)
T PF05961_consen 1 MIGDFILIIICVAIIGLILYGIYNRK 26 (68)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 46888888999999999999998763
No 186
>PF04341 DUF485: Protein of unknown function, DUF485; InterPro: IPR007436 This family includes several putative integral membrane proteins.
Probab=25.59 E-value=2.1e+02 Score=22.18 Aligned_cols=7 Identities=29% Similarity=0.928 Sum_probs=2.7
Q ss_pred HHHHhhh
Q 010147 61 FIILCGL 67 (517)
Q Consensus 61 fi~~cg~ 67 (517)
|+++.|.
T Consensus 32 ~~ll~a~ 38 (91)
T PF04341_consen 32 FVLLSAF 38 (91)
T ss_pred HHHHHHH
Confidence 3333333
No 187
>PF06181 DUF989: Protein of unknown function (DUF989); InterPro: IPR010389 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=25.14 E-value=2.8e+02 Score=26.69 Aligned_cols=43 Identities=21% Similarity=0.541 Sum_probs=23.7
Q ss_pred HHHhHHHHHHHHHHhcCCC---chHHHHHHHHHHHHHhhhHHHHHHh
Q 010147 31 AYFSIPVELIYFVQKSAFF---PYRWVLMQFGSFIILCGLTHFISLW 74 (517)
Q Consensus 31 ay~~i~~~l~~f~~~~~~~---~~~~~~~~~~~fi~~cg~~h~~~~~ 74 (517)
-|||+|+.+.-.-...+.. ++.|+++ ...++.-.-..|.+..-
T Consensus 229 ~ylTlPvLf~MiSnHyp~~y~~~~nWlil-~li~~~g~~IRhfFn~r 274 (300)
T PF06181_consen 229 NYLTLPVLFLMISNHYPMTYGHPYNWLIL-ALIMLAGALIRHFFNLR 274 (300)
T ss_pred ceeHHHHHHHHHhccCccccccchhHHHH-HHHHHHHHHHHHHHHHh
Confidence 4899997666532222321 4777655 33444444456776654
No 188
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=25.10 E-value=6e+02 Score=24.18 Aligned_cols=21 Identities=14% Similarity=0.189 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHhHHHHhHH
Q 010147 125 RADELDREMGLILTQEETGRH 145 (517)
Q Consensus 125 ~~~~l~~~~~~l~~~~~~~~~ 145 (517)
.+.+|+++..+++.+..+++.
T Consensus 77 en~~L~~e~~~l~~~~~~~~~ 97 (276)
T PRK13922 77 ENEELKKELLELESRLQELEQ 97 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345555555555555444433
No 189
>cd04775 HTH_Cfa-like Helix-Turn-Helix DNA binding domain of Cfa-like transcription regulators. Putative helix-turn-helix (HTH) MerR-like transcription regulators; the HTH domain of Cfa, a cyclopropane fatty acid synthase, and other related methyltransferases, as well as, the N-terminal domain of a conserved, uncharacterized ~172 a.a. protein. Based on sequence similarity of the N-terminal domain, these proteins are predicted to function as transcription regulators that mediate responses to stress in eubacteria. They belong to the MerR superfamily of transcription regulators that promote transcription of various stress regulons by reconfiguring the operator sequence located between the -35 and -10 promoter elements. A typical MerR regulator is comprised of distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimil
Probab=25.09 E-value=2.1e+02 Score=22.62 Aligned_cols=19 Identities=11% Similarity=0.184 Sum_probs=14.9
Q ss_pred CCCccccchhHHHHHHHHH
Q 010147 284 GGRKWRDHELELIDVVADQ 302 (517)
Q Consensus 284 ~~~~~~~~e~~ll~~va~q 302 (517)
+.|.|+.+++..+..+...
T Consensus 35 g~R~Y~~~dl~~l~~I~~l 53 (102)
T cd04775 35 NYRLYSEADLSRLEKIVFL 53 (102)
T ss_pred CCeeeCHHHHHHHHHHHHH
Confidence 4578999999988877654
No 190
>PF10225 DUF2215: Uncharacterized conserved protein (DUF2215); InterPro: IPR024233 This entry represents a domain that is found in a number of different proteins, including a family of transmembrane proteins.
Probab=25.01 E-value=5.9e+02 Score=24.04 Aligned_cols=42 Identities=19% Similarity=0.218 Sum_probs=23.5
Q ss_pred HHHHHhHHHHHHHHHHhcCCCc--------hHHHHHHHHHHHHHhhhHHH
Q 010147 29 ALAYFSIPVELIYFVQKSAFFP--------YRWVLMQFGSFIILCGLTHF 70 (517)
Q Consensus 29 a~ay~~i~~~l~~f~~~~~~~~--------~~~~~~~~~~fi~~cg~~h~ 70 (517)
.+.|+.+-..+..++-.+.+-| ..|.+-++|...+.+|..|-
T Consensus 100 v~~yv~~~G~vsf~vcy~~gp~~~~rs~~~v~W~Lqligl~lI~~ss~~~ 149 (249)
T PF10225_consen 100 VLGYVLVVGLVSFAVCYRYGPPVDPRSRNFVKWALQLIGLVLIYFSSQDP 149 (249)
T ss_pred HHHHHHHHHHHHHHhhcccCCCccHhHHHHHHHHHHHHHHHHHHHHcCcH
Confidence 3455555555555554444322 66777777777666665444
No 191
>MTH00053 CYTB cytochrome b; Provisional
Probab=24.88 E-value=4.9e+02 Score=26.38 Aligned_cols=84 Identities=17% Similarity=0.219 Sum_probs=50.5
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAK 91 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~~ 91 (517)
...|++|-++.|.-|-.-+. ..|- +.. -+|.++.|.+ ...+.++++|-.-|..-..-+--.-....|..|++-
T Consensus 42 ~~~qiiTGi~L~~~Y~p~~~-~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~ylHi~R~~~~gsy~~~~~W~~Gv~l 120 (381)
T MTH00053 42 LIIQIITGIFLAMHYCADVN-LAFSSVAHITRDVNYGFILRYLHANGASMFFLCVYFHIGRGIYYGSYTKIIVWNVGVLI 120 (381)
T ss_pred HHHHHHHHHHHHheccCChH-HHHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCchHHHhhHHH
Confidence 45588888877776655432 2222 222 3678887777 557788889988898776432111124568887775
Q ss_pred HHHHHHHHHHH
Q 010147 92 MACAFVSCITA 102 (517)
Q Consensus 92 ~~ta~vs~~~a 102 (517)
.+..+....+.
T Consensus 121 ~~l~m~~af~G 131 (381)
T MTH00053 121 FLLMILTAFIG 131 (381)
T ss_pred HHHHHHHHHHH
Confidence 55554433333
No 192
>MTH00086 CYTB cytochrome b; Provisional
Probab=24.72 E-value=5.1e+02 Score=25.97 Aligned_cols=81 Identities=10% Similarity=0.164 Sum_probs=49.0
Q ss_pred HHHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHH
Q 010147 17 LVRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIA 90 (517)
Q Consensus 17 ~~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~ 90 (517)
.+..|++|-++-|.-|-.-+ ...|- +.. -+|.++.|.+ ...+.+.++|-.-|..-..-+--...+..|.+|++
T Consensus 29 ~l~iQiiTGi~L~~~Y~p~~-~~Af~Sv~~I~~~v~~GwliR~~H~~gas~~f~~~ylHi~R~~~ygsy~~~~~W~~Gv~ 107 (355)
T MTH00086 29 VLVFQILTGTFLAFYYTADS-SMAFSSVQYIMYEVNFGWLFRIFHFNGASLFFIFLYLHIFKGLFMMSYRLKKVWISGLT 107 (355)
T ss_pred HHHHHHHHHHHHHhhhcCCc-hhHHHHHHHHhCcccccHHHHHHHHhHHHHHHHHHHHHHHHHHHHcccCCchHHHHhHH
Confidence 34668888888887776433 22222 222 2678877776 55688888888888876643211112446888777
Q ss_pred HHHHHHHH
Q 010147 91 KMACAFVS 98 (517)
Q Consensus 91 ~~~ta~vs 98 (517)
-.+..+..
T Consensus 108 l~~l~m~~ 115 (355)
T MTH00086 108 IYLLVMME 115 (355)
T ss_pred HHHHHHHH
Confidence 55444433
No 193
>TIGR02209 ftsL_broad cell division protein FtsL. This model represents FtsL, both forms similar to that in E. coli and similar to that in B. subtilis. FtsL is one of the later proteins active in cell division septum formation. FtsL is small, low in complexity, and highly divergent. The scope of this model is broader than that of the Pfam model pfam04999.3 for FtsL, as this one includes FtsL from Bacillus subtilis and related species.
Probab=24.58 E-value=3.1e+02 Score=20.60 Aligned_cols=23 Identities=22% Similarity=0.130 Sum_probs=11.0
Q ss_pred HHHHHHHcccCHHHHHHHHHHHH
Q 010147 148 MLTHEIRSTLDRHTILKTTLVEL 170 (517)
Q Consensus 148 ~l~~~i~~s~d~~~il~~~~~~l 170 (517)
++-.++....+++.|-+.+.+.+
T Consensus 49 ~L~~ei~~l~~~~rIe~~Ar~~l 71 (85)
T TIGR02209 49 DLQLEVAELSRHERIEKIAKKQL 71 (85)
T ss_pred HHHHHHHHHcCHHHHHHHHHHhc
Confidence 33344444455555555444443
No 194
>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=24.49 E-value=7.3e+02 Score=27.06 Aligned_cols=54 Identities=20% Similarity=0.371 Sum_probs=30.2
Q ss_pred HHHHhhhHHHHHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhhHHHHHH
Q 010147 19 RYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISL 73 (517)
Q Consensus 19 ~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~ 73 (517)
.++.=+++-=++|+.-+|+.+.+.....+.=..+++.+ .+...-+-+.||++..
T Consensus 70 ~~y~rgni~e~lA~~llPlvll~~~~~~~~~~~r~~~~-lAl~~all~lsHll~~ 123 (616)
T PF10131_consen 70 NIYWRGNIPETLAFALLPLVLLFLYRFIKKRKYRYWIL-LALSMALLALSHLLST 123 (616)
T ss_pred HHHhcchHHHHHHHHHHHHHHHHHHHHHhcCCchhHHH-HHHHHHHHHHHhHHHH
Confidence 44555777778899999998755443221112455444 3333444556785443
No 195
>PHA03049 IMV membrane protein; Provisional
Probab=24.49 E-value=1.1e+02 Score=22.03 Aligned_cols=26 Identities=19% Similarity=0.321 Sum_probs=21.8
Q ss_pred HhhhHHHHHHHHhHHHHHHHHHHhcC
Q 010147 22 YISDILIALAYFSIPVELIYFVQKSA 47 (517)
Q Consensus 22 ~~~~~~ia~ay~~i~~~l~~f~~~~~ 47 (517)
+++|++.-+-|.+|-..++|-+.+|+
T Consensus 1 MI~d~~l~iICVaIi~lIvYgiYnkk 26 (68)
T PHA03049 1 MIGDIILVIICVVIIGLIVYGIYNKK 26 (68)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 46888888889999999999998774
No 196
>PF14936 p53-inducible11: Tumour protein p53-inducible protein 11
Probab=23.84 E-value=5e+02 Score=22.81 Aligned_cols=15 Identities=20% Similarity=0.100 Sum_probs=6.4
Q ss_pred HHHHHhHHHHHHHHH
Q 010147 29 ALAYFSIPVELIYFV 43 (517)
Q Consensus 29 a~ay~~i~~~l~~f~ 43 (517)
+.|.+|+.+.+.+.+
T Consensus 98 GgAL~s~aLi~w~~l 112 (179)
T PF14936_consen 98 GGALLSIALIFWNAL 112 (179)
T ss_pred hHHHHHHHHHHHHHH
Confidence 344444444333333
No 197
>MTH00016 CYTB cytochrome b; Validated
Probab=23.56 E-value=4.7e+02 Score=26.50 Aligned_cols=80 Identities=15% Similarity=0.213 Sum_probs=48.5
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAK 91 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~~ 91 (517)
...|++|-++.|.-|-.-+. ..|- +.. .+|.++.|.+ ...+.+.++|-.-|+.-..-+--.-.+..|.+|++-
T Consensus 42 ~~~qiitG~~L~~~Y~p~~~-~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~ylHi~R~~~~gsy~~~~~W~~Gv~l 120 (378)
T MTH00016 42 LVIQILTGLFLSMHYTPHID-LAFSSVAHISRDVNYGWLLRNLHANGASFFFICLYLHIGRGIYYGSYFLMETWNIGVIL 120 (378)
T ss_pred HHHHHHHHHHHHhhhcCCcc-hhHHHHHHHHccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHhhHHH
Confidence 35588888888877775432 2222 111 3677877776 556888888988898776432111123468887775
Q ss_pred HHHHHHH
Q 010147 92 MACAFVS 98 (517)
Q Consensus 92 ~~ta~vs 98 (517)
.+..+..
T Consensus 121 ~~l~m~~ 127 (378)
T MTH00016 121 LLLTMAT 127 (378)
T ss_pred HHHHHHH
Confidence 5544433
No 198
>COG5232 SEC62 Preprotein translocase subunit Sec62 [Intracellular trafficking and secretion]
Probab=23.46 E-value=1.1e+02 Score=27.67 Aligned_cols=52 Identities=13% Similarity=0.246 Sum_probs=29.0
Q ss_pred hHHHHHHHHhHHHHHHHH------HHhcCCCchHHHHHHHHHHHHHhhhHHHHHHhhc
Q 010147 25 DILIALAYFSIPVELIYF------VQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTF 76 (517)
Q Consensus 25 ~~~ia~ay~~i~~~l~~f------~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~~~~ 76 (517)
|.+++..+.+|-++|+.| +++...+---..+..++.|+++..+..++...|+
T Consensus 151 ~~~l~~~fvlv~lalVlfplWPr~mr~g~~Y~s~g~~G~i~~ffvlaIlRliLf~it~ 208 (259)
T COG5232 151 SLVLCGVFVLVTLALVLFPLWPRNMRQGLFYMSYGLGGFITFFFVLAILRLILFSITY 208 (259)
T ss_pred hhhHHHHHHHHHHHHHHHhcCchHhhcCeeeeeeccchHHHHHHHHHHHHHHHHHhhh
Confidence 344566666666666665 3333333333344555666666666666666654
No 199
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=23.25 E-value=5.7e+02 Score=23.20 Aligned_cols=96 Identities=15% Similarity=0.149 Sum_probs=42.8
Q ss_pred HHHHhhhHHHHHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhhHHHHHHhhcc--cchhhHHHHHHHHHHHHHH
Q 010147 19 RYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFT--VHSKAVAVVMTIAKMACAF 96 (517)
Q Consensus 19 ~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~~~~~--~~~~~~~~~~~~~~~~ta~ 96 (517)
|+..+-.++..++.|++-..+.-|........+..+.++..+.+.-.++.- +.-+... -+.....|...+.-.+.++
T Consensus 79 ~~~~ld~~L~~~~if~~~~gi~~~f~~~~~~~~gi~tli~~~i~~G~~~~~-~~~~i~~~~~~~~r~~~~k~~~~~~~~~ 157 (206)
T PF06570_consen 79 WLMALDNSLLFFGIFSLLFGIMGFFSPKNSNQYGIITLILVSIVGGLVFYF-IFKYIYPYKKKKKRPSWWKYILISVLAM 157 (206)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHHHHHHH-HHHHHhcccccccccHHHHHHHHHHHHH
Confidence 444444456667777766666665555322223334333222222121111 1111111 0111222223334444555
Q ss_pred HHHHHHHHHHHhhhhcccc
Q 010147 97 VSCITALMLVHIIPDLLSV 115 (517)
Q Consensus 97 vs~~~a~~l~~l~p~~l~l 115 (517)
+.+..++.+..++|..+..
T Consensus 158 ~~w~~~~~~~~~lp~~inp 176 (206)
T PF06570_consen 158 VLWIVIFVLTSFLPPVINP 176 (206)
T ss_pred HHHHHHHHHHHHccccCCc
Confidence 6666666666777877654
No 200
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=23.22 E-value=5.5e+02 Score=23.09 Aligned_cols=29 Identities=17% Similarity=0.043 Sum_probs=15.9
Q ss_pred HHHHhhhHHHHHHHHhHHHHHHHHHHhcCC
Q 010147 19 RYQYISDILIALAYFSIPVELIYFVQKSAF 48 (517)
Q Consensus 19 ~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~ 48 (517)
+..+++.+++.++.|.+-+.-+= +.|-||
T Consensus 4 i~eiI~~vLLliG~~f~ligaIG-LlRfPD 32 (197)
T PRK12585 4 IIEIIISIMILIGGLLSILAAIG-VIRLPD 32 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHhcCc
Confidence 34667777777666655443322 344455
No 201
>PF15086 UPF0542: Uncharacterised protein family UPF0542
Probab=23.21 E-value=3.1e+02 Score=20.24 Aligned_cols=20 Identities=10% Similarity=0.117 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHhHHHHhHH
Q 010147 126 ADELDREMGLILTQEETGRH 145 (517)
Q Consensus 126 ~~~l~~~~~~l~~~~~~~~~ 145 (517)
+.+++++..+.++++.+...
T Consensus 45 aK~ie~~ere~K~k~Kr~~~ 64 (74)
T PF15086_consen 45 AKAIEKEEREKKKKAKRQAN 64 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44455544444555444433
No 202
>KOG1772 consensus Vacuolar H+-ATPase V1 sector, subunit G [Energy production and conversion]
Probab=23.20 E-value=4e+02 Score=21.39 Aligned_cols=68 Identities=19% Similarity=0.203 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHH-HHHHHHHHHHH
Q 010147 334 RREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNL-LTTLVDDVLDL 402 (517)
Q Consensus 334 ~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~~~~~~~~~~~l~~i~~~~~r-l~~li~~ll~~ 402 (517)
++.-+++.....++...--+|++.-....+|...-+... ...+.+.-+..+..++.+ ....|+.||.+
T Consensus 34 KQAKeEA~~Eie~yr~qrE~efk~ke~~~~G~~~~~~~~-~e~~t~~ki~~lk~~~~k~~~~Vv~~LL~~ 102 (108)
T KOG1772|consen 34 KQAKEEAEKEIEEYRSQREKEFKEKESAASGSQGALEKR-LEQETDDKIAGLKTSAQKNSDDVVDMLLKY 102 (108)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchhhHHH-HHHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence 333344555678888888999999999988877766543 233444556666665554 45566666654
No 203
>PRK03735 cytochrome b6; Provisional
Probab=23.10 E-value=2.9e+02 Score=25.62 Aligned_cols=86 Identities=13% Similarity=0.151 Sum_probs=49.7
Q ss_pred HHHHHHhhhHHHHHHHHhHHHHHHHH-HHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhc--ccchhhHHHHHH
Q 010147 17 LVRYQYISDILIALAYFSIPVELIYF-VQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTF--TVHSKAVAVVMT 88 (517)
Q Consensus 17 ~~~~~~~~~~~ia~ay~~i~~~l~~f-~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~--~~~~~~~~~~~~ 88 (517)
+..+|++|-++.+.-|---+. -.|- +.. -++.||.|.+ ...+.+.++|-.-|.+-..-+ +-+.....|..|
T Consensus 51 ~~~iqi~TGi~L~~~Y~P~~~-~A~~Sv~~I~~ev~~GwliR~~H~~gas~~~~~~~lH~~r~~~~gsYk~pre~~W~~G 129 (223)
T PRK03735 51 CFVIQILSGMFLTMYYVPDIK-NAYESVYYLQNEVAFGWIVRGMHHWGASLVIVMMFLHTLRVFFTGGYKKPRELNWVVG 129 (223)
T ss_pred HHHHHHHHHHHHHHHHCCCch-hHHHHHHHHHcccccHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHcCCCCceeHHH
Confidence 456788888877765543221 1221 111 2577888877 567888999989999776432 111123457787
Q ss_pred HHHHHHHHHHHHHHH
Q 010147 89 IAKMACAFVSCITAL 103 (517)
Q Consensus 89 ~~~~~ta~vs~~~a~ 103 (517)
++-.+..+....+.+
T Consensus 130 v~l~~l~~~~af~GY 144 (223)
T PRK03735 130 VLIFFVTVGLGFTGY 144 (223)
T ss_pred HHHHHHHHHHHhccc
Confidence 775555544433333
No 204
>KOG2736 consensus Presenilin [Signal transduction mechanisms]
Probab=22.90 E-value=1.7e+02 Score=29.18 Aligned_cols=52 Identities=13% Similarity=0.242 Sum_probs=40.4
Q ss_pred HHHHhhhHHHHHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHhhhHHH
Q 010147 19 RYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHF 70 (517)
Q Consensus 19 ~~~~~~~~~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~ 70 (517)
.++-+.+.+|-++....-..++.++.+.+.+-|-+.++.+++|+++.+++-.
T Consensus 66 ~l~sl~N~li~i~viv~~Tfllv~ly~~rfyk~ik~wl~~Ss~llLf~~s~~ 117 (406)
T KOG2736|consen 66 LLDSLLNALIMISVIVVMTFLLVVLYKYRFYKFIKAWLILSSLLLLFLFSGI 117 (406)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5577888888888887777777777777776788888888998887776654
No 205
>PF06946 Phage_holin_5: Phage holin; InterPro: IPR009708 This entry represents the Bacteriophage A118, holin protein. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. It is thought that the temporal precision of holin-mediated lysis may occur through the build-up of a holin oligomer which causes the lysis [].
Probab=22.80 E-value=3.8e+02 Score=20.99 Aligned_cols=32 Identities=22% Similarity=0.617 Sum_probs=18.5
Q ss_pred hHHHHHHHHhHHHH-HHHHHHhcCCCchHHHHH
Q 010147 25 DILIALAYFSIPVE-LIYFVQKSAFFPYRWVLM 56 (517)
Q Consensus 25 ~~~ia~ay~~i~~~-l~~f~~~~~~~~~~~~~~ 56 (517)
|.++....+++-.. ++..++|-..+|.+|+=+
T Consensus 6 ~~~~y~t~~~ii~~~lVq~IkkT~~v~~K~iPl 38 (93)
T PF06946_consen 6 ELLTYMTFLSIITPALVQAIKKTKVVPNKWIPL 38 (93)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCcchhhH
Confidence 33444444443332 455567777789888766
No 206
>PF00556 LHC: Antenna complex alpha/beta subunit; InterPro: IPR000066 The antenna complexes of photosynthetic bacteria function as light-harvesting systems that absorb light and transfer the excitation energy to the reaction centres. The antenna complexes usually comprise 2 polypeptides (alpha- and beta-chains), 2-3 bacteriochlorophyll molecules and some carotenoids [, ]. The alpha- and beta-chains are small proteins of 40-70 residues. Each has an N-terminal hydrophilic cytoplasmic domain, a single transmembrane (TM) region, and a small C-terminal hydrophilic periplasmic domain. In both chains, the TM domain houses a conserved His residue, presumed to be involved in binding the magnesium atom of a bacteriochlorophyll group. The beta-chains are characterised by a further histidine at the C-terminal extremity of the cytoplasmic domain, which is also thought to be involved in bacteriochlorophyll binding.; GO: 0045156 electron transporter, transferring electrons within the cyclic electron transport pathway of photosynthesis activity, 0019684 photosynthesis, light reaction, 0016021 integral to membrane, 0030077 plasma membrane light-harvesting complex; PDB: 1LGH_J 1XRD_A 1NKZ_D 1KZU_B 2FKW_B 1IJD_E 1DX7_A 1JO5_A 1WRG_A.
Probab=22.67 E-value=1.7e+02 Score=18.73 Aligned_cols=25 Identities=32% Similarity=0.534 Sum_probs=19.5
Q ss_pred chHHHHHHHHHHHHHhhhHHHHHHh
Q 010147 50 PYRWVLMQFGSFIILCGLTHFISLW 74 (517)
Q Consensus 50 ~~~~~~~~~~~fi~~cg~~h~~~~~ 74 (517)
|+.+...++++|.+++-.-|++...
T Consensus 10 p~~~~~~~~~~~~viAl~~H~lv~~ 34 (40)
T PF00556_consen 10 PRVGLPALFGAFAVIALLAHFLVLS 34 (40)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred chhhHHHHHHHHHHHHHHHHHHHHh
Confidence 5677777788888888888887654
No 207
>MTH00022 CYTB cytochrome b; Validated
Probab=22.45 E-value=3.3e+02 Score=27.62 Aligned_cols=79 Identities=15% Similarity=0.109 Sum_probs=49.2
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhc-ccchhhHHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTF-TVHSKAVAVVMTIAK 91 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f~~~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~-~~~~~~~~~~~~~~~ 91 (517)
...|++|-++.|.-|-.-+..-..-+.. -+|.++.|.+ ...+.++++|-.-|..-..-+ .+. .+..|.+|++-
T Consensus 40 ~~~qiiTG~~La~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~~lHi~r~~~~gsy~-~~~~W~~Gv~l 118 (379)
T MTH00022 40 LVIQIITGCFLSMHYCSDVSLAFASVGHIMRDVNYGFLLRYLHANGASLFFLCLYIHIGRGLYYGGYL-KFHVWNVGVVI 118 (379)
T ss_pred HHHHHHHHHHHHhhhcCChhhHHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-CcchhhhcHHH
Confidence 3558888888888776554322222222 3688888877 557889999988898776422 111 13467887774
Q ss_pred HHHHHH
Q 010147 92 MACAFV 97 (517)
Q Consensus 92 ~~ta~v 97 (517)
.+..+.
T Consensus 119 ~~l~~~ 124 (379)
T MTH00022 119 FLLTMA 124 (379)
T ss_pred HHHHHH
Confidence 444433
No 208
>PF13321 DUF4084: Domain of unknown function (DUF4084)
Probab=22.42 E-value=2.8e+02 Score=25.66 Aligned_cols=54 Identities=24% Similarity=0.418 Sum_probs=37.6
Q ss_pred HhhhHHHHHHHHhHHHHHHHHH---HhcCCCchHHHHHHHHH-HHHHhhhHHHHHHhh
Q 010147 22 YISDILIALAYFSIPVELIYFV---QKSAFFPYRWVLMQFGS-FIILCGLTHFISLWT 75 (517)
Q Consensus 22 ~~~~~~ia~ay~~i~~~l~~f~---~~~~~~~~~~~~~~~~~-fi~~cg~~h~~~~~~ 75 (517)
..+|..|-++||---..+.|.+ .+|-......+.+..|. .+...|..|+...-.
T Consensus 159 ~~~~~~i~i~Y~I~~~L~i~~VISLY~~~~~s~~~~aLII~~~I~~V~~~~HL~~~~~ 216 (304)
T PF13321_consen 159 LTSDTWILIGYFIAQSLVIYAVISLYRRESYSSSRIALIIGFTIILVYGYIHLFQLNS 216 (304)
T ss_pred cccceeeeehhHHHHHHHHHHHHHHHhhhhhhhhhhHHHHhhHHHHHHHHHHHHHHhc
Confidence 4688888999998888888875 34444556666555554 444678999977643
No 209
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=22.18 E-value=3.7e+02 Score=20.64 Aligned_cols=41 Identities=20% Similarity=0.345 Sum_probs=26.8
Q ss_pred HHHHHHHHHhc-CCCchHHHHHHHHHHHHHhhhHHHHHHhhcc
Q 010147 36 PVELIYFVQKS-AFFPYRWVLMQFGSFIILCGLTHFISLWTFT 77 (517)
Q Consensus 36 ~~~l~~f~~~~-~~~~~~~~~~~~~~fi~~cg~~h~~~~~~~~ 77 (517)
....+||++.. |.+.-+..++ |++.-++||..-....|-+.
T Consensus 18 ~~~~Ly~lr~~~Pev~Rd~D~~-fs~vgLl~g~IL~~~gwRld 59 (84)
T PF07444_consen 18 GGLALYFLRFFRPEVSRDYDIF-FSSVGLLYGLILWFQGWRLD 59 (84)
T ss_pred HHHHHHHHHHHCcchhhhhhHH-HHHHHHHHHHHHHHHhhccc
Confidence 33456777655 5666666666 67777788877766666654
No 210
>KOG4298 consensus CAP-binding protein complex interacting protein 2 [RNA processing and modification]
Probab=21.97 E-value=5.7e+02 Score=22.79 Aligned_cols=28 Identities=11% Similarity=0.139 Sum_probs=20.6
Q ss_pred hhh-HHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 80 SKA-VAVVMTIAKMACAFVSCITALMLVH 107 (517)
Q Consensus 80 ~~~-~~~~~~~~~~~ta~vs~~~a~~l~~ 107 (517)
++| ..|.++.+..-..++.++.++.+.+
T Consensus 177 ~~P~Aa~~st~ilvPvgliFvvFa~hfyr 205 (245)
T KOG4298|consen 177 GYPTAAYISTAILVPVGLIFVVFAIHFYR 205 (245)
T ss_pred CCchhhHhhhhhhhhhhHHHHHHHHHHHH
Confidence 444 5677788877888888888877776
No 211
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=21.87 E-value=3.3e+02 Score=23.10 Aligned_cols=38 Identities=29% Similarity=0.528 Sum_probs=23.8
Q ss_pred HHHHHHhHHHHHHHHHHh---cCCCchHHHHHHHHHHHHHh
Q 010147 28 IALAYFSIPVELIYFVQK---SAFFPYRWVLMQFGSFIILC 65 (517)
Q Consensus 28 ia~ay~~i~~~l~~f~~~---~~~~~~~~~~~~~~~fi~~c 65 (517)
|.++.++.-+...|+... ..+.++|.++.+|+++++++
T Consensus 85 ilvsv~~~~~~~~~~~~~~~~~~~~~~Rvllgl~~al~vlv 125 (142)
T PF11712_consen 85 ILVSVFAVFFAGWYWAGYSFGGWSFPYRVLLGLFGALLVLV 125 (142)
T ss_pred HHHHHHHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHHH
Confidence 344445554444444432 34567888888888888877
No 212
>MTH00074 CYTB cytochrome b; Provisional
Probab=21.82 E-value=5.3e+02 Score=26.15 Aligned_cols=79 Identities=13% Similarity=0.163 Sum_probs=48.1
Q ss_pred HHHHHHhhhHHHHHHHHhHHHHHHHHHHh--cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhcccchhhHHHHHHHH
Q 010147 17 LVRYQYISDILIALAYFSIPVELIYFVQK--SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIA 90 (517)
Q Consensus 17 ~~~~~~~~~~~ia~ay~~i~~~l~~f~~~--~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~~~~~~~~~~~~~~~ 90 (517)
....|++|-++.|.-|-.-+ ...|.... -+|.++.|.+ ...+.+.++|-.-|.+-..-+--.-.+..|..|++
T Consensus 41 ~~~~qiitG~~L~~~Y~p~~-~~a~~Sv~~i~~~v~~Gw~~R~~H~~gas~~f~~~~lH~~r~~~~gsy~~~~~W~~G~~ 119 (380)
T MTH00074 41 CLIAQIITGLFLAMHYTADT-SSAFSSVAHICRDVNYGWLMRNIHANGASFFFICIYLHIGRGLYYGSYMYKETWNIGVI 119 (380)
T ss_pred HHHHHHHHHHHHHHHHcCCh-hhHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhhHH
Confidence 34678899988887776543 23333222 2688877776 55677888888888876642211112346778777
Q ss_pred HHHHHH
Q 010147 91 KMACAF 96 (517)
Q Consensus 91 ~~~ta~ 96 (517)
-.+..+
T Consensus 120 l~~l~~ 125 (380)
T MTH00074 120 LLFLVM 125 (380)
T ss_pred HHHHHH
Confidence 444443
No 213
>PF09766 FimP: Fms-interacting protein; InterPro: IPR019163 This entry represents Thoc5 which is one of the subunits of the THO complex, which additionally contains: HPR1, Thoc2, Thoc6 and Thoc7. The evolutionarily conserved multisubunit THO complex, which is recruited to actively transcribed genes is required for the efficient expression of genes that have internal tandem repeats. It is suggested that the THO complex functions to rectify aberrant structures that arise during transcription [, ] and is required for cell proliferation and for proper export of heat-shock mRNAs under heat stress []. This entry also identifies the crucial 144 N-terminal residues of the FmiP protein, which is essential for the binding of the protein to the cytoplasmic domain of activated Fms-molecules in M-CSF induced haematopoietic differentiation of macrophages. The C terminus contains a putative nuclear localisation sequence and a leucine zipper which suggest further, as yet unknown, nuclear functions. The level of FMIP expression might form a threshold that determines whether cells differentiate into macrophages or into granulocytes [].
Probab=21.81 E-value=8.1e+02 Score=24.52 Aligned_cols=53 Identities=19% Similarity=0.278 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhc
Q 010147 319 ARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLE 371 (517)
Q Consensus 319 ~~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~iaHelrnPL~~I~~~~~~l~~ 371 (517)
.|.++.++.+++++.+..+.+.++.+..++.++--.|++-+.+..-.-+.+..
T Consensus 102 ~Rk~L~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~l~~a~~plq~~l~~ 154 (355)
T PF09766_consen 102 QRKRLEEQLKELEQRKKKLQQENKKKKKFLDSLPPQLKSLKKAAKPLQEYLGL 154 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhCC
Confidence 46677788888888888888888999999999999999887777766666643
No 214
>PF03472 Autoind_bind: Autoinducer binding domain; InterPro: IPR005143 This domain binds N-acyl homoserine lactones (AHLs), which are also known as autoinducers. These are small, diffusible molecules used as communication signals in a large variety of proteobacteria. It is almost always found in association with the DNA-binding LuxR domain (IPR000792 from INTERPRO). The autoinducer binding domain forms the N-terminal region of the protein, while the DNA-binding domain forms the C-terminal region. In most cases, binding of AHL by this N-terminal domain leads to unmasking of the DNA-binding domain, allowing it to bind DNA and activate transcription []. In rare cases, some LuxR proteins such as EsaR, act as repressors []. In these proteins binding of AHL to this domain leads to inactivation of the protein as a transcriptional regulator. A large number of processes have been shown to be regulated by LuxR proteins, including bioluminescence, production of virulence factors in plant and animal pathogens, antibiotic production and plasmid transfer. Structural studies of TraR from Agrobacterium tumefaciens [, ] show that the functional protein is a homodimer. Binding of the cognate AHL is required for protein folding, resistance to proteases and dimerisation. The autoinducer binding domain binds its cognate AHL in an alpha/beta/alpha sandwich and provides an extensive dimerisation surface, though residues from the C-terminal region also make some contribution to dimerisation. The autoinducer binding domain is also required for interaction with RpoA, allowing transcription to occur []. There are some proteins which consist solely of the autoinducer binding domain. The function of these is not known, but TrlR from Agrobacterium has been shown to inhibit the activity of TraR by the formation of inactive heterodimers [].; PDB: 3SZT_A 1H0M_A 1L3L_B 2Q0O_B 2UV0_F 3IX8_A 3IX4_C 3IX3_A 3JPU_D 3QP8_A ....
Probab=21.75 E-value=4.6e+02 Score=21.58 Aligned_cols=97 Identities=15% Similarity=-0.024 Sum_probs=54.7
Q ss_pred HHHHHHHHhhhCCceeEEEccCCCCCeEEEE---EEeccccc---cccccccCCchhHHHhhccCceeecCCCchhhh--
Q 010147 164 KTTLVELGRTLGLEECALWMPSRTGLNLELS---YTLNNQIQ---IGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI-- 235 (517)
Q Consensus 164 ~~~~~~l~~~l~~~~~~i~l~~~~~~~l~~~---~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-- 235 (517)
...+..+.+.+|.+++.+............. .++..++. ........+|.+.....+..+....+.......
T Consensus 6 ~~~l~~~~~~~Gf~~~~~~~~~~~~~~~~~~~~~~~~p~~w~~~Y~~~~~~~~DPv~~~~~~~~~p~~W~~~~~~~~~~~ 85 (149)
T PF03472_consen 6 WDLLERLAARLGFDRFAYGAPSPDPRGDSDFLLISNYPDEWLEHYEERGYFRIDPVVRHARRSSGPFFWSDLFERDALSP 85 (149)
T ss_dssp HHHHHHHHHCTTTSEEEEEEEETTSCECEEEEEEESS-HHHHHHHHHTTGGGT-HHHHHHCHTSSEEEEECHCTSSSSSH
T ss_pred HHHHHHHHHHcCCCEEEEEeccCCCCCCccEEEEecCCHHHHHHHHHcCCcCCCHHHHHHHhCCCCEEEccchhhhhhhH
Confidence 4566777888999999998444333332222 23322211 123455678888888888888877655443211
Q ss_pred ---hhccCCCCCCceeEEeeeeccccCc
Q 010147 236 ---RLLVGRYVPPDIVAVRVPLLHLSNF 260 (517)
Q Consensus 236 ---~~~~~~~~~~~~~~~~~pl~~~~~~ 260 (517)
.........+....+.+|+...++.
T Consensus 86 ~~~~~~~~a~~~Gl~~G~~~p~~~~~g~ 113 (149)
T PF03472_consen 86 EQRRFFDEARDFGLRSGVSVPLHGPDGR 113 (149)
T ss_dssp HHHHHHHHHHHTTTSEEEEEEEEECCGC
T ss_pred HHHHHHHHHHHcCCCceEEEEeEcCCCC
Confidence 1112233456678888887544433
No 215
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=21.42 E-value=1.3e+02 Score=22.05 Aligned_cols=48 Identities=21% Similarity=0.482 Sum_probs=29.9
Q ss_pred HhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHHHH-HHHhhhcC
Q 010147 356 RTLMHAIIALSSLLLETDLTPE-QRVMIETVLKSSNLLTTLVDDV-LDLSRLED 407 (517)
Q Consensus 356 rnPL~~I~~~~~~l~~~~~~~~-~~~~l~~i~~~~~rl~~li~~l-l~~sr~~~ 407 (517)
.||+.++....++ ..+++ .+..+..+..+-.-+.+-+++| +|||+.+.
T Consensus 27 ~NPl~AMa~i~qL----Gip~eKLQ~lm~~VMqnP~LikeAv~ELgLDFsKve~ 76 (82)
T PF11212_consen 27 QNPLAAMATIQQL----GIPQEKLQQLMAQVMQNPALIKEAVEELGLDFSKVEA 76 (82)
T ss_pred hCHHHHHHHHHHc----CCCHHHHHHHHHHHhcChHHHHHHHHHhCCcHHHHHH
Confidence 4888887444333 33443 4556666666666667777776 78887654
No 216
>TIGR03541 reg_near_HchA LuxR family transcriptional regulatory, chaperone HchA-associated. Members of this protein family belong to the LuxR transcriptional regulator family, and contain both autoinducer binding (pfam03472) and transcriptional regulator (pfam00196) domains. Members, however, occur only in a few members of the Gammaproteobacteria that have the chaperone/aminopeptidase HchA, and are always encoded by the adjacent gene.
Probab=21.06 E-value=6.6e+02 Score=23.19 Aligned_cols=82 Identities=10% Similarity=0.140 Sum_probs=46.8
Q ss_pred HHHHHHHHHcccCHHHHHHHHHHHHHhhhCCceeEEEccCCCCCeEE-EEEEecccccc------ccccccCCchhHHHh
Q 010147 146 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLE-LSYTLNNQIQI------GSSVPINLPIVTDVF 218 (517)
Q Consensus 146 l~~l~~~i~~s~d~~~il~~~~~~l~~~l~~~~~~i~l~~~~~~~l~-~~~~~~~~~~~------~~~~~~~~~~~~~~~ 218 (517)
+..+.+.+....+.+++.+ .+..+.+.+|.+++.+..+........ ....+...++. ....-..+|.+....
T Consensus 4 ~~~~~~~~~~~~~~~~l~~-~l~~~~~~~gf~~~~~~~~~~~~~~~~~~~~~~~~~w~~~~~~Y~~~~y~~~DPvv~~~~ 82 (232)
T TIGR03541 4 LFQAVRQIEQASTLEAIQD-AVREFAQNLGYDRFVLFSAHSAKDELIERIFWVEGDWFDDGNAVDAQTYLRHCPVTRHIL 82 (232)
T ss_pred HHHHHHHHHhCCCHHHHHH-HHHHHHHhcCCCeEEEecCCCCchhhHHHHHHhccCCcHHHHHHHHcCCcccCHHHHHHH
Confidence 4455666777777777776 457778889999998866543222110 00011112221 223344677788777
Q ss_pred hccCceeecC
Q 010147 219 NSAQAMRLPY 228 (517)
Q Consensus 219 ~~~~~~~~~~ 228 (517)
.+..+..-.+
T Consensus 83 ~~~~p~~W~~ 92 (232)
T TIGR03541 83 EADEPFFWSK 92 (232)
T ss_pred hCCCCeeccc
Confidence 7777655543
No 217
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=20.79 E-value=7.4e+02 Score=23.59 Aligned_cols=27 Identities=22% Similarity=0.192 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 309 HAAILEDSMRARNQLMEQNVALDSARR 335 (517)
Q Consensus 309 ~a~l~~~~~~~~~~l~~~~~~l~~~~~ 335 (517)
...-+.+.++..++|++++.+++....
T Consensus 67 ~~~~~~~l~~en~~L~~e~~~l~~~~~ 93 (276)
T PRK13922 67 SLASLFDLREENEELKKELLELESRLQ 93 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333444444445555555544444333
No 218
>PF11833 DUF3353: Protein of unknown function (DUF3353); InterPro: IPR021788 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 205 to 258 amino acids in length.
Probab=20.77 E-value=6.3e+02 Score=22.82 Aligned_cols=36 Identities=22% Similarity=0.385 Sum_probs=22.6
Q ss_pred HHHHHHhcCCCchHHHHHHHHHHHHHhhhHHHHHHh
Q 010147 39 LIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLW 74 (517)
Q Consensus 39 l~~f~~~~~~~~~~~~~~~~~~fi~~cg~~h~~~~~ 74 (517)
.+||+.|+..-..+.+.+-++++++-...+-++..|
T Consensus 128 ~iyfl~~K~~~~~rA~~~~~~~L~~G~~lGs~l~~~ 163 (194)
T PF11833_consen 128 CIYFLNRKERKLGRAFLWTLGGLVVGLILGSLLASW 163 (194)
T ss_pred HHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 458988875445677777777777655444444433
No 219
>KOG3915 consensus Transcription regulator dachshund, contains SKI/SNO domain [Transcription]
Probab=20.71 E-value=9.4e+02 Score=24.82 Aligned_cols=24 Identities=21% Similarity=0.259 Sum_probs=19.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH
Q 010147 293 LELIDVVADQVAVALSHAAILEDS 316 (517)
Q Consensus 293 ~~ll~~va~qva~al~~a~l~~~~ 316 (517)
-.++..+...+-+|+.||+..++.
T Consensus 502 eTll~niq~llkva~dnar~qekQ 525 (641)
T KOG3915|consen 502 ETLLTNIQGLLKVAIDNARAQEKQ 525 (641)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 457888888899999999876643
No 220
>PF04632 FUSC: Fusaric acid resistance protein family; InterPro: IPR006726 This entry represents the p-hydroxybenzoic acid efflux pump subunit AaeB (pHBA efflux pump protein B) whose substrates are p-hydroxybenzoic acid (pHBA), 6-hydroxy-2-naphthoic and 2-hydroxycinnamate. It could function as a metabolic relief valve, allowing to eliminate certain compounds when they accumulate to high levels in the cell []. This family also includes fusaric acid resistance proteins [], which are likely to be membrane transporter proteins, and uncharacterised transporter YdhK.; GO: 0006810 transport, 0005886 plasma membrane
Probab=20.65 E-value=1e+03 Score=25.93 Aligned_cols=40 Identities=20% Similarity=0.392 Sum_probs=18.3
Q ss_pred hHHHHHHHHhHHHHHHH-HH--HhcCCCchHHHHHHHHHHHHHhhh
Q 010147 25 DILIALAYFSIPVELIY-FV--QKSAFFPYRWVLMQFGSFIILCGL 67 (517)
Q Consensus 25 ~~~ia~ay~~i~~~l~~-f~--~~~~~~~~~~~~~~~~~fi~~cg~ 67 (517)
.++++..+ ++++..+| |+ +.-.+ |....+.++.|++.+|+
T Consensus 391 ~~~~G~l~-~~~~a~~~~~~vlP~~~~--f~~L~l~l~~~l~~~~~ 433 (650)
T PF04632_consen 391 LFLIGALL-GAVLAFLYLFFVLPHLDG--FPLLALVLAPFLFLGGL 433 (650)
T ss_pred HHHHHHHH-HHHHHHHHHHHhhhccCc--HHHHHHHHHHHHHHHHH
Confidence 44444444 44444333 32 33344 55555555555555443
No 221
>MTH00034 CYTB cytochrome b; Validated
Probab=20.44 E-value=5.1e+02 Score=26.27 Aligned_cols=86 Identities=15% Similarity=0.230 Sum_probs=51.9
Q ss_pred HHHHHhhhHHHHHHHHhHHHHHHHHHH-h-cCCCchHHHH----HHHHHHHHHhhhHHHHHHhhc-ccchhhHHHHHHHH
Q 010147 18 VRYQYISDILIALAYFSIPVELIYFVQ-K-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTF-TVHSKAVAVVMTIA 90 (517)
Q Consensus 18 ~~~~~~~~~~ia~ay~~i~~~l~~f~~-~-~~~~~~~~~~----~~~~~fi~~cg~~h~~~~~~~-~~~~~~~~~~~~~~ 90 (517)
...|++|-++.|.-|-.-+. ..|--. . -++.++.|.+ ...+.++++|-.-|++-..-+ .+. .+..|..|++
T Consensus 41 ~~~qiiTG~~L~~~Y~p~~~-~A~~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~~lH~~r~~~~gsy~-~~~~W~~G~~ 118 (379)
T MTH00034 41 LIIQIITGIFLAMHYTADIS-LAFSSVSHICRDVNYGWLLRNIHANGASLFFICLYFHIGRGLYYGSYV-NIETWNIGVI 118 (379)
T ss_pred HHHHHHHHHHHHHHHcCCcc-chHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccC-CchHHHHhHH
Confidence 45678888877776654332 223222 2 2577877766 557778888888888776432 111 2456888887
Q ss_pred HHHHHHHHHHHHHHH
Q 010147 91 KMACAFVSCITALML 105 (517)
Q Consensus 91 ~~~ta~vs~~~a~~l 105 (517)
-.+..+....+.+.+
T Consensus 119 l~~l~~~~af~Gy~L 133 (379)
T MTH00034 119 LFLLTMLTAFVGYVL 133 (379)
T ss_pred HHHHHHHHHHhhcCc
Confidence 666665554444443
No 222
>TIGR00634 recN DNA repair protein RecN. All proteins in this family for which functions are known are ATP binding proteins involved in the initiation of recombination and recombinational repair.
Probab=20.39 E-value=1.1e+03 Score=25.35 Aligned_cols=30 Identities=10% Similarity=0.089 Sum_probs=16.7
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 010147 374 LTPEQRVMIETVLKSSNLLTTLVDDVLDLS 403 (517)
Q Consensus 374 ~~~~~~~~l~~i~~~~~rl~~li~~ll~~s 403 (517)
.++...+..+.+......+.++..++.++.
T Consensus 264 ~d~~~~~~~~~l~~~~~~l~d~~~~l~~~~ 293 (563)
T TIGR00634 264 IDGSLRELAEQVGNALTEVEEATRELQNYL 293 (563)
T ss_pred hhHhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344445555555555566666666665544
No 223
>PF10177 DUF2371: Uncharacterised conserved protein (DUF2371); InterPro: IPR018787 This family of proteins with no known function is conserved from nematodes to humans. It includes members of the TMEM200 family of transmembrane proteins.
Probab=20.03 E-value=73 Score=27.06 Aligned_cols=30 Identities=10% Similarity=0.325 Sum_probs=22.0
Q ss_pred CCchHHHHHHHHHHHHHhhhHHHHHHhhcccc
Q 010147 48 FFPYRWVLMQFGSFIILCGLTHFISLWTFTVH 79 (517)
Q Consensus 48 ~~~~~~~~~~~~~fi~~cg~~h~~~~~~~~~~ 79 (517)
.+.+...++++|.++++.|+ .|++..||+.
T Consensus 35 l~s~Sg~~l~lG~lvllvGi--aMAv~GYwp~ 64 (141)
T PF10177_consen 35 LCSPSGLFLLLGILVLLVGI--AMAVLGYWPK 64 (141)
T ss_pred EecHHHHHHHHHHHHHHHhh--Hhheeecccc
Confidence 34566777888888888876 5778888863
No 224
>COG0323 MutL DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]
Probab=20.03 E-value=64 Score=35.20 Aligned_cols=44 Identities=9% Similarity=-0.035 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHhhcCCCCeEEEEEEEcCCCccccCCCCCCCCC
Q 010147 459 RLMQTILNIVGNAVKFTKEGYVSIIASVAKPESLSDWRPPEFYPV 503 (517)
Q Consensus 459 ~l~qvl~NLl~NAik~~~~g~i~i~~~~~~~~~~~~~~~~~~~~~ 503 (517)
+-.-|+..|+.||+++.. ..|.|.+...+-..+.+.|+|.|++.
T Consensus 23 rPaSVVKELVENSlDAGA-t~I~I~ve~gG~~~I~V~DNG~Gi~~ 66 (638)
T COG0323 23 RPASVVKELVENSLDAGA-TRIDIEVEGGGLKLIRVRDNGSGIDK 66 (638)
T ss_pred cHHHHHHHHHhcccccCC-CEEEEEEccCCccEEEEEECCCCCCH
Confidence 345789999999999853 34444444333333445566665543
No 225
>PF11874 DUF3394: Domain of unknown function (DUF3394); InterPro: IPR021814 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 190 amino acids in length. This domain is found associated with PF06808 from PFAM.
Probab=20.00 E-value=86 Score=28.01 Aligned_cols=38 Identities=21% Similarity=0.418 Sum_probs=24.7
Q ss_pred hHHHHHHHHhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHh
Q 010147 25 DILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILC 65 (517)
Q Consensus 25 ~~~ia~ay~~i~~~l~~f~~~~~~~~~~~~~~~~~~fi~~c 65 (517)
=++||.-.|+.. +-+||+.|.+- +-.+++++.+|.++-
T Consensus 8 ~a~~~~l~F~aa-tqg~f~~r~~~--~E~~~ll~~~f~lf~ 45 (183)
T PF11874_consen 8 TALIAMLAFAAA-TQGWFLTRNKW--WESVLLLLIAFTLFR 45 (183)
T ss_pred HHHHHHHHHHHH-hcceeeecchH--HHHHHHHHHHHHHhC
Confidence 345666666655 68888888885 566666666665543
Done!