Query 012575
Match_columns 460
No_of_seqs 372 out of 2698
Neff 9.1
Searched_HMMs 46136
Date Fri Mar 29 04:04:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012575.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012575hhsearch_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 7.7E-27 1.7E-31 237.6 33.5 346 24-443 397-763 (890)
2 PRK10490 sensor protein KdpD; 99.9 8E-21 1.7E-25 208.1 38.1 353 23-442 399-765 (895)
3 KOG0519 Sensory transduction h 99.8 1.2E-22 2.6E-27 217.7 -5.5 445 2-446 30-490 (786)
4 PRK13837 two-component VirA-li 99.7 4.3E-15 9.3E-20 163.2 35.1 278 130-442 263-545 (828)
5 TIGR02916 PEP_his_kin putative 99.7 2.7E-14 5.8E-19 153.7 37.9 248 146-433 307-559 (679)
6 PRK11091 aerobic respiration c 99.7 8.9E-15 1.9E-19 160.2 28.2 107 336-442 275-382 (779)
7 COG4251 Bacteriophytochrome (l 99.6 2.8E-13 6.1E-18 135.0 28.2 121 328-450 508-632 (750)
8 PF00512 HisKA: His Kinase A ( 99.6 6E-15 1.3E-19 109.5 9.9 66 343-408 1-68 (68)
9 PRK10618 phosphotransfer inter 99.6 2.5E-14 5.4E-19 156.0 15.3 117 325-441 431-548 (894)
10 PRK10841 hybrid sensory kinase 99.6 2.2E-14 4.8E-19 158.3 14.8 119 325-443 428-547 (924)
11 TIGR02956 TMAO_torS TMAO reduc 99.6 1E-13 2.2E-18 155.7 19.8 115 331-445 451-566 (968)
12 PRK11107 hybrid sensory histid 99.5 2.7E-13 5.9E-18 151.3 18.9 121 322-442 271-392 (919)
13 PRK15347 two component system 99.5 1.7E-13 3.6E-18 153.1 16.3 121 322-442 376-497 (921)
14 PRK11466 hybrid sensory histid 99.5 9.3E-13 2E-17 147.0 17.3 126 319-444 419-547 (914)
15 PRK09303 adaptive-response sen 99.5 2E-12 4.4E-17 129.6 16.8 123 322-444 129-259 (380)
16 COG5002 VicK Signal transducti 99.4 1.2E-12 2.5E-17 122.1 8.8 93 341-433 222-316 (459)
17 PRK15429 formate hydrogenlyase 99.3 4.5E-10 9.7E-15 120.8 24.9 185 133-331 174-365 (686)
18 PRK11006 phoR phosphate regulo 99.3 1.6E-09 3.6E-14 110.5 25.7 100 342-441 202-302 (430)
19 PRK09959 hybrid sensory histid 99.3 3E-11 6.6E-16 138.5 13.8 112 330-441 698-811 (1197)
20 COG3852 NtrB Signal transducti 99.1 6.3E-10 1.4E-14 102.6 13.3 107 342-452 130-236 (363)
21 PRK11061 fused phosphoenolpyru 99.1 7.5E-09 1.6E-13 111.1 22.1 270 144-432 3-311 (748)
22 PRK10604 sensor protein RstB; 99.1 2.9E-09 6.2E-14 108.8 14.8 113 326-443 194-307 (433)
23 smart00388 HisKA His Kinase A 99.0 1.1E-09 2.4E-14 79.8 8.5 64 344-407 2-65 (66)
24 PRK10364 sensor protein ZraS; 99.0 9.2E-07 2E-11 91.0 31.2 98 342-443 235-334 (457)
25 PRK10815 sensor protein PhoQ; 99.0 7.6E-09 1.6E-13 107.0 15.3 112 330-443 252-365 (485)
26 TIGR03785 marine_sort_HK prote 99.0 1.6E-08 3.4E-13 109.1 17.0 122 322-443 463-585 (703)
27 PRK10337 sensor protein QseC; 98.9 2.9E-08 6.4E-13 101.8 16.0 112 323-434 216-328 (449)
28 TIGR01817 nifA Nif-specific re 98.9 1E-07 2.2E-12 99.8 19.7 160 143-317 4-166 (534)
29 PF13492 GAF_3: GAF domain; PD 98.9 2.9E-08 6.2E-13 82.8 12.7 129 158-309 1-129 (129)
30 TIGR01386 cztS_silS_copS heavy 98.9 4.2E-08 9.1E-13 100.6 15.1 123 321-443 218-342 (457)
31 TIGR02966 phoR_proteo phosphat 98.9 2.4E-08 5.3E-13 97.5 12.7 93 342-434 112-206 (333)
32 PRK11644 sensory histidine kin 98.9 2.4E-07 5.1E-12 96.0 20.6 151 287-443 244-397 (495)
33 PRK10600 nitrate/nitrite senso 98.9 7.9E-05 1.7E-09 78.9 39.9 245 134-444 210-457 (569)
34 PRK09835 sensor kinase CusS; P 98.8 8.2E-08 1.8E-12 99.3 16.2 120 324-443 242-363 (482)
35 PRK11073 glnL nitrogen regulat 98.8 5.9E-08 1.3E-12 96.0 13.9 97 342-444 128-224 (348)
36 PRK10549 signal transduction h 98.8 7.8E-08 1.7E-12 99.0 14.5 112 322-434 218-329 (466)
37 PF01590 GAF: GAF domain; Int 98.7 6.8E-08 1.5E-12 83.3 9.9 136 158-307 1-154 (154)
38 PRK10755 sensor protein BasS/P 98.7 1.8E-07 3.9E-12 92.9 14.3 86 344-434 137-223 (356)
39 PRK11100 sensory histidine kin 98.7 2.2E-07 4.8E-12 95.7 15.2 106 328-434 241-346 (475)
40 cd00082 HisKA Histidine Kinase 98.7 9.6E-08 2.1E-12 68.9 8.4 62 343-404 3-65 (65)
41 PRK09467 envZ osmolarity senso 98.7 2.7E-07 5.8E-12 94.2 14.6 113 322-443 207-319 (435)
42 PRK09470 cpxA two-component se 98.7 3.1E-07 6.7E-12 94.4 14.9 110 321-434 220-329 (461)
43 COG4191 Signal transduction hi 98.6 1.9E-06 4.1E-11 87.0 18.4 113 330-446 368-486 (603)
44 COG5000 NtrY Signal transducti 98.6 0.00035 7.7E-09 70.9 34.0 97 343-443 485-588 (712)
45 PRK15429 formate hydrogenlyase 98.6 1.1E-06 2.4E-11 94.8 17.7 172 144-329 9-183 (686)
46 COG4192 Signal transduction hi 98.6 3.5E-06 7.6E-11 82.0 16.7 98 344-443 451-552 (673)
47 PRK05022 anaerobic nitric oxid 98.5 4.8E-06 1E-10 86.5 18.4 170 145-330 5-179 (509)
48 COG3850 NarQ Signal transducti 98.5 0.00087 1.9E-08 67.2 31.6 239 130-448 232-473 (574)
49 smart00065 GAF Domain present 98.5 3.6E-06 7.9E-11 70.4 13.4 143 158-315 1-147 (149)
50 PRK11360 sensory histidine kin 98.5 2.3E-06 5E-11 90.7 14.9 87 343-433 389-475 (607)
51 PRK13560 hypothetical protein; 98.4 1.4E-06 3E-11 96.1 12.4 95 331-434 592-686 (807)
52 TIGR02938 nifL_nitrog nitrogen 98.4 5E-06 1.1E-10 85.9 15.3 97 342-444 274-374 (494)
53 COG3605 PtsP Signal transducti 98.4 2.3E-05 4.9E-10 78.7 17.3 154 146-313 5-160 (756)
54 PF13185 GAF_2: GAF domain; PD 98.3 4.9E-06 1.1E-10 71.0 10.1 135 157-308 2-148 (148)
55 PRK13557 histidine kinase; Pro 98.2 2E-05 4.4E-10 82.5 14.9 98 342-443 161-263 (540)
56 PRK13559 hypothetical protein; 98.1 1.5E-05 3.2E-10 79.3 10.5 86 343-441 169-254 (361)
57 COG2203 FhlA FOG: GAF domain [ 97.9 2.1E-05 4.6E-10 68.0 5.5 160 143-316 3-171 (175)
58 COG0642 BaeS Signal transducti 97.9 0.00039 8.4E-09 67.1 14.7 91 343-434 114-205 (336)
59 COG3604 FhlA Transcriptional r 97.8 0.00099 2.1E-08 66.5 15.8 175 143-332 33-213 (550)
60 PRK13558 bacterio-opsin activa 97.6 0.0032 6.9E-08 68.1 19.0 148 145-312 289-440 (665)
61 KOG0519 Sensory transduction h 97.4 6.2E-05 1.3E-09 81.9 1.1 90 343-434 218-309 (786)
62 COG3851 UhpB Signal transducti 96.9 0.25 5.4E-06 47.7 19.9 152 290-447 248-401 (497)
63 PRK10935 nitrate/nitrite senso 96.8 0.86 1.9E-05 48.1 36.3 89 349-444 365-459 (565)
64 PRK11086 sensory histidine kin 96.4 0.016 3.5E-07 60.8 9.8 28 343-370 338-365 (542)
65 PF04340 DUF484: Protein of un 96.4 0.04 8.6E-07 50.9 11.1 162 122-309 52-222 (225)
66 PF11849 DUF3369: Domain of un 95.5 1.6 3.5E-05 38.5 17.0 150 132-317 10-172 (174)
67 COG1956 GAF domain-containing 94.7 1.5 3.3E-05 37.4 13.3 120 163-304 37-157 (163)
68 PRK10963 hypothetical protein; 94.2 4.6 9.9E-05 37.2 17.3 66 121-187 48-117 (223)
69 PRK15053 dpiB sensor histidine 93.2 1.2 2.6E-05 46.8 12.8 49 346-401 340-388 (545)
70 PF14689 SPOB_a: Sensor_kinase 90.6 1.9 4.2E-05 30.7 7.3 46 346-395 14-59 (62)
71 PF07568 HisKA_2: Histidine ki 89.8 5 0.00011 29.9 9.3 72 351-431 2-73 (76)
72 PF07495 Y_Y_Y: Y_Y_Y domain; 87.0 0.94 2E-05 32.5 3.8 48 242-291 2-57 (66)
73 COG3159 Uncharacterized protei 86.3 25 0.00053 31.7 13.8 66 122-187 50-119 (218)
74 COG5385 Uncharacterized protei 80.3 8.4 0.00018 33.1 7.0 76 347-429 18-96 (214)
75 cd00284 Cytochrome_b_N Cytochr 74.5 35 0.00076 30.7 9.9 90 18-107 33-129 (200)
76 PF07851 TMPIT: TMPIT-like pro 74.4 86 0.0019 30.5 13.0 69 333-403 23-91 (330)
77 COG4587 ABC-type uncharacteriz 73.8 20 0.00044 33.1 8.1 71 17-93 103-184 (268)
78 PRK10490 sensor protein KdpD; 73.7 23 0.00051 39.8 10.5 54 51-105 443-498 (895)
79 PRK10263 DNA translocase FtsK; 69.2 39 0.00085 39.0 10.7 22 20-41 68-92 (1355)
80 PF06018 CodY: CodY GAF-like d 68.2 85 0.0018 27.7 10.6 43 268-312 116-158 (177)
81 MTH00145 CYTB cytochrome b; Pr 66.2 44 0.00094 33.4 9.5 89 18-106 42-135 (379)
82 COG2205 KdpD Osmosensitive K+ 65.5 69 0.0015 35.1 11.1 46 56-104 449-494 (890)
83 PF10856 DUF2678: Protein of u 65.1 13 0.00028 29.9 4.4 26 30-55 68-95 (118)
84 CHL00070 petB cytochrome b6 65.1 38 0.00083 30.9 8.1 90 17-106 43-139 (215)
85 PF10066 DUF2304: Uncharacteri 64.5 75 0.0016 25.7 11.7 27 39-65 19-46 (115)
86 PF14248 DUF4345: Domain of un 64.3 70 0.0015 26.2 9.0 65 28-95 50-114 (124)
87 PF14965 BRI3BP: Negative regu 63.8 1E+02 0.0022 26.9 10.0 91 31-141 86-176 (177)
88 MTH00033 CYTB cytochrome b; Pr 62.0 57 0.0012 32.6 9.4 88 19-106 39-131 (383)
89 PF07536 HWE_HK: HWE histidine 61.9 61 0.0013 24.5 7.6 79 351-441 2-80 (83)
90 COG3462 Predicted membrane pro 60.2 51 0.0011 26.2 6.8 65 51-115 8-77 (117)
91 MTH00053 CYTB cytochrome b; Pr 59.4 74 0.0016 31.8 9.6 90 18-107 42-136 (381)
92 PRK03735 cytochrome b6; Provis 59.2 35 0.00076 31.3 6.8 90 17-106 51-147 (223)
93 COG4251 Bacteriophytochrome (l 58.7 2.6E+02 0.0056 29.9 18.4 40 146-185 330-369 (750)
94 COG3556 Predicted membrane pro 58.4 1.1E+02 0.0023 25.4 9.5 72 43-115 27-110 (150)
95 COG3290 CitA Signal transducti 58.3 2.4E+02 0.0052 29.5 26.5 25 345-369 334-358 (537)
96 smart00786 SHR3_chaperone ER m 58.1 5.1 0.00011 35.5 1.2 33 56-88 5-38 (196)
97 MTH00100 CYTB cytochrome b; Pr 57.5 1E+02 0.0022 30.9 10.3 89 19-107 42-135 (379)
98 MTH00022 CYTB cytochrome b; Va 54.9 56 0.0012 32.7 8.0 88 19-106 41-133 (379)
99 PF07332 DUF1469: Protein of u 52.7 1.2E+02 0.0027 24.4 8.9 22 93-114 77-98 (121)
100 MTH00086 CYTB cytochrome b; Pr 52.6 1.1E+02 0.0025 30.2 9.6 89 18-106 30-123 (355)
101 MTH00016 CYTB cytochrome b; Va 52.4 92 0.002 31.1 9.1 88 19-106 43-135 (378)
102 MTH00034 CYTB cytochrome b; Va 52.2 82 0.0018 31.5 8.7 90 18-107 41-135 (379)
103 MTH00131 CYTB cytochrome b; Pr 51.2 1.1E+02 0.0025 30.5 9.5 90 18-107 41-135 (380)
104 MTH00224 CYTB cytochrome b; Pr 51.0 86 0.0019 31.4 8.6 88 19-106 43-135 (379)
105 MTH00074 CYTB cytochrome b; Pr 50.2 1.2E+02 0.0025 30.5 9.4 89 18-106 42-135 (380)
106 PF05449 DUF754: Protein of un 50.2 95 0.0021 23.6 6.8 45 29-75 4-48 (83)
107 PF10754 DUF2569: Protein of u 50.1 1.6E+02 0.0035 25.0 10.0 45 20-64 54-99 (149)
108 PRK05415 hypothetical protein; 49.2 2.7E+02 0.0058 27.4 13.6 26 147-172 171-196 (341)
109 MTH00046 CYTB cytochrome b; Va 49.2 85 0.0018 31.0 8.1 85 18-102 32-121 (355)
110 PF00556 LHC: Antenna complex 48.0 26 0.00057 22.4 3.0 25 50-74 10-34 (40)
111 MTH00119 CYTB cytochrome b; Pr 48.0 1.2E+02 0.0026 30.3 9.2 90 18-107 42-136 (380)
112 COG4420 Predicted membrane pro 47.9 2E+02 0.0043 25.5 11.4 18 78-95 84-101 (191)
113 cd07955 Anticodon_Ia_Cys_like 47.4 54 0.0012 24.7 5.1 28 342-369 28-57 (81)
114 PF13491 DUF4117: Domain of un 46.8 53 0.0012 28.4 5.9 54 19-72 50-111 (171)
115 PF06103 DUF948: Bacterial pro 45.7 1.3E+02 0.0029 22.8 9.2 13 103-115 12-24 (90)
116 PRK04158 transcriptional repre 45.0 2.7E+02 0.0058 26.1 13.4 43 268-312 117-160 (256)
117 COG1480 Predicted membrane-ass 44.3 4.1E+02 0.0089 28.7 12.4 34 87-120 435-468 (700)
118 MTH00191 CYTB cytochrome b; Pr 44.2 1.6E+02 0.0034 29.4 9.3 89 19-107 39-132 (365)
119 KOG3814 Signaling protein van 44.2 1.8E+02 0.0039 28.8 9.1 43 31-77 166-209 (531)
120 PF08229 SHR3_chaperone: ER me 43.6 9.2 0.0002 34.2 0.5 33 57-89 6-39 (196)
121 MTH00156 CYTB cytochrome b; Pr 43.5 1E+02 0.0023 30.5 7.8 89 19-107 32-125 (356)
122 PF06305 DUF1049: Protein of u 43.4 1.1E+02 0.0025 21.7 6.3 13 126-138 50-62 (68)
123 PF05961 Chordopox_A13L: Chord 42.5 37 0.0008 24.4 3.2 27 22-48 1-27 (68)
124 TIGR02787 codY_Gpos GTP-sensin 40.8 3E+02 0.0066 25.6 12.2 44 266-311 113-156 (251)
125 COG4377 Predicted membrane pro 40.3 84 0.0018 28.1 5.8 27 29-55 15-41 (258)
126 PRK14872 rod shape-determining 39.8 3.3E+02 0.0072 26.7 10.4 21 122-142 62-82 (337)
127 PF11694 DUF3290: Protein of u 39.7 1.1E+02 0.0023 26.2 6.3 40 27-66 22-61 (149)
128 PF08066 PMC2NT: PMC2NT (NUC01 39.5 1.3E+02 0.0028 23.2 6.3 51 381-432 26-76 (91)
129 PHA03049 IMV membrane protein; 38.5 46 0.001 23.8 3.2 27 22-48 1-27 (68)
130 PRK13922 rod shape-determining 37.8 3.5E+02 0.0077 25.5 11.6 36 122-157 74-109 (276)
131 COG1270 CbiB Cobalamin biosynt 36.5 3.6E+02 0.0078 26.2 10.0 32 143-174 122-153 (320)
132 PF09858 DUF2085: Predicted me 35.9 1.8E+02 0.004 22.6 6.6 43 32-74 27-71 (93)
133 TIGR01620 hyp_HI0043 conserved 35.5 4.1E+02 0.0088 25.5 12.1 25 146-170 119-143 (289)
134 PF06072 Herpes_US9: Alphaherp 35.4 65 0.0014 22.6 3.5 22 56-77 37-58 (60)
135 PF10131 PTPS_related: 6-pyruv 35.0 4.1E+02 0.009 28.6 11.3 54 19-73 70-123 (616)
136 cd08763 Cyt_b561_CYB561 Verteb 34.1 2.9E+02 0.0063 23.4 10.2 52 51-102 75-135 (143)
137 COG3114 CcmD Heme exporter pro 32.7 1.9E+02 0.004 20.7 5.5 22 115-136 38-59 (67)
138 COG3301 NrfD Formate-dependent 32.7 4.1E+02 0.009 25.3 9.3 42 39-80 34-80 (305)
139 PF12725 DUF3810: Protein of u 32.3 87 0.0019 30.5 5.3 23 23-45 25-47 (318)
140 PF11212 DUF2999: Protein of u 31.4 55 0.0012 23.8 2.7 50 356-409 27-78 (82)
141 PF10319 7TM_GPCR_Srj: Serpent 31.2 3.3E+02 0.0072 26.3 8.8 98 21-120 8-122 (310)
142 cd08766 Cyt_b561_ACYB-1_like P 31.0 3.3E+02 0.0071 23.1 10.0 25 56-80 80-104 (144)
143 PF12805 FUSC-like: FUSC-like 31.0 4.7E+02 0.01 24.8 13.6 29 83-111 70-98 (284)
144 PF11382 DUF3186: Protein of u 30.4 2.5E+02 0.0054 27.2 8.0 47 309-355 30-76 (308)
145 TIGR00799 mtp Golgi 4-transmem 30.2 4.4E+02 0.0095 24.2 10.6 96 17-115 55-160 (258)
146 PF04156 IncA: IncA protein; 29.9 3.8E+02 0.0083 23.5 14.3 15 55-69 11-25 (191)
147 PF10086 DUF2324: Putative mem 29.9 3.9E+02 0.0084 24.5 8.8 29 32-62 2-30 (223)
148 KOG3787 Glutamate/aspartate an 29.8 36 0.00077 34.4 2.1 37 32-69 278-314 (507)
149 PF06638 Strabismus: Strabismu 28.7 2.3E+02 0.005 29.2 7.5 29 46-77 157-185 (505)
150 PF06177 QueT: QueT transporte 28.6 3.8E+02 0.0081 23.0 10.3 12 35-46 76-87 (152)
151 PF09766 FimP: Fms-interacting 28.6 3.8E+02 0.0083 26.5 9.2 53 318-370 101-153 (355)
152 PRK14872 rod shape-determining 28.2 4E+02 0.0087 26.2 8.9 27 110-136 57-83 (337)
153 KOG3088 Secretory carrier memb 27.8 76 0.0016 30.0 3.7 82 319-402 65-156 (313)
154 PRK13922 rod shape-determining 26.7 5.4E+02 0.012 24.2 11.9 17 268-284 230-246 (276)
155 KOG3689 Cyclic nucleotide phos 25.3 7.4E+02 0.016 27.1 10.9 155 156-322 180-345 (707)
156 PF02652 Lactate_perm: L-lacta 25.0 4.6E+02 0.01 27.6 9.3 38 24-61 180-217 (522)
157 PF13060 DUF3921: Protein of u 24.6 1.3E+02 0.0027 20.1 3.2 18 337-354 31-48 (58)
158 PF07787 DUF1625: Protein of u 24.4 1.7E+02 0.0038 27.2 5.6 26 50-75 181-206 (248)
159 PF04279 IspA: Intracellular s 24.0 4.9E+02 0.011 22.8 10.5 51 19-72 15-69 (176)
160 PF13651 EcoRI_methylase: Aden 24.0 26 0.00057 33.8 0.0 11 3-13 38-48 (336)
161 PF01988 VIT1: VIT family; In 23.6 5.5E+02 0.012 23.2 10.9 32 83-122 32-63 (213)
162 PF09980 DUF2214: Predicted me 23.5 4.7E+02 0.01 22.4 11.6 87 16-109 6-104 (150)
163 PF06105 Aph-1: Aph-1 protein; 23.2 2.2E+02 0.0047 26.5 5.8 48 33-82 13-60 (238)
164 PF13567 DUF4131: Domain of un 23.1 4.2E+02 0.009 22.0 7.6 12 31-42 20-31 (176)
165 PF13829 DUF4191: Domain of un 23.1 4.3E+02 0.0094 24.2 7.6 35 40-76 16-50 (224)
166 COG2119 Predicted membrane pro 23.0 1.6E+02 0.0036 26.0 4.7 43 51-94 31-78 (190)
167 PF11712 Vma12: Endoplasmic re 22.4 3.2E+02 0.0069 22.9 6.4 21 46-66 106-126 (142)
168 PF13321 DUF4084: Domain of un 22.2 2.4E+02 0.0052 26.0 5.6 61 21-81 158-222 (304)
169 PRK05687 fliH flagellar assemb 22.2 6.3E+02 0.014 23.3 11.2 39 388-427 156-194 (246)
170 PF03729 DUF308: Short repeat 22.1 2.9E+02 0.0062 19.4 7.1 51 50-105 20-70 (72)
171 PF05297 Herpes_LMP1: Herpesvi 22.0 30 0.00065 32.5 0.0 45 16-60 36-89 (381)
172 COG4191 Signal transduction hi 21.9 7.8E+02 0.017 26.2 10.0 69 103-173 310-378 (603)
173 PF10669 Phage_Gp23: Protein g 21.8 3.9E+02 0.0084 20.8 11.5 84 303-397 28-113 (121)
174 PF09190 DALR_2: DALR domain; 21.5 1.2E+02 0.0026 21.4 3.1 26 346-371 1-28 (63)
175 PF07730 HisKA_3: Histidine ki 21.5 2.9E+02 0.0063 19.2 8.4 56 344-399 2-59 (68)
176 PF06181 DUF989: Protein of un 21.4 3.7E+02 0.0081 25.7 7.0 45 31-77 229-277 (300)
177 PF14150 YesK: YesK-like prote 20.8 3.8E+02 0.0082 20.3 8.4 47 27-75 3-50 (81)
178 PF14979 TMEM52: Transmembrane 20.8 1E+02 0.0022 26.0 2.8 17 52-68 22-38 (154)
179 PF04544 Herpes_UL20: Herpesvi 20.4 6E+02 0.013 22.4 7.7 48 25-72 60-111 (179)
180 PF11833 DUF3353: Protein of u 20.3 4.2E+02 0.0091 23.7 6.9 38 38-75 127-164 (194)
181 COG3071 HemY Uncharacterized e 20.3 4.4E+02 0.0095 26.4 7.5 44 344-387 248-291 (400)
182 TIGR02921 PEP_integral PEP-CTE 20.3 1.1E+03 0.023 25.3 10.7 41 17-58 137-186 (952)
183 PRK04654 sec-independent trans 20.3 2.8E+02 0.006 25.1 5.6 22 348-369 70-91 (214)
184 TIGR00219 mreC rod shape-deter 20.3 7E+02 0.015 23.8 8.9 12 312-323 71-82 (283)
185 PHA02749 hypothetical protein; 20.1 1E+02 0.0023 27.9 3.0 54 20-73 151-207 (322)
186 PF10966 DUF2768: Protein of u 20.1 3.2E+02 0.007 19.2 5.2 20 27-46 6-25 (58)
187 PF05884 ZYG-11_interact: Inte 20.1 4E+02 0.0088 25.5 7.0 21 27-47 140-160 (299)
188 PRK00888 ftsB cell division pr 20.1 4.5E+02 0.0098 20.8 7.2 72 87-158 1-76 (105)
No 1
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=99.96 E-value=7.7e-27 Score=237.57 Aligned_cols=346 Identities=17% Similarity=0.216 Sum_probs=238.1
Q ss_pred HHHHHHHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHH----------------HHHHHHHHHHHhhccchhHHHHHH
Q 012575 24 SDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFII----------------LCGLTHFISLWTFTVHSKAVAVVM 87 (460)
Q Consensus 24 ~d~~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~----------------~cg~~hl~~~~~~~~~~~~~~~~~ 87 (460)
.|.++++.+.++.+.+..+..+.-+...--++++.|.+++ +..+++||.- +...+-+.
T Consensus 397 ~~~l~a~~~~a~~t~i~~~l~~~~~~~ni~mvFllgVlv~av~~g~~pa~~aailsvl~fNyFF~e------PryTf~v~ 470 (890)
T COG2205 397 RDYLVAILICALATAIAIQLDKFFDLANIVMLFLLGVLVVAVLTGRWPAVLAALLSVLVFNYFFTE------PRYTFAVS 470 (890)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhheecC------CceEEEEe
Confidence 6788888888888777666655555444444444444333 2222333222 22222233
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHH
Q 012575 88 TIAKMACAFVSCITALMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTL 167 (460)
Q Consensus 88 ~~~k~~ta~~s~~~a~~l~~~~p~~l~~~~~~~~l~~~~~~l~~e~~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~ 167 (460)
..-+++|..|+++.|+.... .+.+.+++.+..++++++.+.+.+.++++..+.+.++++.++.
T Consensus 471 d~~y~vTf~vml~vai~t~~-----------------Lt~~vr~Qa~~ar~r~~rT~~Lye~s~~L~~a~t~~~vl~~~~ 533 (890)
T COG2205 471 DPQYLVTFAVMLAVALLTGN-----------------LTARVREQARAARRREQRTELLYEFSKKLAGARTREDILAAAG 533 (890)
T ss_pred cCchHHHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHH
Confidence 33344444444444433322 3477788888889999999999999999999999999999999
Q ss_pred HHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCccccc-CChhHHHHhhccCceeecCCCchhhhhhcccCCCCCc
Q 012575 168 VELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPI-NLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPD 246 (460)
Q Consensus 168 ~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~ 246 (460)
..+.++++ .++.++++++++.. ......+ + .+. +......++.++++.-. .++.+ +.
T Consensus 534 ~qi~~~~~-~~v~i~l~~~~~~~--~~~~~~~----~--l~~~d~aaa~W~~~~~~~AG~-----------gTdTl--pg 591 (890)
T COG2205 534 QQIASLLN-QRVVILLPDDNGKL--QPLGNPD----G--LSADDRAAAQWAFENGKPAGA-----------GTDTL--PG 591 (890)
T ss_pred HHHHHHhC-CceEEEEecCCccc--ccccCCc----c--ccHHHHHHhhchhhCCCcccc-----------CCCCC--CC
Confidence 99999998 56667777776543 1111100 0 111 11112222222221100 00111 11
Q ss_pred ceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 247 IVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQ 326 (460)
Q Consensus 247 ~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~ 326 (460)
... .|.++..++-..||+++.++......+++..++..++.|+|+|+++..+.++.++.+-+
T Consensus 592 ~~~--------------~~lPl~~~~~~~gvlgv~~~~~~ll~p~~~rlL~a~~~q~AlAler~~L~~~~~~a~l~---- 653 (890)
T COG2205 592 AKY--------------LYLPLKSGGKVLGVLGVEPGLSPLLAPEQRRLLDAVLTQIALALERVTLAEEAEQARLA---- 653 (890)
T ss_pred Cce--------------eEeecccCCceEEEEEecCCCCccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH----
Confidence 111 23446666777899999888555688999999999999999999999998775544322
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcC--CCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012575 327 NVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPE-QRVMIETVLKSSNLLTTLVDDVLDLS 403 (460)
Q Consensus 327 ~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~--~~~~~-~~~~l~~I~~~~~rl~~LI~~LL~~s 403 (460)
.+.++.|+.|++++|||||||||+|.|.++.|... .++++ +.+.+..|.+++++|.++|+||||++
T Consensus 654 -----------~e~E~lRsaLL~sISHDLRTPLt~i~Gaa~tL~~~~~~l~~~~~aeLl~~I~ees~~L~rlV~NLLdmT 722 (890)
T COG2205 654 -----------AERERLRSALLASISHDLRTPLTAIMGAAETLLLDGEALSPEDRAELLSSIREESERLTRLVTNLLDMT 722 (890)
T ss_pred -----------HHHHHHHHHHHHHhhccccCcHHHHhhhHHHhhhcccccCcHhHHHHHHHHHHHHHHHHHHHHHHHhHH
Confidence 23448899999999999999999999999999854 45555 67899999999999999999999999
Q ss_pred hhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 404 RLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 404 r~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
|+++|.++++.++..+.++|.+++..++... +..+.++.+
T Consensus 723 Ri~sG~~~l~~~~~~veEvVg~Al~r~~k~~~~~~i~v~~~ 763 (890)
T COG2205 723 RLQSGGVNLKLDWVLVEEVVGEALQRLRKRFTGHKIVVSVP 763 (890)
T ss_pred HHhcCCcccccchhhHHHHHHHHHHHhhhhcCCceEEEecC
Confidence 9999999999999999999999998887775 555555544
No 2
>PRK10490 sensor protein KdpD; Provisional
Probab=99.90 E-value=8e-21 Score=208.13 Aligned_cols=353 Identities=16% Similarity=0.178 Sum_probs=219.2
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHH----------HHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 23 ISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFII----------LCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 23 ~~d~~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~----------~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
+.|.+.+++..+.-+.+.+++...=+.+.-.++.+++.+++ ++++.-.+.++.|++|+++.+-++..-.+
T Consensus 399 ~~~~~~a~~~~~~~t~l~~~l~~~l~~~ni~mlyll~Vll~A~~~G~~pai~aavls~l~~nfFF~~P~~Tf~v~~~~~~ 478 (895)
T PRK10490 399 IQGCLVAIALCALITLIAMQWLPAFDAANLVMLYLLGVVVVALFYGRWPSVVATVINVASFDLFFVAPRGTLAVSDVQYL 478 (895)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCchhHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHHheeCCCceEEEEcCcccH
Confidence 34677777777777666655544322233333333332221 12223333444455555432222222233
Q ss_pred HHHHHHHHHHHHHHhhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhh
Q 012575 93 ACAFVSCITALMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGR 172 (460)
Q Consensus 93 ~ta~~s~~~a~~l~~~~p~~l~~~~~~~~l~~~~~~l~~e~~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~ 172 (460)
+|.++.+.+++.... .+.+++++....++++++.+.+.++++.+..+.|.+++++.+.+.+.+
T Consensus 479 ~t~~v~l~va~v~~~-----------------l~~r~r~~a~~a~~re~~~~~L~els~~L~~a~~~~~i~~~~~~~l~~ 541 (895)
T PRK10490 479 LTFAVMLTVGLVIGN-----------------LTAGVRYQARVARYREQRTRHLYEMSKALAVGLSPEDIAATSEHFLAS 541 (895)
T ss_pred HHHHHHHHHHHHHHH-----------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence 333333333322211 224445555556778888999999999999999999999999999999
Q ss_pred hcCCceeEEeccCCCCCceEEEEeecCCccCCcccccCChhHHHHhhccCceeecCCCchhhhhhcccCCCCCcceEEEe
Q 012575 173 TLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRV 252 (460)
Q Consensus 173 ~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (460)
.++.+ +.+|++++++.........+ ..+.+.......+....+.... .. ..+......+
T Consensus 542 ~~~~~-~~l~l~~~~g~~~~~~~~~~-------~~~~~~~~~~w~~~~~~~~g~~-----------~~--tl~~~~~~~l 600 (895)
T PRK10490 542 TFQAR-SQLLLPDDNGKLQPLTHDQG-------MTPWDDAIARWSFDKGQPAGAG-----------TD--TLPGVPYQIL 600 (895)
T ss_pred hhCCC-EEEEEEcCCCcccccccccc-------ccchHHHHHHHHHhcCCccccC-----------cC--cCCCCceEEE
Confidence 99965 55778776654321111100 0111111112222221111000 00 0111222334
Q ss_pred eccccCCccccCCCcccCCceeEEEEEeeCCC-CCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 253 PLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-GRKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALD 331 (460)
Q Consensus 253 pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~-~~~~~~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~ 331 (460)
|+ ..++..+|++++.... ...|++++..+++.++.+++.++++.....+..+.
T Consensus 601 Pl--------------~~~~~~~Gvl~l~~~~~~~~~~~~~~~ll~~la~~~a~aler~~l~~~~~~~------------ 654 (895)
T PRK10490 601 PL--------------KSAQKTYGLLAVEPGNLRQLMIPEQQRLLETFTLLIANALERLTLTASEEQA------------ 654 (895)
T ss_pred EE--------------EECCEEEEEEEEecCcccccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------
Confidence 43 3344557777776554 35688889999999999999999877654332111
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC
Q 012575 332 SARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGS 409 (460)
Q Consensus 332 ~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~--~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~ 409 (460)
+...+.++.|++|++.+||||||||++|.|+++++..+ ..+.+..+.++.|.+++.++.++|+++++++|++.|.
T Consensus 655 ---~l~~e~e~lr~~lla~isHELrtPLt~I~g~~~lL~~~l~~~~~~~~~~~~~i~~~~~~l~~li~~LL~~srl~~~~ 731 (895)
T PRK10490 655 ---RLASEREQLRNALLAALSHDLRTPLTVLFGQAEILTLDLASEGSPHARQASEIRQQVLNTTRLVNNLLDMARIQSGG 731 (895)
T ss_pred ---HHHHHHHHHHHHHHHHhHHHHhHHHHHHHHHHHHHhhcccccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence 11122346778999999999999999999999988743 2233445778999999999999999999999999999
Q ss_pred cccccccccHHHHHHHHHHHHhhhc-ccceEeec
Q 012575 410 LELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGT 442 (460)
Q Consensus 410 ~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~ 442 (460)
..++.+++++.+++++++..+.+.. +.++.++.
T Consensus 732 ~~l~~~~~~L~eli~~~l~~l~~~~~~~~i~l~~ 765 (895)
T PRK10490 732 FNLRKEWLTLEEVVGSALQMLEPGLSGHPINLSL 765 (895)
T ss_pred CcccccccCHHHHHHHHHHHHHHHhcCCCEEEEc
Confidence 9999999999999999998887765 45555554
No 3
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=99.83 E-value=1.2e-22 Score=217.75 Aligned_cols=445 Identities=41% Similarity=0.516 Sum_probs=365.9
Q ss_pred CCCCCCCC--CCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcCCCc-hHHHHHHHHHHHHHHHHHHHHHHHh-hc
Q 012575 2 ESCDCIDT--QWPPDELLVRYQYISDILIALAYFSIPVELIYFVQKSAFFP-YRWVLMQFGSFIILCGLTHFISLWT-FT 77 (460)
Q Consensus 2 ~~~~~~~~--~~~~~~~~~~~~~~~d~~i~~~~~~i~~~l~~~~~~~~~~~-~~~~~~~~~~fi~~cg~~hl~~~~~-~~ 77 (460)
..|||.|. .+.........++.+|.+|+.|||++|.+++||..+...+| +.|+...|.+|+..||.+|....|+ ..
T Consensus 30 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~p~~~l~~~~~~~~~~~~~~~~~~~~~~~~~c~~~~~~~~~~~~~ 109 (786)
T KOG0519|consen 30 DLCNCLDSPYSERSVLTALKPQISSDFLIASAYFSIPIELLYFVSKSAVFPLEAGVLSEFIAFDNLCGATHLLNGWTSYT 109 (786)
T ss_pred hhhhccccCccccchhhhhhhhhhhhhhhhhHhhccchhhcccccccccccceeccccchhhhhhhhhhcccchhhhcCC
Confidence 57999974 66665556678999999999999999999999999999875 9999999999999999999999999 44
Q ss_pred cchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 78 VHSKAVAVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTRELFLKNR---ADELDREMGLILTQEETGRHVRMLTHEIR 154 (460)
Q Consensus 78 ~~~~~~~~~~~~~k~~ta~~s~~~a~~l~~~~p~~l~~~~~~~~l~~~---~~~l~~e~~~l~~~~e~~~~l~~lt~~I~ 154 (460)
.+...++-..+..+..++.+++.++......+|..+..+.++..++++ ..++.++........+.....+..+..++
T Consensus 110 ~~~~~~~~~~t~~~~~~~~~~~~~a~~~~~~lP~~~~~~~~~~~~~~~~~~~~~l~~~~~~i~~s~~~~~~~~~~~~~~~ 189 (786)
T KOG0519|consen 110 SHRKQLILSETSTAILTAVVSCLTALNLVEVLPLLLLVKNRELELKQKVLHAAELDYEVGLINTSLETLSIVRMLTHEIR 189 (786)
T ss_pred ccchhheeeeeheeheeeecccccccccccccchhhccchhhhhhhcccccchhhhhhhhhhhhhhheeeeeeeeeeehh
Confidence 444455556677889999999999999999999999999999999999 89999999998888888888999999999
Q ss_pred hcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCC----ccCCcccccCChhHHHHhhccCceeecCCC
Q 012575 155 STLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ----IQIGSSVPINLPIVTDVFNSAQAMRLPYNC 230 (460)
Q Consensus 155 ~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~ 230 (460)
.+.|.+.++..+..+..+.+..+.|..|.+...+......|.+..+ .......+..++....+.++.+.......+
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 9999999999999999999999999999999987665666666544 222334445566666666655544433333
Q ss_pred chhhhh-hcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHHHHHH-
Q 012575 231 PLARIR-LLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALS- 308 (460)
Q Consensus 231 ~~~~~~-~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a~ai~- 308 (460)
....+. ........+.....++++.+..++....+++.....+...+...+.+.++.|..++.++.+.++++++.++.
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 222221 122234556677888888887777666788888899999999988888899999999999999999999998
Q ss_pred -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHh-cCCCCHHHHHHHHHHH
Q 012575 309 -HAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLL-ETDLTPEQRVMIETVL 386 (460)
Q Consensus 309 -~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~-~~~~~~~~~~~l~~I~ 386 (460)
++...+.....++++..++..+..++++...+..++..+....+|..|+|.+.+.+....+. ...+.++..-.++...
T Consensus 350 t~~~~i~~~~~~~~~~~~~~~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~l~~~~~~~~~~~~~i~~~~ 429 (786)
T KOG0519|consen 350 THAGHLEESVIAREELSESNDVLLRAKEEAHMAGKARIDFLQKMSHAMRAPRHNIISLLSLLLQDIVLSPDSGLEIQTVM 429 (786)
T ss_pred cccceEEEEEEeehhcchhhHHHHhhhhhhhhccchhhhHHHHhccccccccccccccchhhHhheEeccCCceeEehhh
Confidence 88888888888888888888888888888888899999999999999999999999988554 4466677778889999
Q ss_pred HHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecCCCC
Q 012575 387 KSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKLAP 446 (460)
Q Consensus 387 ~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~~~ 446 (460)
+.++.+..+++.=.+.+|...|..........+..++++.+...++.. +.......++.+
T Consensus 430 ~~~~~~~~~~q~~~~~~~~~~gt~~~~~i~~~l~~l~~~~~~~~~~~~~~~t~~~~~~~~~ 490 (786)
T KOG0519|consen 430 RSSNVFTSLIQADPDITRLYGGTGLGESIVFSLVELMSGEISDISCISLGKTFSFTLDLLT 490 (786)
T ss_pred hhhhHHHHHhccccccccccCCCcccchhhccHHHHHHHHhhhhhhhccCceeeEEEEecc
Confidence 999999999999999999777766777788999999999999888886 444444444333
No 4
>PRK13837 two-component VirA-like sensor kinase; Provisional
Probab=99.75 E-value=4.3e-15 Score=163.22 Aligned_cols=278 Identities=12% Similarity=0.156 Sum_probs=174.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccHH--HHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCccc
Q 012575 130 DREMGLILTQEETGRHVRMLTHEIRSTLDRH--TILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSV 207 (460)
Q Consensus 130 ~~e~~~l~~~~e~~~~l~~lt~~I~~sld~~--~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~ 207 (460)
++..+.++++.+.++.+.+++..+..+.+.+ +.+..++..+.+.++.++|.+++.+.++........ +.......
T Consensus 263 ~~~~~~l~~r~~~e~~l~~l~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~~~~~~ 339 (828)
T PRK13837 263 RARTRVLRRRAAFEEVIAAISRCFEAASPHELEASIEAALGILAKFFDADSAALALVDVGGRARIWTFP---GLTPDPVW 339 (828)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCeeeccCC---ccCCCCCc
Confidence 3334445566777788899999888775555 899999999999999999999998887654432211 00000000
Q ss_pred ccC-ChhHHHHhhccCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCC-CC
Q 012575 208 PIN-LPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GG 285 (460)
Q Consensus 208 ~~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~-~~ 285 (460)
+.. .................+........ ......+....+.+|+ ..++...+++++... ..
T Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~--------------~~~~~~~g~l~~~~~~~~ 403 (828)
T PRK13837 340 PDRLRALASTVKAAERDVVFVDRNGPVRKR--SCLTRRGPALWACLAF--------------KSGDRIVALLGLGRQRYG 403 (828)
T ss_pred hHHHHHHHHHHhccCCceEEeecccchhhh--cccccCCcceEEEEEe--------------ccCCceEEEEEecccccC
Confidence 000 00111111122222221111100000 0000112222333332 233334555555433 23
Q ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHH
Q 012575 286 RKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIAL 365 (460)
Q Consensus 286 ~~~~~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~ 365 (460)
..|...+..+++.++.+++.++.+.+..++..+.++++++. +..+++++|++++||||||||++|.|+
T Consensus 404 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~e~~~l~~~l~~~------------~rl~~l~~~~~~iaHeLrtPL~~I~~~ 471 (828)
T PRK13837 404 LRPPAGELQLLELALDCLAHAIERRRLETERDALERRLEHA------------RRLEAVGTLASGIAHNFNNILGAILGY 471 (828)
T ss_pred CCCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHHHHHHHHHHHhhHHhhhHHHHHHHH
Confidence 35568899999999999999988877765544433333211 112467899999999999999999999
Q ss_pred HHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhcccceEeec
Q 012575 366 SSLLLET-DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQNFTYRVGT 442 (460)
Q Consensus 366 ~~lL~~~-~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a~~~~~l~~ 442 (460)
++++.+. ..+++.+++++.|.++++++.++|+++++++|.+.+ ..+++|+.+++++++..++.....++.+..
T Consensus 472 ~~~l~~~~~~~~~~~~~l~~i~~~~~rl~~li~~ll~~sr~~~~----~~~~~~l~~ll~~~~~~~~~~~~~~i~l~~ 545 (828)
T PRK13837 472 AEMALNKLARHSRAARYIDEIISAGARARLIIDQILAFGRKGER----NTKPFDLSELVTEIAPLLRVSLPPGVELDF 545 (828)
T ss_pred HHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCCC----CCcEEcHHHHHHHHHHHHHHHccCCcEEEE
Confidence 9998754 345567899999999999999999999999996543 457899999999999888765433334333
No 5
>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=99.73 E-value=2.7e-14 Score=153.71 Aligned_cols=248 Identities=17% Similarity=0.157 Sum_probs=163.2
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCcccccCChhHHHHhhccCcee
Q 012575 146 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMR 225 (460)
Q Consensus 146 l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 225 (460)
+.+.++.+.++.|.+++++.+++.+.+.++.+.+.+|+.++++..+.....++.+.. ....+.+.+........+..+.
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 467889999999999999999999999999999999999888765555544433221 1133334444443333332222
Q ss_pred ecCCCchhhhh--hcccC-CCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeC-CCCCcccccHHHHHHHHHH
Q 012575 226 LPYNCPLARIR--LLVGR-YVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPT-DGGRKWRDHELELIDVVAD 301 (460)
Q Consensus 226 l~~~~~~~~~~--~~~~~-~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~-~~~~~~~~~e~~ll~~ia~ 301 (460)
+.+........ ..... ........+.+|+. ..|+ ..|++++.. .+++.++.++.++++.++.
T Consensus 386 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~vPL~-------------~~~~-~~G~l~l~~~~~~~~~~~e~~~lL~~l~~ 451 (679)
T TIGR02916 386 LEEARSEPDHYSGLVLPEWLREIPNAWLIVPLI-------------SGEE-LVGFVVLARPRTAGEFNWEVRDLLKTAGR 451 (679)
T ss_pred chhhcCCcccccccccchhhhcCCCceEEEEec-------------cCCE-EEEEEEEecCCCCCCCCHHHHHHHHHHHH
Confidence 22111100000 00000 00112234455543 2333 355555544 3566899999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHH-HHH
Q 012575 302 QVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE-QRV 380 (460)
Q Consensus 302 ~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~-~~~ 380 (460)
|++.++++.+..++..+.+ + .+..+++.+.++||+|||++.+.+..+...+...+++ .++
T Consensus 452 q~a~~l~~~~~~~~l~~~~---------------~----~~~~~~~~a~i~HdLrn~l~~l~~~l~~~~~~~~~~~~~~~ 512 (679)
T TIGR02916 452 QAASYLAQMEASEALAEAR---------------Q----FEAFNRMSAFVVHDLKNLVAQLSLLLRNAERHKDNPEFQDD 512 (679)
T ss_pred HHHHHHHHHHHHHHHHHHH---------------H----HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhcccCHHHHHH
Confidence 9999998877654432211 0 1344578899999999999999988887765544444 567
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhh
Q 012575 381 MIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVL 433 (460)
Q Consensus 381 ~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~ 433 (460)
.++.+.++.+++.++++++.+.. ...+.+++++.++++++.+..+..
T Consensus 513 ~l~~i~~~~~rl~~ll~~l~~~~------~~~~~~~~~l~~ll~~~~~~~~~~ 559 (679)
T TIGR02916 513 MLETVENAVNRMKKLLAQLRSKG------LEEEKLCVDLVDLLRRAIASKRAQ 559 (679)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcc------cccCCccccHHHHHHHHHHHhhhh
Confidence 88999999999999998875443 245667899999999999876654
No 6
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.69 E-value=8.9e-15 Score=160.23 Aligned_cols=107 Identities=31% Similarity=0.506 Sum_probs=95.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccc
Q 012575 336 EAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNG 415 (460)
Q Consensus 336 ~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~ 415 (460)
+++++++.|++|++++|||+||||++|.|+++++.+...+++++++++.|.++++++.++++++++++|++.+...++++
T Consensus 275 ~l~~a~~~~~~~~a~isHelrtPL~~I~g~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~~~~~~~~~~~~~ 354 (779)
T PRK11091 275 ALEKASRDKTTFISTISHELRTPLNGIVGLSRILLDTELTAEQRKYLKTIHVSAITLGNIFNDIIDMDKMERRKLQLDNQ 354 (779)
T ss_pred HHHHHHHHHHHHHHHhhHhhcCcHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHhCCCcEEEee
Confidence 34455678899999999999999999999999998888888999999999999999999999999999999999999999
Q ss_pred cccHHHHHHHHHHHHhhhc-ccceEeec
Q 012575 416 PFNLQIVLREVIIFSSVLQ-NFTYRVGT 442 (460)
Q Consensus 416 ~~~L~~li~~v~~~~~~~a-~~~~~l~~ 442 (460)
++|+.++++++...+.+.+ ..++.+..
T Consensus 355 ~~~l~~~i~~~~~~~~~~~~~~~i~~~~ 382 (779)
T PRK11091 355 PIDFTDFLADLENLSGLQAEQKGLRFDL 382 (779)
T ss_pred ccCHHHHHHHHHHHHHHHHHhcCCEEEE
Confidence 9999999999999988886 33344433
No 7
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=99.63 E-value=2.8e-13 Score=135.01 Aligned_cols=121 Identities=24% Similarity=0.314 Sum_probs=100.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhc---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012575 328 VALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLE---TDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (460)
Q Consensus 328 ~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~---~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr 404 (460)
+++.+.+.+++++|+....|.+.+|||||+||+.|.+|+++|.+ +..+++.++++..+.+.+.+|.+||++++.+|+
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 34555667888888889999999999999999999999999975 467889999999999999999999999999999
Q ss_pred hhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecCCCCCCcc
Q 012575 405 LEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKLAPCSSC 450 (460)
Q Consensus 405 ~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~~~~~~~ 450 (460)
+. ......++.|+.++++++...++... +..+.+.....|...+
T Consensus 588 l~--~~~~~l~~td~~~vv~~vl~~l~~ri~dtgaei~i~~lp~v~~ 632 (750)
T COG4251 588 LG--LTEAPLQPTDVQKVVDKVLLELSQRIADTGAEIRIAPLPVVAA 632 (750)
T ss_pred hc--cccCCCCCcchHHHHHHHHHhcccccccccceEEecccceeec
Confidence 95 44555678999999999998888775 5556666655554443
No 8
>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=99.60 E-value=6e-15 Score=109.49 Aligned_cols=66 Identities=36% Similarity=0.652 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHhc-CCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLE-TDLTPEQ-RVMIETVLKSSNLLTTLVDDVLDLSRLEDG 408 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~~-~~~~~~~-~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g 408 (460)
+|++|++++||||||||++|.++++++.+ ...++++ +++++.|.++++++.++|+++++|+|.|+|
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 46799999999999999999999999998 7788887 899999999999999999999999999987
No 9
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=99.57 E-value=2.5e-14 Score=156.00 Aligned_cols=117 Identities=24% Similarity=0.279 Sum_probs=105.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012575 325 EQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (460)
Q Consensus 325 ~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr 404 (460)
..+++++++++++++.+++|.+|++++||||||||++|.|+++++.+...+++++++++.|.++++++.++|+++++++|
T Consensus 431 ~~~~~L~~a~~~le~~~~~k~~fla~iSHELRtPL~aI~g~~elL~~~~~~~~~~~~l~~I~~~~~~L~~lI~dILdlsr 510 (894)
T PRK10618 431 LVNKKLQQAQREYEKNQQARKAFLQNIGDELKQPLQSLAQLAAQLRQTSDEEQQQPELDQLAEQSDVLVRLVDNIQLLNM 510 (894)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34557888888999999999999999999999999999999999987777888899999999999999999999999999
Q ss_pred hhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEee
Q 012575 405 LEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVG 441 (460)
Q Consensus 405 ~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~ 441 (460)
+++|+..++.+++++.+++++++..+.+.+ ..++.+.
T Consensus 511 le~~~~~l~~~~~~L~~ll~~vl~~~~~~a~~k~i~l~ 548 (894)
T PRK10618 511 LETQDWKPEQELFSLQDLIDEVLPEVLPAIKRKGLQLL 548 (894)
T ss_pred hhcCCCcccceeECHHHHHHHHHHHHHHHHHHCCCEEE
Confidence 999999999999999999999999988886 3444443
No 10
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=99.57 E-value=2.2e-14 Score=158.31 Aligned_cols=119 Identities=24% Similarity=0.326 Sum_probs=105.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012575 325 EQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (460)
Q Consensus 325 ~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr 404 (460)
+..++++++++++++++++|.+|++++||||||||++|.|++++|.....+++.+++++.|.+++++|.++|+++++++|
T Consensus 428 ~~e~~L~~~~~~~e~a~~~k~~fla~iSHELRTPL~~I~g~lelL~~~~~~~~~~~~l~~i~~~~~~L~~lI~dlLd~sr 507 (924)
T PRK10841 428 KMEESLQEMAQAAEQASQSKSMFLATVSHELRTPLYGIIGNLDLLQTKELPKGVDRLVTAMNNSSSLLLKIISDILDFSK 507 (924)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456777888888999999999999999999999999999999988788888899999999999999999999999999
Q ss_pred hhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 405 LEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 405 ~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
++++...++.+++++.+++++++..+.+.+ .+++.+...
T Consensus 508 ie~~~~~l~~~~~~l~~li~~v~~~~~~~~~~k~i~l~~~ 547 (924)
T PRK10841 508 IESEQLKIEPREFSPREVINHITANYLPLVVKKRLGLYCF 547 (924)
T ss_pred hcCCCceeeeEEecHHHHHHHHHHHHHHHHHHcCcEEEEE
Confidence 999999999999999999999999888876 444444443
No 11
>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=99.56 E-value=1e-13 Score=155.66 Aligned_cols=115 Identities=30% Similarity=0.464 Sum_probs=102.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCc
Q 012575 331 DSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSL 410 (460)
Q Consensus 331 ~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~ 410 (460)
+++++++++++++|.+|++++||||||||++|.|+++++.+...+++++++++.|.+++++|..+++++++++|+|.|..
T Consensus 451 ~~~~~~~~~~~~~~~~~~~~~sHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~~i~~ll~~~~~e~~~~ 530 (968)
T TIGR02956 451 AKARAEAEEANRAKSAFLATMSHEIRTPLNGILGTLELLGDTGLTSQQQQYLQVINRSGESLLDILNDILDYSKIEAGHL 530 (968)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHhhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence 44566778888999999999999999999999999999998888899999999999999999999999999999999999
Q ss_pred ccccccccHHHHHHHHHHHHhhhc-ccceEeecCCC
Q 012575 411 ELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKLA 445 (460)
Q Consensus 411 ~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~~ 445 (460)
.++++++++.+++++++..+.+.+ ..++.+..+..
T Consensus 531 ~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~~ 566 (968)
T TIGR02956 531 SISPRPFDLNALLDDVHHLMVSRAQLKGIQLRLNIP 566 (968)
T ss_pred eeeecccCHHHHHHHHHHHHHHHHHHcCcEEEEEeC
Confidence 999999999999999999999887 34444444433
No 12
>PRK11107 hybrid sensory histidine kinase BarA; Provisional
Probab=99.53 E-value=2.7e-13 Score=151.32 Aligned_cols=121 Identities=36% Similarity=0.550 Sum_probs=106.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 322 ~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
+++.++.+++.++++++++++.|.+|++++||||||||++|.|+++.+.+...+++++++++.|.++++++.++|+++++
T Consensus 271 ~l~~~~~~l~~~~~~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~ 350 (919)
T PRK11107 271 QMEIQNVELDLAKKRAQEAARIKSEFLANMSHELRTPLNGVIGFTRQTLKTPLTPTQRDYLQTIERSANNLLAIINDILD 350 (919)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhcccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445556777788888899999999999999999999999999999988888888999999999999999999999999
Q ss_pred HhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeec
Q 012575 402 LSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGT 442 (460)
Q Consensus 402 ~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~ 442 (460)
++|++.|+..++..++++.+++++++..+.+.+ ..++.+..
T Consensus 351 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~i~~~~ 392 (919)
T PRK11107 351 FSKLEAGKLVLENIPFSLRETLDEVVTLLAHSAHEKGLELTL 392 (919)
T ss_pred HHHHhcCCcEEEEeecCHHHHHHHHHHHHHHHHHHcCCEEEE
Confidence 999999999999999999999999999998876 33344333
No 13
>PRK15347 two component system sensor kinase SsrA; Provisional
Probab=99.52 E-value=1.7e-13 Score=153.06 Aligned_cols=121 Identities=25% Similarity=0.367 Sum_probs=106.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 322 ~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
+++++.+++++++++++++++.+.+|++++||||||||++|.|+++++.+...+++++++++.|.+++++|..+|+++++
T Consensus 376 ~~~e~~~~l~~~~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~li~~ll~ 455 (921)
T PRK15347 376 KVAERTQALAEAKQRAEQANKRKSEHLTTISHEIRTPLNGVLGALELLQNTPLTAEQMDLADTARQCTLSLLAIINNLLD 455 (921)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHhchhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455566777778888888999999999999999999999999999998888899999999999999999999999999
Q ss_pred HhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeec
Q 012575 402 LSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGT 442 (460)
Q Consensus 402 ~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~ 442 (460)
++|+|.|...++.+++++.++++++...+.+.+ ..++.+..
T Consensus 456 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 497 (921)
T PRK15347 456 FSRIESGQMTLSLEETALLPLLDQAMLTIQGPAQSKSLTLRT 497 (921)
T ss_pred HHHHhcCCccceecccCHHHHHHHHHHHHHHHHHHCCcEEEE
Confidence 999999999999999999999999998888776 44444443
No 14
>PRK11466 hybrid sensory histidine kinase TorS; Provisional
Probab=99.47 E-value=9.3e-13 Score=146.96 Aligned_cols=126 Identities=29% Similarity=0.418 Sum_probs=106.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 319 ARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDD 398 (460)
Q Consensus 319 ~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~ 398 (460)
..+++++...++++++++.++.+++|.+|++++||||||||++|.|+++++.+...+++.+++++.|.++++++..+|++
T Consensus 419 ~~~el~~~~~~~~~~~~~~~~~~~~~~~~l~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~l~~i~~~~~~l~~li~~ 498 (914)
T PRK11466 419 RTAELQELVIEHRQARAEAEKASQAKSAFLAAMSHEIRTPLYGILGTAQLLADNPALNAQRDDLRAITDSGESLLTILND 498 (914)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33445555556667777888888999999999999999999999999999988878888899999999999999999999
Q ss_pred HHHHhhhhcCC--cccccccccHHHHHHHHHHHHhhhc-ccceEeecCC
Q 012575 399 VLDLSRLEDGS--LELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKL 444 (460)
Q Consensus 399 LL~~sr~e~g~--~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~ 444 (460)
++++++++.|. ..++.+++++.+++++++..+.+.+ ..++.+..+.
T Consensus 499 ll~~s~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~~~~~~ 547 (914)
T PRK11466 499 ILDYSAIEAGGKNVSVSDEPFEPRPLLESTLQLMSGRVKGRPIRLATDI 547 (914)
T ss_pred HHHHHHHhCCCCcceecccccCHHHHHHHHHHHHHHHHHhCCcEEEEEe
Confidence 99999999874 5677899999999999999998886 4445544443
No 15
>PRK09303 adaptive-response sensory kinase; Validated
Probab=99.45 E-value=2e-12 Score=129.55 Aligned_cols=123 Identities=15% Similarity=0.198 Sum_probs=101.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCC-------HHHHHHHHHHHHHHHHHHH
Q 012575 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLT-------PEQRVMIETVLKSSNLLTT 394 (460)
Q Consensus 322 ~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~-------~~~~~~l~~I~~~~~rl~~ 394 (460)
++.+....++++++++++..+.+++|++++||||||||++|.++++++.+...+ +..+++++.+.++++++.+
T Consensus 129 ~l~~~~~~l~~~~~~l~e~~~~~~~l~~~iaHeLrtPLt~i~~~~e~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~ 208 (380)
T PRK09303 129 QLSDELFVLRQENETLLEQLKFKDRVLAMLAHDLRTPLTAASLALETLELGQIDEDTELKPALIEQLQDQARRQLEEIER 208 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhcchHHHHHHHHHHHhccCccccchhhHHHHHHHHHHHHHHHHHHHH
Confidence 344555556677777777778899999999999999999999999999854222 3367899999999999999
Q ss_pred HHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecCC
Q 012575 395 LVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKL 444 (460)
Q Consensus 395 LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~ 444 (460)
+|+++++++|.+.+...++++++|+.+++++++..+.+.. ..++.+..+.
T Consensus 209 li~~ll~~~~~~~~~~~~~~~~~~l~~ll~~~~~~~~~~~~~~~i~l~~~~ 259 (380)
T PRK09303 209 LITDLLEVGRTRWEALRFNPQKLDLGSLCQEVILELEKRWLAKSLEIQTDI 259 (380)
T ss_pred HHHHHHHHHHhhcCCceeccccCCHHHHHHHHHHHHHHHHHHcCCEEEEEc
Confidence 9999999999999999899999999999999999888875 4444444443
No 16
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=99.38 E-value=1.2e-12 Score=122.08 Aligned_cols=93 Identities=24% Similarity=0.375 Sum_probs=84.2
Q ss_pred HHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccccccc
Q 012575 341 IHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE--QRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFN 418 (460)
Q Consensus 341 ~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~--~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~ 418 (460)
++.+.+|.+++|||||||||++.+|++.|.++...++ ...++..-.+.++||.+||||||.+||++.++..++.+.+|
T Consensus 222 e~ErRefvanvSHElRTPltsmksyLEALe~ga~~d~eiAp~Fl~vt~~ETeRMiRlV~DLl~lsr~d~~~~qln~e~in 301 (459)
T COG5002 222 ERERREFVANVSHELRTPLTSMKSYLEALEEGAWEDKEIAPRFLRVTLNETERMIRLVNDLLQLSRMDNARYQLNKEWIN 301 (459)
T ss_pred HHHHHHHHHhcchhhcCchHHHHHHHHHHhcCCccChhhhhHHHHHhHHHHHHHHHHHHHHHHHccCcchhhhhhHHHHH
Confidence 3667789999999999999999999999998754333 56899999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhh
Q 012575 419 LQIVLREVIIFSSVL 433 (460)
Q Consensus 419 L~~li~~v~~~~~~~ 433 (460)
+...+.++++.+...
T Consensus 302 ft~fl~~ii~R~e~~ 316 (459)
T COG5002 302 FTAFLNEIINRFEMI 316 (459)
T ss_pred hHHHHHHHHHHHHHH
Confidence 999999999877766
No 17
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=99.31 E-value=4.5e-10 Score=120.80 Aligned_cols=185 Identities=18% Similarity=0.207 Sum_probs=135.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecC--Cc--cCCcccc
Q 012575 133 MGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNN--QI--QIGSSVP 208 (460)
Q Consensus 133 ~~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~--~~--~~~~~~~ 208 (460)
.+.++++.+..+.+.++++.+.+..|+++++..+++.+.+.+++++|.|+++++++..+......+. .. ..+...+
T Consensus 174 ~~~L~~~r~~~~~L~eIs~~l~s~~dl~ell~~I~~~i~~~~~a~~~~I~L~d~~~~~L~~~aa~g~~~~~~~~~~~~~~ 253 (686)
T PRK15429 174 YELLCRERDNFRILVAITNAVLSRLDMDELVSEVAKEIHYYFDIDAISIVLRSHRKNKLNIYSTHYLDKQHPAHEQSEVD 253 (686)
T ss_pred HHHHHhhHHHHHHHHHHHHHHccCCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCcEEEEEecccChhhcccccccCC
Confidence 3334444455788999999999999999999999999999999999999999998877765443332 11 1233445
Q ss_pred cCChhHHHHhhccCceeecCCCchhhhhhcc---cCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCC
Q 012575 209 INLPIVTDVFNSAQAMRLPYNCPLARIRLLV---GRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGG 285 (460)
Q Consensus 209 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~ 285 (460)
...+....++.++++..+.+...+....... .....+....+.+||. .++..+||+.+...+.
T Consensus 254 ~~~~l~g~V~~~~~p~lv~~~~~d~~~~~~~~~~~~~~~~~~s~l~vPL~--------------~~~~v~GvL~l~~~~~ 319 (686)
T PRK15429 254 EAGTLTERVFKSKEMLLINLHERDDLAPYERMLFDTWGNQIQTLCLLPLM--------------SGDTMLGVLKLAQCEE 319 (686)
T ss_pred cccchHHHHHhcCceEEEECccCcccchhhhhhhhcccccceEEEEEeEE--------------ECCEEEEEEEEeeCCC
Confidence 5567889999999999886554432211100 0111223455566653 4445688888876667
Q ss_pred CcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 286 RKWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALD 331 (460)
Q Consensus 286 ~~~~~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~ 331 (460)
..|++++++++..+|+++|+|++++..+++.++..+++++++..+.
T Consensus 320 ~~F~~~dl~lL~~iA~~~A~Aie~a~~~~~~~~~~~~L~~e~~~lt 365 (686)
T PRK15429 320 KVFTTTNLKLLRQIAERVAIAVDNALAYQEIHRLKERLVDENLALT 365 (686)
T ss_pred CcCCHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhhhhhHHHHHH
Confidence 8999999999999999999999999999998888877776654443
No 18
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=99.28 E-value=1.6e-09 Score=110.47 Aligned_cols=100 Identities=19% Similarity=0.237 Sum_probs=82.8
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHH
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 420 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~-~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~ 420 (460)
+++.+|++++||||||||++|.|+++++.+.. .++..+++++.|.+++++|.++++++++++|.+.+......+++++.
T Consensus 202 ~~~~~~~~~isHelrtPL~~i~~~~~~l~~~~~~~~~~~~~l~~i~~~~~~l~~li~~ll~~~r~~~~~~~~~~~~~~~~ 281 (430)
T PRK11006 202 GARRNFFANVSHELRTPLTVLQGYLEMMQDQPLEGALREKALHTMREQTQRMEGLVKQLLTLSKIEAAPTIDLNEKVDVP 281 (430)
T ss_pred HHHHHHHHHhHHHhcchHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcccCCccCHH
Confidence 45568999999999999999999999998654 34556789999999999999999999999999988777777899999
Q ss_pred HHHHHHHHHHhhhcccceEee
Q 012575 421 IVLREVIIFSSVLQNFTYRVG 441 (460)
Q Consensus 421 ~li~~v~~~~~~~a~~~~~l~ 441 (460)
.+++.+..........++.+.
T Consensus 282 ~~~~~l~~~~~~~~~~~~~i~ 302 (430)
T PRK11006 282 MMLRVLEREAQTLSQGKHTIT 302 (430)
T ss_pred HHHHHHHHHHHHHhcCCcEEE
Confidence 999888877666643333333
No 19
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=99.27 E-value=3e-11 Score=138.54 Aligned_cols=112 Identities=22% Similarity=0.362 Sum_probs=94.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 012575 330 LDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE-QRVMIETVLKSSNLLTTLVDDVLDLSRLEDG 408 (460)
Q Consensus 330 L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~-~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g 408 (460)
++++++++.+.++++++|++++||||||||++|.|+++++.+...+++ ..++++.+.++++++.++|+++++++|++++
T Consensus 698 l~~~~~~~~~~~~~~~~~~~~isHelrtPL~~i~~~~~ll~~~~~~~~~~~~~l~~~~~~~~~l~~li~~ll~~~~~~~~ 777 (1197)
T PRK09959 698 LEVERNKAINATVAKSQFLATMSHEIRTPISSIMGFLELLSGSGLSKEQRVEAISLAYATGQSLLGLIGEILDVDKIESG 777 (1197)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcChhhCccHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 344455566667889999999999999999999999999986555544 4578999999999999999999999999999
Q ss_pred CcccccccccHHHHHHHHHHHHhhhc-ccceEee
Q 012575 409 SLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVG 441 (460)
Q Consensus 409 ~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~ 441 (460)
...++++++++.+++++++..+.+.+ ..++.+.
T Consensus 778 ~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~i~~~ 811 (1197)
T PRK09959 778 NYQLQPQWVDIPTLVQNTCHSFGAIAASKSIALS 811 (1197)
T ss_pred CceeeeeeeCHHHHHHHHHHHHHHHHHhcCcEEE
Confidence 99999999999999999999888776 3444443
No 20
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=99.15 E-value=6.3e-10 Score=102.59 Aligned_cols=107 Identities=19% Similarity=0.176 Sum_probs=92.8
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHH
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~ 421 (460)
++-..++++.+||+||||.+|.|.+++|...-.++..++|.+.|.++++|+.+||+.+.-|+- +.+.+..++|+++
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 566689999999999999999999999988766666899999999999999999999977764 3456677999999
Q ss_pred HHHHHHHHHhhhcccceEeecCCCCCCcccc
Q 012575 422 VLREVIIFSSVLQNFTYRVGTKLAPCSSCMR 452 (460)
Q Consensus 422 li~~v~~~~~~~a~~~~~l~~~~~~~~~~~~ 452 (460)
+++.|...++..+..++.+..+.+|..+.+.
T Consensus 206 VLerV~~lv~~e~~~~i~l~rdYDPSLP~v~ 236 (363)
T COG3852 206 VLERVRALVEAEFADNVRLIRDYDPSLPEVL 236 (363)
T ss_pred HHHHHHHHHhcccCCceEEeecCCCCCcccc
Confidence 9999999999988888999998888766543
No 21
>PRK11061 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional
Probab=99.12 E-value=7.5e-09 Score=111.14 Aligned_cols=270 Identities=15% Similarity=0.132 Sum_probs=174.3
Q ss_pred HHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCc--cCCcccccCChhHHHHhhcc
Q 012575 144 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI--QIGSSVPINLPIVTDVFNSA 221 (460)
Q Consensus 144 ~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 221 (460)
..+.++++.+.++.|++++|+.+++.+.+.+++++|.+|+.++++..+......+.+. .....++.+.+.+..+..++
T Consensus 3 ~~L~eIs~~L~s~~dL~e~L~~Iv~~~~~~l~~d~~sI~L~D~~~~~L~~~as~Gl~~~~~~~~~l~~geGi~G~Va~tg 82 (748)
T PRK11061 3 TRLREIVEKVASAPRLNEALDILVTETCLAMDTEVCSVYLADHDRRCYYLMATRGLKKPRGRTVTLAFDEGIVGLVGRLA 82 (748)
T ss_pred HHHHHHHHHHhccCCHHHHHHHHHHHHHHHhCCCEEEEEEEECCCCEEEEEEeeCCChHhccceeccCCcchHHHHhccC
Confidence 3578999999999999999999999999999999999999999887777666655422 12234566788899999999
Q ss_pred CceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHH
Q 012575 222 QAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVAD 301 (460)
Q Consensus 222 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~ 301 (460)
+++.+.+...+.++.........+..+.+.+||.. ++..+|++.+.+..++.|++++.+++..+|.
T Consensus 83 ~pV~V~Dv~~dprf~~~~~~~~~~~~S~L~VPL~~--------------~geVIGVL~v~~~~~~~Fs~~d~~lL~~LA~ 148 (748)
T PRK11061 83 EPINLADAQKHPSFKYIPSVKEERFRAFLGVPIIY--------------RRQLLGVLVVQQRELRQFDESEESFLVTLAT 148 (748)
T ss_pred ceEEECCcccCcccccCccccCccceEEEEEEEee--------------CCEEEEEEEEeeCCCCCCCHHHHHHHHHHHH
Confidence 99999988776665432221223446677777642 3347999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHH-----------------------------------HHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 302 QVAVALSHAAILEDSMRARNQ-----------------------------------LMEQNVALDSARREAEKAIHARND 346 (460)
Q Consensus 302 ~~a~ai~~a~l~~~~~~~~~~-----------------------------------l~~~~~~L~~~~~~l~~~~~~k~~ 346 (460)
++|+|++|++..+.....+.. .+.+.+.++++ .+++.+...+
T Consensus 149 ~aAiAL~na~l~~~~~~~~~~~l~G~~~s~Gia~G~~~~~~~~~~~~~~~~~~~~~~e~E~~Rl~~A---~~~a~~eL~~ 225 (748)
T PRK11061 149 QLAAILSQSQLTALFGQYRQTRIRALPASPGVAIAEGWQDATQPLLEQVYPASTLDPALERERLTGA---LEEAANEFRR 225 (748)
T ss_pred HHHHHHHHHhhccccccccccccCceEccCeEEEEEEEEeccccccccccCCCCCCHHHHHHHHHHH---HHHHHHHHHH
Confidence 999999999988776321110 11111122222 1212122223
Q ss_pred HHHHHHHHhHhHHHHHHH-HHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhhcCCcccccccccHHHHHH
Q 012575 347 FRAVMNHEMRTLMHAIIA-LSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD-LSRLEDGSLELDNGPFNLQIVLR 424 (460)
Q Consensus 347 f~~~iSHELRtPLt~I~g-~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~-~sr~e~g~~~l~~~~~~L~~li~ 424 (460)
+...++.++...-..|.. ...+|.+..+..+..+.+..=.....-....++++.+ |.++++. -+.-+..|+.++-+
T Consensus 226 l~~~~~~~~g~~~a~If~ah~~mL~D~~l~~~v~~~I~~~~~Ae~Av~~~~~~~~~~f~~~dd~--ylreRa~Di~Dv~~ 303 (748)
T PRK11061 226 YSKRFAAGAQKETAAIFDLYSHLLNDPRLRRELFAEVDKGSVAEWAVKQVIEKFAEQFAALSDN--YLRERAGDLRALGQ 303 (748)
T ss_pred HHHHHHhhhCHHHHHHHHHHHHHhCCHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHhCCCH--HHHHHHHHHHHHHH
Confidence 333334444444455544 4555555444333333332212122233344444333 4555432 24456789999888
Q ss_pred HHHHHHhh
Q 012575 425 EVIIFSSV 432 (460)
Q Consensus 425 ~v~~~~~~ 432 (460)
.++..+..
T Consensus 304 Rvl~~L~g 311 (748)
T PRK11061 304 RLLFHLDD 311 (748)
T ss_pred HHHHHhCC
Confidence 88877754
No 22
>PRK10604 sensor protein RstB; Provisional
Probab=99.05 E-value=2.9e-09 Score=108.79 Aligned_cols=113 Identities=17% Similarity=0.201 Sum_probs=90.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012575 326 QNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRL 405 (460)
Q Consensus 326 ~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~ 405 (460)
....+.++.+++++..+.+.+|++++||||||||+.|.+.++++.+. +++.. +.+.+..+++.+++++++.++|+
T Consensus 194 L~~~fn~m~~~l~~~~~~~~~l~~~vsHeLrtPL~~i~~~l~~l~~~--~~~~~---~~i~~~~~~l~~li~~ll~~~rl 268 (433)
T PRK10604 194 LGVAFNQMADNINALIASKKQLIDGIAHELRTPLVRLRYRLEMSDNL--SAAES---QALNRDIGQLEALIEELLTYARL 268 (433)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhHhhcChHHHHHHHHHHhcCC--CcHHH---HHHHHHHHHHHHHHHHHHHHHhc
Confidence 33445555666677777888999999999999999999999988632 22222 23788899999999999999999
Q ss_pred hcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 406 EDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 406 e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
+.+......+++++.+++++++..++... +.++.++.+
T Consensus 269 ~~~~~~~~~~~~~l~~~l~~~i~~~~~~~~~~~i~~~~~ 307 (433)
T PRK10604 269 DRPQNELHLSEPDLPAWLSTHLADIQAVTPEKTVRLDTP 307 (433)
T ss_pred cCCCcccCCCCCCHHHHHHHHHHHHHHHhhcCcEEEEec
Confidence 99988889999999999999998887764 555555554
No 23
>smart00388 HisKA His Kinase A (phosphoacceptor) domain. Dimerisation and phosphoacceptor domain of histidine kinases.
Probab=99.05 E-value=1.1e-09 Score=79.78 Aligned_cols=64 Identities=44% Similarity=0.669 Sum_probs=57.6
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 012575 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLED 407 (460)
Q Consensus 344 k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~ 407 (460)
+++|++.++||+||||++|.++++.+.+...+++..++++.+.++++++..++++++++++.+.
T Consensus 2 ~~~~~~~i~Hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~v~~l~~~~~~~~ 65 (66)
T smart00388 2 KREFLANLSHELRTPLTAIRGYLELLEDTELSEEQREYLETILRSAERLLRLINDLLDLSRIEA 65 (66)
T ss_pred HHHHHHHHHHhccCcHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4579999999999999999999999887666666688999999999999999999999999764
No 24
>PRK10364 sensor protein ZraS; Provisional
Probab=99.00 E-value=9.2e-07 Score=91.01 Aligned_cols=98 Identities=17% Similarity=0.225 Sum_probs=80.3
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHH
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLET-DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 420 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~-~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~ 420 (460)
...++|.+++|||+||||++|.|+++++.+. ..+++.++.++.|.++++++.++++++++++|.. .....+++++
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 3456899999999999999999999998764 3445667889999999999999999999999843 3556789999
Q ss_pred HHHHHHHHHHhhhc-ccceEeecC
Q 012575 421 IVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 421 ~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
+++++++..+.+.+ ..++.++.+
T Consensus 311 ~~l~~~~~~~~~~~~~~~i~l~~~ 334 (457)
T PRK10364 311 DLINHSLQLVSQDANSREIQLRFT 334 (457)
T ss_pred HHHHHHHHHHHHHHHhcCeEEEEE
Confidence 99999999888775 444444443
No 25
>PRK10815 sensor protein PhoQ; Provisional
Probab=98.99 E-value=7.6e-09 Score=106.98 Aligned_cols=112 Identities=8% Similarity=0.053 Sum_probs=86.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC
Q 012575 330 LDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDG 408 (460)
Q Consensus 330 L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~-~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g 408 (460)
+.+..++.++..+...+|++++||||||||++|.++++.+.++. .+.+ +....+.+..+++.++++++++.++.+++
T Consensus 252 ln~~l~~~~~~~~~~~~~l~~isHELRTPLt~I~~~l~~L~~~~~~~~~--~~~~~~~~~i~ri~~~i~~ll~~~~~~~~ 329 (485)
T PRK10815 252 LNRLLKNERERYTKYRTTLTDLTHSLKTPLAVLQSTLRSLRSGKQMSVE--QAEPIMLEQISRISQQIGYYLHRASMRSE 329 (485)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhcCCCCCHH--HHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 33333444444455678999999999999999999999997653 3322 33456788899999999999999999998
Q ss_pred CcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 409 SLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 409 ~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
...+..+.+++.++++++++.+.... ..++.+..+
T Consensus 330 ~~~~~~~~~~l~~ll~~~~~~l~~~~~~~~i~i~~~ 365 (485)
T PRK10815 330 HNLLSRELHSVAPLLDNLTSALNKVYQRKGVNITLD 365 (485)
T ss_pred CcccccceecHHHHHHHHHHHHHHHHHHCCcEEEEe
Confidence 88888999999999999998888765 333444433
No 26
>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=98.97 E-value=1.6e-08 Score=109.12 Aligned_cols=122 Identities=14% Similarity=0.194 Sum_probs=102.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 322 ~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
++.+..+.+.++.+++++..+...+|.+.+|||+||||+.|.+.++.+.....+++..++++.+.++++++.++++++++
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 33444445556667777777888899999999999999999999999987777778888999999999999999999999
Q ss_pred HhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 402 LSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 402 ~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
++|++.+....+.+++|+.+++++++..+++.. +.++.++.+
T Consensus 543 ~arle~~~~~~~~~~~dl~~ll~~~i~~~~~~~~~~~i~l~i~ 585 (703)
T TIGR03785 543 ATRLEQAIQSAEVEDFDLSEVLSGCMQGYQMTYPPQRFELNIP 585 (703)
T ss_pred HHhhhcccccccceeecHHHHHHHHHHHHHHHhhcCCEEEEec
Confidence 999998877788899999999999999888775 445555544
No 27
>PRK10337 sensor protein QseC; Provisional
Probab=98.91 E-value=2.9e-08 Score=101.76 Aligned_cols=112 Identities=19% Similarity=0.193 Sum_probs=90.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 323 LMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPE-QRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 323 l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~-~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
+.+..+.+.+..+++++..+...+|++.+|||+|||++.|.+.++.+.....+++ ..++++.+.+.++++.++++++++
T Consensus 216 i~~l~~~~n~~~~~l~~~~~~~~~~~~~~ahelrtpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~ll~ 295 (449)
T PRK10337 216 VRPLVEALNQLFARTHAMMVRERRFTSDAAHELRSPLAALKVQTEVAQLSDDDPQARKKALLQLHAGIDRATRLVDQLLT 295 (449)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3333444555556666665666789999999999999999999988765544444 457899999999999999999999
Q ss_pred HhhhhcCCcccccccccHHHHHHHHHHHHhhhc
Q 012575 402 LSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ 434 (460)
Q Consensus 402 ~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a 434 (460)
++|.+.+......+++++.+++++++..+.+.+
T Consensus 296 ~~r~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 328 (449)
T PRK10337 296 LSRLDSLDNLQDVAEIPLEDLLQSAVMDIYHTA 328 (449)
T ss_pred HHhcCCCCCCCCCcccCHHHHHHHHHHHHHHHH
Confidence 999988776667889999999999998777664
No 28
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=98.90 E-value=1e-07 Score=99.84 Aligned_cols=160 Identities=13% Similarity=0.155 Sum_probs=120.3
Q ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCC--ccCCcccccCChhHHHHhhc
Q 012575 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ--IQIGSSVPINLPIVTDVFNS 220 (460)
Q Consensus 143 ~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 220 (460)
...+.++++.+.++.|++++++.+++.+.+.+++++|.|++.++++..+... ..+.. ......++...+....++.+
T Consensus 4 L~~L~~is~~l~~~~dl~~lL~~il~~l~~~l~a~~~~I~L~d~~~~~l~~a-a~g~~~~~~~~~~~~~~~gi~g~v~~~ 82 (534)
T TIGR01817 4 LAALYEISKILSAPTRLEKTLANVLNVLSNDLGMRHGLITLSDSEGEPLLVA-AIGWSEEGFAPIRYRVGEGAIGQIVAT 82 (534)
T ss_pred HHHHHHHHHHHhccCCHHHHHHHHHHHHHHhcCCCEEEEEEECCCCCEEEEE-EeCCChhhcccccccCCccHHHHHHhc
Confidence 4568999999999999999999999999999999999999998887654333 22221 11223455677889999999
Q ss_pred cCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCC-CCcccccHHHHHHHH
Q 012575 221 AQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-GRKWRDHELELIDVV 299 (460)
Q Consensus 221 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~-~~~~~~~e~~ll~~i 299 (460)
++++.+.+...+.++.........+..+.+++||. .++..+|++.+.+.. ++.|++++.+++..+
T Consensus 83 ~~pvii~Dv~~d~~~~~~~~~~~~~~~S~l~VPL~--------------~~g~viGvL~v~s~~~~~~ft~~d~~lL~~l 148 (534)
T TIGR01817 83 GNSLVVPDVAAEPLFLDRLSLYDPGPVPFIGVPIK--------------ADSETIGVLAADRDFRSRERLEEEVRFLEMV 148 (534)
T ss_pred CCeEEecccccCchhhhccccccCCcceEEEEEEc--------------CCCEEEEEEEEEeccccccccHHHHHHHHHH
Confidence 99999988877655532212222344667777763 344568888887764 567899999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012575 300 ADQVAVALSHAAILEDSM 317 (460)
Q Consensus 300 a~~~a~ai~~a~l~~~~~ 317 (460)
|.++|++|..++.+...+
T Consensus 149 A~~ia~aI~~~~~~~~~~ 166 (534)
T TIGR01817 149 ANLIGQTVRLHRLVAQRR 166 (534)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 999999998877766433
No 29
>PF13492 GAF_3: GAF domain; PDB: 3EEA_A 4DMZ_A 4DN0_A 1VHM_A.
Probab=98.90 E-value=2.9e-08 Score=82.85 Aligned_cols=129 Identities=22% Similarity=0.328 Sum_probs=96.0
Q ss_pred cHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCcccccCChhHHHHhhccCceeecCCCchhhhhh
Q 012575 158 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRL 237 (460)
Q Consensus 158 d~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 237 (460)
|++++++.+++.+.+.++++++.||+.++++..+......+........++...+....++.+.+.+..+......
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 6899999999999999999999999999998888887777443333336677888889999988876665433211
Q ss_pred cccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHHHHHHH
Q 012575 238 LVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSH 309 (460)
Q Consensus 238 ~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a~ai~~ 309 (460)
..+....+.+|+... +..+|++++....++.|++.+.++++.+|.++|++++|
T Consensus 77 -----~~~~~s~~~vPl~~~--------------~~~~Gvl~~~~~~~~~~~~~d~~~l~~~a~~~a~alen 129 (129)
T PF13492_consen 77 -----FLGIRSLLVVPLRSR--------------DRVIGVLCLDSREPEEFSDEDLQLLESLANQLAIALEN 129 (129)
T ss_dssp -----TTTTCEEEEEEEEET--------------TEEEEEEEEEECTTCG-SHHHHHHHHHHHHHHHHHHH-
T ss_pred -----CCCCCEEEEEEEeEC--------------CEEEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHhCC
Confidence 134456677776433 34588888887777899999999999999999999975
No 30
>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=98.86 E-value=4.2e-08 Score=100.61 Aligned_cols=123 Identities=24% Similarity=0.342 Sum_probs=100.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 321 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDV 399 (460)
Q Consensus 321 ~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~-~~~~~~~~l~~I~~~~~rl~~LI~~L 399 (460)
+++.+....+.+..+++++..+...++...+|||+||||+.+.+.++.+.... ..++..++++.+.+..+++.++++++
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 34555555666666777777777889999999999999999999999886543 34455688999999999999999999
Q ss_pred HHHhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 400 LDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 400 L~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
++++|.+.+...+..+++++.++++++.+.+.+.+ +.++.++.+
T Consensus 298 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~ 342 (457)
T TIGR01386 298 LFLARADNGQLALERVRLDLAAELAKVAEYFEPLAEERGVRIRVE 342 (457)
T ss_pred HHHHHhhcccccccccccCHHHHHHHHHHHHHHHHHhCCeEEEec
Confidence 99999999888889999999999999999887765 444544443
No 31
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=98.86 E-value=2.4e-08 Score=97.51 Aligned_cols=93 Identities=28% Similarity=0.417 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccH
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL 419 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~--~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L 419 (460)
+.+.+|.+.++||+||||+.|.++++.+... ..+++..++++.|.+.++++..+++++++++|.+.+......+++++
T Consensus 112 ~~~~~~~~~l~h~l~~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~~l 191 (333)
T TIGR02966 112 QMRRDFVANVSHELRTPLTVLRGYLETLADGPDEDPEEWNRALEIMLEQSQRMQSLVEDLLTLSRLESAASPLEDEPVDM 191 (333)
T ss_pred HHHHHHHHhhhhhhcccHHHHHHHHHHHHhcccCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCccccccccCH
Confidence 3455799999999999999999999998754 34556678999999999999999999999999998888888999999
Q ss_pred HHHHHHHHHHHhhhc
Q 012575 420 QIVLREVIIFSSVLQ 434 (460)
Q Consensus 420 ~~li~~v~~~~~~~a 434 (460)
.++++.+...+.+..
T Consensus 192 ~~~i~~~~~~~~~~~ 206 (333)
T TIGR02966 192 PALLDHLRDEAEALS 206 (333)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999888775
No 32
>PRK11644 sensory histidine kinase UhpB; Provisional
Probab=98.86 E-value=2.4e-07 Score=96.03 Aligned_cols=151 Identities=13% Similarity=0.118 Sum_probs=102.9
Q ss_pred cccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhHhHHHHHHHH
Q 012575 287 KWRDHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEK-AIHARNDFRAVMNHEMRTLMHAIIAL 365 (460)
Q Consensus 287 ~~~~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~-~~~~k~~f~~~iSHELRtPLt~I~g~ 365 (460)
.|.....+++..++.++...+.-....++.++..++++++.++.++..+++.+ .++.+.++.+.++||+||||++|.+.
T Consensus 244 ~~~~~~~~l~~~l~~~~l~gi~lg~~i~r~r~l~~~L~~~l~~~~~l~~~L~~~~e~~r~~ia~elhdeI~~pLtaI~~~ 323 (495)
T PRK11644 244 TWHDHPVDLLLSLLAQSLTGLLLGAGIQRQRELNQSLQKELARNRHLAERLLETEESVRRDVARELHDEIGQTITAIRTQ 323 (495)
T ss_pred hcCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHH
Confidence 34444556666777776554444444444444455555544444443333332 23567899999999999999999999
Q ss_pred HHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 366 SSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 366 ~~lL~~~~-~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
++++++.. .+++.++..+.|.+.++++.+.++++++..|. ...+++++.+.++++++.+.+.. +.+++++.+
T Consensus 324 a~ll~~~~~~~~~~~~~~~~I~~~~~~l~~~vr~LL~~lr~------~~l~~~~L~~~l~~l~~~l~~~~~~~~v~l~~~ 397 (495)
T PRK11644 324 AGIIKRLAADNASVKQSAQLIEQLSLGVYDTVRRLLGRLRP------RQLDDLTLEQAIRSLMREMELEDRGIVSHLDWR 397 (495)
T ss_pred HHHHHhhccCChHHHHHHHHHHHHHHHHHHHHHHHHhccCC------cccccCCHHHHHHHHHHHHHHhhcCceEEEEec
Confidence 99987643 34456688899999999999999999976652 23457899999999998777654 445555543
No 33
>PRK10600 nitrate/nitrite sensor protein NarX; Provisional
Probab=98.85 E-value=7.9e-05 Score=78.95 Aligned_cols=245 Identities=14% Similarity=0.105 Sum_probs=151.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCc-eEEEEeecCCccCCcccccCCh
Q 012575 134 GLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLN-LELSYTLNNQIQIGSSVPINLP 212 (460)
Q Consensus 134 ~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 212 (460)
..++++.+....++..++.+..+.+..+.++.++.++.+.++++...+.+.+++... +......+ .. .-..
T Consensus 210 ~~l~~~~~~l~~ly~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~-~~------~~~~- 281 (569)
T PRK10600 210 AGLEQKNQILSFLWQANRRLHSRAPLCERLSPVLNGLQNLTLLRDIELRVYETDDEENHQEFTCQS-DM------TCDD- 281 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCcchHHHHHHHHHHHHHhcCCCceEEEEeccccccceeeccCCC-cc------Cccc-
Confidence 335666666777899999999999999999999999999999999998876644332 11111000 00 0000
Q ss_pred hHHHHhhccCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccH
Q 012575 213 IVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHE 292 (460)
Q Consensus 213 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e 292 (460)
.... .+.. ...........+.+|+ ..+...+|++......+..+++++
T Consensus 282 --------~~~~----~~~~------~~~~~~~~~~~~~~~l--------------~~~~~~~G~~~~~~~~~~~l~~~~ 329 (569)
T PRK10600 282 --------KGCQ----LCPR------GVLPVGDRGTTLKWRL--------------SDKHGQYGILLATLPQGRHLSHDQ 329 (569)
T ss_pred --------cccc----cccc------cCCCcCCCCceEEEEe--------------ecCCcceEEEEEEcCCCCCCCHHH
Confidence 0000 0000 0000000112233443 233334566555555456789999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhc-
Q 012575 293 LELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLE- 371 (460)
Q Consensus 293 ~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~- 371 (460)
..+++.++.+++.+++..+...+ ++++. ..+.+..+...+.|.+..+|+.+....+.++.
T Consensus 330 ~~ll~~l~~~l~~~l~~~~~~~~----~~~~~---------------~~~er~~iarelhd~i~~~L~~l~~~~~~l~~~ 390 (569)
T PRK10600 330 QQLVDTLVEQLTATLALERQQER----QQQLI---------------VMEERATIARELHDSIAQSLSCMKMQVSCLQMQ 390 (569)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH----HHHHH---------------HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhc
Confidence 99999999999987755433211 00000 01222334445555555667777766665543
Q ss_pred -CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhcccceEeecCC
Q 012575 372 -TDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQNFTYRVGTKL 444 (460)
Q Consensus 372 -~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a~~~~~l~~~~ 444 (460)
+..+++.++.++.|.+..+++.+.+++++...|. ..++.++.+.+++++..+....+..+.++.+.
T Consensus 391 ~~~~~~~~~~~l~~i~~~~~~~~~~lr~ll~~~r~-------~~~~~~l~~~l~~~~~~~~~~~~~~i~~~~~~ 457 (569)
T PRK10600 391 GDALPESSRELLSQIRNELNASWRQLRELLTTFRL-------QLTEPGLRPALEASCEEFSARFGFPVKLDYQL 457 (569)
T ss_pred ccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCc-------CcccCCHHHHHHHHHHHHHHHhCCeEEEEecC
Confidence 3456777899999999999999999999988764 23568899999999988877766666665543
No 34
>PRK09835 sensor kinase CusS; Provisional
Probab=98.83 E-value=8.2e-08 Score=99.32 Aligned_cols=120 Identities=16% Similarity=0.214 Sum_probs=95.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 324 MEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDL-TPEQRVMIETVLKSSNLLTTLVDDVLDL 402 (460)
Q Consensus 324 ~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~-~~~~~~~l~~I~~~~~rl~~LI~~LL~~ 402 (460)
.+....+.++.+++++..+.+.+|++.+|||||||++.|.+.++.+.+... ..+..+.+..+.++..++..++++++++
T Consensus 242 ~~l~~~~n~m~~~l~~~~~~~~~~~~~laheL~tpl~~i~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~ll~~ 321 (482)
T PRK09835 242 EQLVLSFNHMIERIEDVFTRQSNFSADIAHEIRTPITNLITQTEIALSQSRSQKELEDVLYSNLEELTRMAKMVSDMLFL 321 (482)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 333344555556666666778899999999999999999999998765433 3445678888889999999999999999
Q ss_pred hhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 403 SRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 403 sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
+|.+.+...+..+++|+.++++++.+.+.+.. ..++.++.+
T Consensus 322 ~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~ 363 (482)
T PRK09835 322 AQADNNQLIPEKKMLDLADEVGKVFDFFEAWAEERGVELRFV 363 (482)
T ss_pred HHhcCCCCCCCceeecHHHHHHHHHHHHHHHHhhCCEEEEEe
Confidence 99998888888899999999999999888765 444544443
No 35
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.82 E-value=5.9e-08 Score=96.00 Aligned_cols=97 Identities=18% Similarity=0.195 Sum_probs=79.2
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHH
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQI 421 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~ 421 (460)
+.+++|++.+|||+||||++|.|+++++.+...+++.+++++.+.++++++.+++++++++++.. ...+.++..
T Consensus 128 ~~~~~~~~~iaHelr~pL~~i~~~~~~l~~~~~~~~~~~~~~~i~~~~~~l~~lv~~l~~~~~~~------~~~~~~l~~ 201 (348)
T PRK11073 128 VAARDLVRGLAHEIKNPLGGLRGAAQLLSKALPDPALTEYTKVIIEQADRLRNLVDRLLGPQRPG------THVTESIHK 201 (348)
T ss_pred HHHHHHHHhhhHhhcChHHHHHHHHHHhhhcCCChHHHHHHHHHHHHHHHHHHHHHHHhcccCCC------CCccccHHH
Confidence 34578999999999999999999999988765667778999999999999999999999887643 235689999
Q ss_pred HHHHHHHHHhhhcccceEeecCC
Q 012575 422 VLREVIIFSSVLQNFTYRVGTKL 444 (460)
Q Consensus 422 li~~v~~~~~~~a~~~~~l~~~~ 444 (460)
+++.+...+......++.+..+.
T Consensus 202 ~~~~~~~~~~~~~~~~i~i~~~~ 224 (348)
T PRK11073 202 VAERVVQLVSLELPDNVRLIRDY 224 (348)
T ss_pred HHHHHHHHHhhhccCCcEEEEec
Confidence 99999888876654445554443
No 36
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=98.80 E-value=7.8e-08 Score=99.04 Aligned_cols=112 Identities=21% Similarity=0.199 Sum_probs=93.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 322 ~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
++.+..+.+.+..+++++..+.+.+|.+.+|||+||||+.|.+.++.+.+.. .+...+.+..+.+.++++.++++++++
T Consensus 218 E~~~l~~~~n~m~~~l~~~~~~~~~~~~~~shel~~pL~~i~~~~~~l~~~~-~~~~~~~l~~~~~~~~~l~~li~~l~~ 296 (466)
T PRK10549 218 ELGRLAQDFNQLASTLEKNEQMRRDFMADISHELRTPLAVLRGELEAIQDGV-RKFTPESVASLQAEVGTLTKLVDDLHQ 296 (466)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHhCChHHHHHHHHHHHHhcc-ccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455566666777777788899999999999999999999999997642 222345678889999999999999999
Q ss_pred HhhhhcCCcccccccccHHHHHHHHHHHHhhhc
Q 012575 402 LSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ 434 (460)
Q Consensus 402 ~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a 434 (460)
+++.+.|...+..+++++.+++++++..++...
T Consensus 297 l~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 329 (466)
T PRK10549 297 LSLSDEGALAYRKTPVDLVPLLEVAGGAFRERF 329 (466)
T ss_pred HHhhcCCCcccccCCCCHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999998887764
No 37
>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=98.73 E-value=6.8e-08 Score=83.29 Aligned_cols=136 Identities=19% Similarity=0.234 Sum_probs=99.1
Q ss_pred cHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCc--cCCcccccCChhHHHHhhccCceeecCCCchhhh
Q 012575 158 DRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI--QIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 235 (460)
Q Consensus 158 d~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 235 (460)
|++++++.+++.+.+.+++++|.+++.++++..+......+... ......+...+...+++.+.+++.+.+...+...
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 78999999999999999999999999999998876655554332 2233445567789999999999998877655443
Q ss_pred hhccc---CC------------CCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCC-CcccccHHHHHHHH
Q 012575 236 RLLVG---RY------------VPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGG-RKWRDHELELIDVV 299 (460)
Q Consensus 236 ~~~~~---~~------------~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~-~~~~~~e~~ll~~i 299 (460)
..... .. ..+-...+.+|+ ..++..+|++.+...++ +.|+++|+++++.+
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~s~l~vPi--------------~~~g~~~G~l~l~~~~~~~~~~~~d~~ll~~~ 146 (154)
T PF01590_consen 81 APQIAAQSALRALSSAERPFLAEYGVRSYLCVPI--------------ISGGRLIGVLSLYRTRPGRPFTEEDLALLESF 146 (154)
T ss_dssp SCHHHHHHTTBTTTHHHHHHHHTTTESEEEEEEE--------------EETTEEEEEEEEEEESSSSS--HHHHHHHHHH
T ss_pred cccccccccccccccccccccccccCceeeEeee--------------ecccCcEEEEEEEECCCCCCcCHHHHHHHHHH
Confidence 32110 01 234456666664 34455688888877766 99999999999999
Q ss_pred HHHHHHHH
Q 012575 300 ADQVAVAL 307 (460)
Q Consensus 300 a~~~a~ai 307 (460)
|.++++||
T Consensus 147 a~~~a~ai 154 (154)
T PF01590_consen 147 AQQLAIAI 154 (154)
T ss_dssp HHHHHHHH
T ss_pred HHHHHhhC
Confidence 99999886
No 38
>PRK10755 sensor protein BasS/PmrB; Provisional
Probab=98.73 E-value=1.8e-07 Score=92.90 Aligned_cols=86 Identities=19% Similarity=0.137 Sum_probs=68.4
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccH-HHH
Q 012575 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNL-QIV 422 (460)
Q Consensus 344 k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L-~~l 422 (460)
+.+|.+++|||+||||++|.++++++.+.. .+ ..+.+.+..+++.+.++++++++|.+........+++++ +++
T Consensus 137 ~~~~~~~~sHelrtPL~~i~~~~e~l~~~~-~~----~~~~~~~~~~~l~~~i~~ll~~~r~~~~~~~~~~~~~~l~~~~ 211 (356)
T PRK10755 137 ERLFTADVAHELRTPLAGIRLHLELLEKQH-HI----DVAPLIARLDQMMHTVEQLLQLARAGQSFSSGHYQTVKLLEDV 211 (356)
T ss_pred HHHHHHHhhHhhcChHHHHHHHHHHHHhcc-ch----hHHHHHHHHHHHHHHHHHHHHHHHcccccccccchhhhHHHHH
Confidence 346999999999999999999999886532 12 234456677899999999999999877666666778888 899
Q ss_pred HHHHHHHHhhhc
Q 012575 423 LREVIIFSSVLQ 434 (460)
Q Consensus 423 i~~v~~~~~~~a 434 (460)
+.++...++...
T Consensus 212 i~~~~~~~~~~~ 223 (356)
T PRK10755 212 ILPSQDELSEML 223 (356)
T ss_pred HHHHHHHHHHHH
Confidence 988887777664
No 39
>PRK11100 sensory histidine kinase CreC; Provisional
Probab=98.73 E-value=2.2e-07 Score=95.71 Aligned_cols=106 Identities=25% Similarity=0.312 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhc
Q 012575 328 VALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLED 407 (460)
Q Consensus 328 ~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~ 407 (460)
+.+++..+++++. +.+.+|++.++||+|||++.|.+.++.+.+...+++.+++++.+.++++++..++++++++++++.
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 3344444444332 345678999999999999999999999887555666788999999999999999999999999998
Q ss_pred CCcccccccccHHHHHHHHHHHHhhhc
Q 012575 408 GSLELDNGPFNLQIVLREVIIFSSVLQ 434 (460)
Q Consensus 408 g~~~l~~~~~~L~~li~~v~~~~~~~a 434 (460)
+......+++++.++++++...+.+..
T Consensus 320 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ 346 (475)
T PRK11100 320 RQELEVLEPVALAALLEELVEAREAQA 346 (475)
T ss_pred CCCCccceeccHHHHHHHHHHHHHHHH
Confidence 877777899999999999998888775
No 40
>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=98.70 E-value=9.6e-08 Score=68.86 Aligned_cols=62 Identities=39% Similarity=0.497 Sum_probs=54.5
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETD-LTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~-~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr 404 (460)
.++++.+.++||+||||++|.+.++.+.+.. .+++..++++.+.++++++..+++++++++|
T Consensus 3 ~~~~~~~~~~hel~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~ 65 (65)
T cd00082 3 AKGEFLANVSHELRTPLTAIRGALELLEEELLDDEEQREYLERIREEAERLLRLINDLLDLSR 65 (65)
T ss_pred HHHHHHHHHhHHhcchHHHHHHHHHHHHhcccCcHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4567999999999999999999999988653 3566678999999999999999999999875
No 41
>PRK09467 envZ osmolarity sensor protein; Provisional
Probab=98.70 E-value=2.7e-07 Score=94.23 Aligned_cols=113 Identities=16% Similarity=0.183 Sum_probs=86.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 322 QLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 322 ~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
++.+..+.+.+..+++++.++.+..|++++||||||||+.|.+.++++.++ .....+.+.++.++|.++++++++
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 344455566667777888888999999999999999999999998877532 233456788999999999999999
Q ss_pred HhhhhcCCcccccccccHHHHHHHHHHHHhhhcccceEeecC
Q 012575 402 LSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQNFTYRVGTK 443 (460)
Q Consensus 402 ~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a~~~~~l~~~ 443 (460)
++|.+.+ ...+++++.+++++++.... ..+.++.++.+
T Consensus 282 ~~r~~~~---~~~~~~~l~~~~~~~~~~~~-~~~~~i~~~~~ 319 (435)
T PRK09467 282 YLRTGQE---MPMEMADLNALLGEVIAAES-GYEREIETALQ 319 (435)
T ss_pred HhcccCC---CCccccCHHHHHHHHHHHhh-hcCCeEEEecC
Confidence 9997643 34678999999999987655 23444554443
No 42
>PRK09470 cpxA two-component sensor protein; Provisional
Probab=98.69 E-value=3.1e-07 Score=94.42 Aligned_cols=110 Identities=16% Similarity=0.273 Sum_probs=87.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 321 NQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVL 400 (460)
Q Consensus 321 ~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL 400 (460)
+++.+..+.+.+..+++++....+.+|.+.+|||+||||+.|.+..+++......+ ..+..+.++++++.+++++++
T Consensus 220 dEi~~l~~~~n~m~~~l~~~~~~~~~~~~~~shel~tpl~~i~~~~~~~~~~~~~~---~~~~~i~~~~~~l~~~i~~l~ 296 (461)
T PRK09470 220 QEFRQAGASFNQMVTALERMMTSQQRLLSDISHELRTPLTRLQLATALLRRRQGES---KELERIETEAQRLDSMINDLL 296 (461)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHhhCCHHHHHHHHHHHHhhccCCh---HHHHHHHHHHHHHHHHHHHHH
Confidence 34444455566667777777778889999999999999999999999886543222 246778899999999999999
Q ss_pred HHhhhhcCCcccccccccHHHHHHHHHHHHhhhc
Q 012575 401 DLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ 434 (460)
Q Consensus 401 ~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a 434 (460)
+++|.+.+. .+..+++++.++++++++.+....
T Consensus 297 ~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~~~~ 329 (461)
T PRK09470 297 VLSRNQQKN-HLERETFKANSLWSEVLEDAKFEA 329 (461)
T ss_pred HHHHhhccc-ccccceecHHHHHHHHHHHHHHHH
Confidence 999987653 567889999999999998777553
No 43
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=98.65 E-value=1.9e-06 Score=86.96 Aligned_cols=113 Identities=19% Similarity=0.205 Sum_probs=90.9
Q ss_pred HHHHHHHHHHHHH--HHHHHHHHHHHHhHhHHHHHHHHHHHH---hcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012575 330 LDSARREAEKAIH--ARNDFRAVMNHEMRTLMHAIIALSSLL---LETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSR 404 (460)
Q Consensus 330 L~~~~~~l~~~~~--~k~~f~~~iSHELRtPLt~I~g~~~lL---~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr 404 (460)
|++.++++.++++ ..+++.+++|||++.||++|.+|++.- .+....++.++.+..|..=++||..+.++|-.|+|
T Consensus 368 LR~~QdeLvQA~kLA~LGQmSA~iaHElNQPLaaiRt~adna~~lLergr~e~a~~Nl~~I~~LteRma~It~~Lk~FAr 447 (603)
T COG4191 368 LRRAQDELVQAGKLAALGQMSAGIAHELNQPLAAIRTYADNARLLLERGRTEEARENLERISALTERMAAITAHLKSFAR 447 (603)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHhHHHHHHHHHHcCChHHHHhHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 3445555666655 468999999999999999999987754 46677888899999999999999999999999999
Q ss_pred hhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecCCCC
Q 012575 405 LEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKLAP 446 (460)
Q Consensus 405 ~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~~~ 446 (460)
...+. ..++.+.++|+++...+.+.. .....++.+..+
T Consensus 448 k~~~a----~~~v~l~~ai~~Al~ll~~R~~~~~~~l~~~~~~ 486 (603)
T COG4191 448 KSRDA----AGPVSLREAIEGALELLRGRLRAAGVELELDLPD 486 (603)
T ss_pred cCccc----cCCccHHHHHHHHHHHHHHhhhccCceeeccCCC
Confidence 64332 679999999999999999885 455555555543
No 44
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=98.64 E-value=0.00035 Score=70.91 Aligned_cols=97 Identities=15% Similarity=0.268 Sum_probs=77.6
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHhcC---CCCHH---HHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccccc
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLET---DLTPE---QRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGP 416 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~~~---~~~~~---~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~ 416 (460)
+=++-+.-++||+|||||-|.-.++-|... ..+++ -++..++|.++++.+.+||++.-.|+|+- ++++++
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 335788999999999999999999988742 33332 35799999999999999999999999973 567789
Q ss_pred ccHHHHHHHHHHHHhhhc-ccceEeecC
Q 012575 417 FNLQIVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 417 ~~L~~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
.||+++++++..+.+... ++.+..+..
T Consensus 561 ~dL~~ll~e~~~L~e~~~~~i~f~~e~g 588 (712)
T COG5000 561 SDLRALLKEVSFLYEIGNDHIVFAAEFG 588 (712)
T ss_pred chHHHHHHHHHHHHhccCCCeEEEeecC
Confidence 999999999998877663 444444433
No 45
>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional
Probab=98.64 E-value=1.1e-06 Score=94.81 Aligned_cols=172 Identities=10% Similarity=0.044 Sum_probs=119.5
Q ss_pred HHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCcc--CCcccccCChhHHHHhhcc
Q 012575 144 RHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQ--IGSSVPINLPIVTDVFNSA 221 (460)
Q Consensus 144 ~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 221 (460)
..+.++++.+.+..|+++++..+...+.+.+.+|++.|.++++....+..........+ .........+....++.++
T Consensus 9 ~~l~~is~~~~~~~~~~~l~~~l~~~~~~~~~ad~~~i~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~g~vl~~~ 88 (686)
T PRK15429 9 QGLFDITRTLLQQPDLASLCEALSQLVKRSALADNAAIVLWQAQTQRASYYASREKGTPVKYEDETVLAHGPVRRILSRP 88 (686)
T ss_pred HHHHHHHHHHHcCCCHHHHHHHHHHHHHhhcccceEEEEEEcCCCCeeeeeeccccccchhccchhhhccCcceEEeecC
Confidence 45889999999999999999999999999999999999999987765543211111111 1112223556677788888
Q ss_pred CceeecCCCchhhhhhc-ccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHH
Q 012575 222 QAMRLPYNCPLARIRLL-VGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVA 300 (460)
Q Consensus 222 ~~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia 300 (460)
++...++..-..++.-. .....++-...+.+| +..++.++|++++....++.|+++|.+++..+|
T Consensus 89 ~~l~~~~~~~~~~~~~l~~~~~~~~~~~~lgvP--------------l~~~~~v~G~l~l~~~~~~~Ft~~d~~ll~~la 154 (686)
T PRK15429 89 DTLHCSYEEFCETWPQLAAGGLYPKFGHYCLMP--------------LAAEGHIFGGCEFIRYDDRPWSEKEFNRLQTFT 154 (686)
T ss_pred ceEEEchHHhhhccHHHhhcccccCccceEEec--------------eeeCCeeEEEEEEEEcCCCCCCHHHHHHHHHHH
Confidence 88876654332221100 111112222223344 344566788888887767899999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 301 DQVAVALSHAAILEDSMRARNQLMEQNVA 329 (460)
Q Consensus 301 ~~~a~ai~~a~l~~~~~~~~~~l~~~~~~ 329 (460)
.++++|++|++.+++.++..+.|+++..+
T Consensus 155 ~~a~~aie~~~~~e~~~~~~~~L~~~r~~ 183 (686)
T PRK15429 155 QIVSVVTEQIQSRVVNNVDYELLCRERDN 183 (686)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 99999999999999988887777555444
No 46
>COG4192 Signal transduction histidine kinase regulating phosphoglycerate transport system [Signal transduction mechanisms]
Probab=98.56 E-value=3.5e-06 Score=82.00 Aligned_cols=98 Identities=10% Similarity=0.123 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHH
Q 012575 344 RNDFRAVMNHEMRTLMHAIIALSSLLL---ETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 420 (460)
Q Consensus 344 k~~f~~~iSHELRtPLt~I~g~~~lL~---~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~ 420 (460)
-++-..++|||++.||++++.|+=.-. ++..++..+.+++.|..=.+|+..+|+.|-.|+|-.+++.+ ..|++|+
T Consensus 451 VGqTmTslaHEinQPLnAmsaYLFsA~~A~e~~~s~qa~~~L~kie~L~eR~~~Iv~sLRqF~Rk~s~~~~--lqpV~L~ 528 (673)
T COG4192 451 VGQTMTSLAHEINQPLNAMSAYLFSARLALEEAPSAQAATSLDKIENLTERMGKIVNSLRQFARKNSSDES--LQPVRLN 528 (673)
T ss_pred HHHHHHHHHHHhcCchHHHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCCCCC--cccccHH
Confidence 467788999999999999999864443 44556667899999999999999999999999998777655 4789999
Q ss_pred HHHHHHHHHHhhhc-ccceEeecC
Q 012575 421 IVLREVIIFSSVLQ-NFTYRVGTK 443 (460)
Q Consensus 421 ~li~~v~~~~~~~a-~~~~~l~~~ 443 (460)
+++..+.+++.... ..+..+..+
T Consensus 529 ~~v~~AweLl~~khk~rQ~~Li~p 552 (673)
T COG4192 529 SVVEQAWELLQTKHKRRQIKLINP 552 (673)
T ss_pred HHHHHHHHHHHhhhhhccccccCC
Confidence 99999999998886 334444433
No 47
>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional
Probab=98.53 E-value=4.8e-06 Score=86.54 Aligned_cols=170 Identities=15% Similarity=0.163 Sum_probs=119.5
Q ss_pred HHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCc-cCCcccccCC-hhHHHHhhccC
Q 012575 145 HVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQI-QIGSSVPINL-PIVTDVFNSAQ 222 (460)
Q Consensus 145 ~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~ 222 (460)
.+.++++.|.+++|.+++++.+++.+.+.++++.|.+...+++ .+......+... .....++... |.+..++.++.
T Consensus 5 ~l~eis~~L~~s~d~~e~L~~vl~~l~~~l~~~~~~l~l~~~~--~l~~~as~gl~~~~~~~~~~~geGP~l~av~~~g~ 82 (509)
T PRK05022 5 ALLPIALDLSRGLPHQDRFQRLLTTLRQVLPCDASALLRLDGD--QLVPLAIDGLSPDVLGRRFALEEHPRLEAILRAGD 82 (509)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHcCCCEEEEEecCCC--cEEEEEEcCCChHhhCCccCCCcchHHHHHHhcCC
Confidence 4889999999999999999999999999999999999988764 334333333221 1122334433 46788887778
Q ss_pred ceeecCCCchhhhh--hccc-CCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHH
Q 012575 223 AMRLPYNCPLARIR--LLVG-RYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVV 299 (460)
Q Consensus 223 ~~~l~~~~~~~~~~--~~~~-~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~i 299 (460)
++.+++......+. .... ....+..+.+++||.. ++..+|++.+....+..|++++.+++..+
T Consensus 83 ~v~v~~~~~~p~~~~~~~~~~~~~~gi~S~l~vPL~~--------------~~~~~GvL~l~~~~~~~f~~~~~~~l~~~ 148 (509)
T PRK05022 83 PVRFPADSELPDPYDGLIPGVQESLPVHDCMGLPLFV--------------DGRLIGALTLDALDPGQFDAFSDEELRAL 148 (509)
T ss_pred eEEEecCCCCCcccccccccccccCCcceEEEEEEEE--------------CCEEEEEEEEeeCCCCcCCHHHHHHHHHH
Confidence 88777554322210 0011 1122334677777633 44468999998887789999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 300 ADQVAVALSHAAILEDSMRARNQLMEQNVAL 330 (460)
Q Consensus 300 a~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L 330 (460)
|.+++.|+.+++.+++.++..+++....+.+
T Consensus 149 a~~~a~Al~~a~~~~~l~~~~~~~~~~~~~~ 179 (509)
T PRK05022 149 AALAAATLRNALLIEQLESQAELPQDVAEFL 179 (509)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999988877766665544333
No 48
>COG3850 NarQ Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]
Probab=98.49 E-value=0.00087 Score=67.24 Aligned_cols=239 Identities=15% Similarity=0.128 Sum_probs=152.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCccccc
Q 012575 130 DREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSSVPI 209 (460)
Q Consensus 130 ~~e~~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 209 (460)
++..+.++++.+....+++.++.+..+...++.++.+++.+....++....+.+.++++......+......
T Consensus 232 ~eKT~~L~~~Nq~Ls~LYqssr~L~ts~~~~~~l~~vLn~l~~~~~~~~~~l~l~~~~~e~~h~~~~~~~di-------- 303 (574)
T COG3850 232 EEKTRDLEQKNQRLSFLYQSSRRLHTSQIDDERLRHVLNRLQNLTGLAAVRLELYGGDDERNHQEHAEQWDI-------- 303 (574)
T ss_pred HHHHHHHHHhhhHHHHHHHHHHHhccCCChHHHHHHHHHHHHHhhcccceEEEEecCcchhhhhhhccCcce--------
Confidence 333444777888888999999999999999999999999999999999999998887665433332211111
Q ss_pred CChhHHHHhhccCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCccc
Q 012575 210 NLPIVTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWR 289 (460)
Q Consensus 210 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~ 289 (460)
..+ +. ..+..-...+|+ ... +..++.+ +. ++...
T Consensus 304 ---------------~~~-d~------------~~~~~~~~~~~l-------------~~~-g~~Lg~l--~~--~~~l~ 337 (574)
T COG3850 304 ---------------SEG-DQ------------PSGLKWPQEDPL-------------TQQ-GHLLGTL--PW--QRSLP 337 (574)
T ss_pred ---------------ecC-CC------------Ccccchhhhcch-------------hhh-hhhheee--ec--cCCCC
Confidence 000 00 000000000111 001 1112222 22 34677
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHH
Q 012575 290 DHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLL 369 (460)
Q Consensus 290 ~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL 369 (460)
..+..++..++.+++.++...+..++. ++|. ..+.|+-.+.....-|=.-|+-..--.++|
T Consensus 338 ~~d~~Ll~tl~~~L~rtL~~~~~q~~~----qQLl---------------lmEERatIAReLHDSiAQsLS~LkiQvt~L 398 (574)
T COG3850 338 EDDQQLLDTLVQQLGRTLALNKQQEQQ----QQLL---------------LMEERATIARELHDSIAQSLSFLKIQVTLL 398 (574)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHHHH----HHHH---------------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 888999999999999888655443221 1111 112333333333333444445555555566
Q ss_pred hc---CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhcccceEeecCCCC
Q 012575 370 LE---TDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQNFTYRVGTKLAP 446 (460)
Q Consensus 370 ~~---~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a~~~~~l~~~~~~ 446 (460)
+. +..+++.++.+..|.+..+-...=+.+||.--|+ ..+.-++..-++++++.++...++++++++.+++
T Consensus 399 ~~~~~~~~~e~s~~~i~~~r~~Ln~~Y~QLRELLtTFRl-------tL~e~~L~~AL~~~~~~f~~qtg~~~~l~~qlp~ 471 (574)
T COG3850 399 KTAIPEELPEKAREIIAQIRQGLNDAYRQLRELLTTFRL-------TLQEAELPPALEQMLAEFSNQTGITVTLDYQLPP 471 (574)
T ss_pred HhhCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-------hcccCchHHHHHHHHHHHHhccCCeEEEeccCCC
Confidence 53 2455667889999999999888888888876664 3456688899999999999999999999988776
Q ss_pred CC
Q 012575 447 CS 448 (460)
Q Consensus 447 ~~ 448 (460)
..
T Consensus 472 ~~ 473 (574)
T COG3850 472 RA 473 (574)
T ss_pred CC
Confidence 54
No 49
>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=98.48 E-value=3.6e-06 Score=70.36 Aligned_cols=143 Identities=23% Similarity=0.279 Sum_probs=94.4
Q ss_pred cHHHHHHHHHHHhhhhcCCceeEEeccCCC-CCceEEEEeecCCc-cCCcccccCChhHHHHhhccCceeecCCCchhhh
Q 012575 158 DRHTILKTTLVELGRTLGLEECALWMPSRT-GLNLELSYTLNNQI-QIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARI 235 (460)
Q Consensus 158 d~~~il~~~~~~l~~~l~~~~~~i~~~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 235 (460)
|.++++..++..+.+.++++++.+++.+++ ..........+... ......+...+....++.+++.+.+.+.......
T Consensus 1 ~~~~~~~~~~~~l~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (149)
T smart00065 1 DLEELLQTILEELRQLLGADRVLIYLVDEDDRGELVLVAADGLTLPLLGLRYPLGEGLAGRVAETGRPLNIPDVEADPVF 80 (149)
T ss_pred CHHHHHHHHHHHHHHHhCCceEEEEEEecCCCCcEEEEEecCCCcccceEEecCCCChHHHHHHcCCeEEeechhhCCcc
Confidence 568899999999999999999999999984 33333333322221 1223455566788888888888777654432211
Q ss_pred hhcccCCC-CCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCC-CCCcccccHHHHHHHHHHHHHHHHHHHHHH
Q 012575 236 RLLVGRYV-PPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTD-GGRKWRDHELELIDVVADQVAVALSHAAIL 313 (460)
Q Consensus 236 ~~~~~~~~-~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~-~~~~~~~~e~~ll~~ia~~~a~ai~~a~l~ 313 (460)
. ...... .+....+.+|+. .++..+|++++... .++.|+.++..++..++++++.++++.++.
T Consensus 81 ~-~~~~~~~~~~~s~~~~Pl~--------------~~~~~~G~l~~~~~~~~~~~~~~~~~~l~~~~~~i~~~l~~~~~~ 145 (149)
T smart00065 81 A-LDLLGRYQGVRSFLAVPLV--------------ADGELVGVLALHNKDSPRPFTEEDEELLQALANQLAIALANAQLY 145 (149)
T ss_pred c-cccccceeceeeEEEeeee--------------ecCEEEEEEEEEecCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 000000 112444555542 23445677777665 678999999999999999999999998876
Q ss_pred HH
Q 012575 314 ED 315 (460)
Q Consensus 314 ~~ 315 (460)
++
T Consensus 146 ~~ 147 (149)
T smart00065 146 EE 147 (149)
T ss_pred Hh
Confidence 54
No 50
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.48 E-value=2.3e-06 Score=90.67 Aligned_cols=87 Identities=22% Similarity=0.369 Sum_probs=76.9
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHH
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 422 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~l 422 (460)
+..+|++.++||+||||+.|.|+++++.....+++..++++.|.+.++++..+++++++++|.+.. ..+++++.++
T Consensus 389 ~l~~~~~~~~hel~~~l~~i~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~l~~~~~~~~~----~~~~~~~~~~ 464 (607)
T PRK11360 389 ALGELVAGVAHEIRNPLTAIRGYVQIWRQQTSDPPSQEYLSVVLREVDRLNKVIDQLLEFSRPRES----QWQPVSLNAL 464 (607)
T ss_pred HHHHHHHHHHHHhhhHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHHHHHHHHHHhhCCCcC----ccceecHHHH
Confidence 466899999999999999999999998776666777899999999999999999999999987543 3578999999
Q ss_pred HHHHHHHHhhh
Q 012575 423 LREVIIFSSVL 433 (460)
Q Consensus 423 i~~v~~~~~~~ 433 (460)
++++...+...
T Consensus 465 ~~~~~~~~~~~ 475 (607)
T PRK11360 465 VEEVLQLFQTA 475 (607)
T ss_pred HHHHHHHHHHh
Confidence 99999988876
No 51
>PRK13560 hypothetical protein; Provisional
Probab=98.44 E-value=1.4e-06 Score=96.09 Aligned_cols=95 Identities=9% Similarity=0.077 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCc
Q 012575 331 DSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSL 410 (460)
Q Consensus 331 ~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~ 410 (460)
+++.++++++++.+++|+++|||||||||++|.|+++++.+...+++...++..+.+....+..+.+.++..
T Consensus 592 K~aE~~L~~a~~~~~~~l~~isHelrnpL~~I~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-------- 663 (807)
T PRK13560 592 KHAEEKIKAALTEKEVLLKEIHHRVKNNLQIISSLLDLQAEKLHDEEAKCAFAESQDRICAMALAHEKLYQS-------- 663 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHhHHHHhChHHHHHHHHHHhhhhcCCHHHHHHHHHHHHHHHHHHHHHHHHhcc--------
Confidence 445566777788899999999999999999999999998876666777777766666555555555554321
Q ss_pred ccccccccHHHHHHHHHHHHhhhc
Q 012575 411 ELDNGPFNLQIVLREVIIFSSVLQ 434 (460)
Q Consensus 411 ~l~~~~~~L~~li~~v~~~~~~~a 434 (460)
.+..++++.++++++...+....
T Consensus 664 -~~~~~~~l~~~i~~~~~~~~~~~ 686 (807)
T PRK13560 664 -EDLADIDFLDYIESLTAHLKNSF 686 (807)
T ss_pred -ccchhccHHHHHHHHHHHHHHHh
Confidence 23467999999999998877654
No 52
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=98.42 E-value=5e-06 Score=85.86 Aligned_cols=97 Identities=22% Similarity=0.182 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCC---HHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccccccc
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLETDLT---PEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFN 418 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~---~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~ 418 (460)
+...+++..++||+||||++|.|+++++.+...+ ++....+..+.+.+.+....++++++. .......++|
T Consensus 274 ~~l~~~~~~~~h~lr~pL~~i~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~------~~~~~~~~~d 347 (494)
T TIGR02938 274 EAIRETLSAAIHRLQGPMNLISAAISVLQRRGDDAGNPASAAMLQQALSAGREHMEALRQVIPQ------SPQEIVVPVN 347 (494)
T ss_pred HHHHHHHHHHHHHHhcHHHHHHHHHHHHHhccccccCHHHHHHHHHHHHHHHHHHHHHHHhhcc------Cccccccccc
Confidence 3345678888899999999999999999754322 333444444444444444444444332 2334567999
Q ss_pred HHHHHHHHHHHHhhhc-ccceEeecCC
Q 012575 419 LQIVLREVIIFSSVLQ-NFTYRVGTKL 444 (460)
Q Consensus 419 L~~li~~v~~~~~~~a-~~~~~l~~~~ 444 (460)
+.+++++++..+...+ ..++.+..+.
T Consensus 348 l~~~~~~~~~~~~~~~~~~~i~~~~~~ 374 (494)
T TIGR02938 348 LNQILRDVITLSTPRLLAAGIVVDWQP 374 (494)
T ss_pred HHHHHHHHHHHhHHHHHhCCCEEEEec
Confidence 9999999998887664 3444444433
No 53
>COG3605 PtsP Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]
Probab=98.37 E-value=2.3e-05 Score=78.67 Aligned_cols=154 Identities=16% Similarity=0.171 Sum_probs=119.7
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCc--ccccCChhHHHHhhccCc
Q 012575 146 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGS--SVPINLPIVTDVFNSAQA 223 (460)
Q Consensus 146 l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 223 (460)
++++-+...+.+++++-|..++.+++.....+-|.+|+.+.++..+++.++-+...+.+. ....+.+.+..+-.+.++
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 677777889999999999999999999999999999999999988887665554433333 344578899999999999
Q ss_pred eeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHH
Q 012575 224 MRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQV 303 (460)
Q Consensus 224 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~ 303 (460)
+.+.+.+...++.+........-++ +.+.|.+. +...+||+++++...|.|+++|.++++.+|-|+
T Consensus 85 lNLsdAqsHPsF~Y~petgEE~Y~s-------------FLGvPIi~-~~r~lGVLVVQqk~~R~y~E~Eve~L~T~A~~l 150 (756)
T COG3605 85 LNLADAQSHPSFKYLPETGEERYHS-------------FLGVPIIR-RGRLLGVLVVQQRELRQYDEDEVEFLVTLAMQL 150 (756)
T ss_pred CChhhhhhCCccccccccchHHHHH-------------hhccceee-cCceeEEEEEecccccccchHHHHHHHHHHHHH
Confidence 9999888877666322111111112 22344343 345699999999999999999999999999999
Q ss_pred HHHHHHHHHH
Q 012575 304 AVALSHAAIL 313 (460)
Q Consensus 304 a~ai~~a~l~ 313 (460)
|..++++++.
T Consensus 151 A~iva~~el~ 160 (756)
T COG3605 151 AEIVAQSQLT 160 (756)
T ss_pred HHHHHhhhhh
Confidence 9999988876
No 54
>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=98.31 E-value=4.9e-06 Score=71.04 Aligned_cols=135 Identities=19% Similarity=0.237 Sum_probs=84.3
Q ss_pred ccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCCcc--cccC---------ChhHHHHhhccCcee
Q 012575 157 LDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIGSS--VPIN---------LPIVTDVFNSAQAMR 225 (460)
Q Consensus 157 ld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~---------~~~~~~~~~~~~~~~ 225 (460)
.|.+++++.+++.+.+.++++.+.||+.++++.................. .+.. .+....++.+++++.
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 47899999999999999999999999998887433333333322111111 1111 112222388888888
Q ss_pred ec-CCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHH
Q 012575 226 LP-YNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVA 304 (460)
Q Consensus 226 l~-~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a 304 (460)
+. +...... .......+-...+.+||.. ++..+|++.+.+..++.|++++.++++.+|++++
T Consensus 82 ~~~~~~~~~~---~~~~~~~~~~s~l~vPl~~--------------~~~~~Gvl~l~~~~~~~f~~~~~~~l~~la~~~a 144 (148)
T PF13185_consen 82 INDDDSSFPP---WELARHPGIRSILCVPLRS--------------GGEVIGVLSLYSKEPNAFSEEDLELLEALADQIA 144 (148)
T ss_dssp ESCCCGGGST---THHHCCTT-SEEEEEEEEE--------------TTEEEEEEEEEESSTT---HHHHHHHHHHHHHHH
T ss_pred EeCccccccc---hhhhccccCCEEEEEEEeE--------------CCEEEEEEEEeeCCCCCcCHHHHHHHHHHHHHHH
Confidence 88 1111111 1222334556777777643 3356899999888888999999999999999999
Q ss_pred HHHH
Q 012575 305 VALS 308 (460)
Q Consensus 305 ~ai~ 308 (460)
.||+
T Consensus 145 ~aie 148 (148)
T PF13185_consen 145 IAIE 148 (148)
T ss_dssp HHHH
T ss_pred HHhC
Confidence 9984
No 55
>PRK13557 histidine kinase; Provisional
Probab=98.24 E-value=2e-05 Score=82.55 Aligned_cols=98 Identities=12% Similarity=0.174 Sum_probs=77.0
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHHHHHHHhcC-----CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCccccccc
Q 012575 342 HARNDFRAVMNHEMRTLMHAIIALSSLLLET-----DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGP 416 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~-----~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~ 416 (460)
+...++++.++||+||||+.|.|+++++.+. .......+.++.|.++++++..++++++++++.. ......
T Consensus 161 ~~l~~~~~~i~h~l~~pl~~i~~~~~~l~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~li~~l~~~~~~~----~~~~~~ 236 (540)
T PRK13557 161 EALGQLTGGIAHDFNNLLQVMSGYLDVIQAALSHPDADRGRMARSVENIRAAAERAATLTQQLLAFARKQ----RLEGRV 236 (540)
T ss_pred HHhhhhhhhhhHHhhhHHHHHHhHHHHHHHhhccCccccHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC----CCCCcc
Confidence 3456799999999999999999999988642 1334556889999999999999999999999853 345678
Q ss_pred ccHHHHHHHHHHHHhhhcccceEeecC
Q 012575 417 FNLQIVLREVIIFSSVLQNFTYRVGTK 443 (460)
Q Consensus 417 ~~L~~li~~v~~~~~~~a~~~~~l~~~ 443 (460)
+++.++++.+...+.......+.+..+
T Consensus 237 ~~l~~~i~~~~~~~~~~~~~~~~i~~~ 263 (540)
T PRK13557 237 LNLNGLVSGMGELAERTLGDAVTIETD 263 (540)
T ss_pred cCHHHHHHHHHHHHHHhcCCCeEEEEe
Confidence 999999999888776554444444443
No 56
>PRK13559 hypothetical protein; Provisional
Probab=98.13 E-value=1.5e-05 Score=79.33 Aligned_cols=86 Identities=7% Similarity=0.091 Sum_probs=67.9
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHH
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 422 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~l 422 (460)
.+.+|++.++||+||||+.|.|+++++... .+..++++.+.+.+.++.++++++++.++ .+++++.++
T Consensus 169 ~~~~l~~~l~H~~~n~L~~i~~~~~l~~~~---~~~~~~~~~i~~~~~~l~~~~~~ll~~~~---------~~~v~l~~~ 236 (361)
T PRK13559 169 HERRLAREVDHRSKNVFAVVDSIVRLTGRA---DDPSLYAAAIQERVQALARAHETLLDERG---------WETVEVEEL 236 (361)
T ss_pred HHHHHHHHHHHhhhhHHHHHHHHHHhhccC---CCHHHHHHHHHHHHHHHHHHHHHHhccCC---------cCcccHHHH
Confidence 345689999999999999999999988632 23456788899999999999999987654 367999999
Q ss_pred HHHHHHHHhhhcccceEee
Q 012575 423 LREVIIFSSVLQNFTYRVG 441 (460)
Q Consensus 423 i~~v~~~~~~~a~~~~~l~ 441 (460)
+++++..+.+. ..++.++
T Consensus 237 ~~~~~~~~~~~-~~~i~~~ 254 (361)
T PRK13559 237 IRAQVAPYAPR-ATRVAFE 254 (361)
T ss_pred HHHHHHhhcCC-CceEEEE
Confidence 99999877654 3444444
No 57
>COG2203 FhlA FOG: GAF domain [Signal transduction mechanisms]
Probab=97.87 E-value=2.1e-05 Score=68.04 Aligned_cols=160 Identities=21% Similarity=0.264 Sum_probs=94.8
Q ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCC--ceEEEE-eec--CC-ccCCccc-ccCChhHH
Q 012575 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGL--NLELSY-TLN--NQ-IQIGSSV-PINLPIVT 215 (460)
Q Consensus 143 ~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~--~~~~~~-~~~--~~-~~~~~~~-~~~~~~~~ 215 (460)
...++++++.+..+.+.+++++.+++.+.+.++++++.+|..++++. .-.+.. ... .. ....... +.......
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (175)
T COG2203 3 EALLNELAAKIAQDLDLEEILQAALELLAELLGADRGLIYLLDEDGLLDGALVAEAAEAGLEQLIDELFGLVILPACLIG 82 (175)
T ss_pred HHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHhhccHHhhheeccccccchHHHHHHhcchhhhhHHHHhcccCcchhhhh
Confidence 34578889999999999999999999999999999999999888863 111000 000 00 0000000 11111233
Q ss_pred HHhhccCceeecCCCchhhhhhcccCCCCC-cceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCC-CCcccccHH
Q 012575 216 DVFNSAQAMRLPYNCPLARIRLLVGRYVPP-DIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDG-GRKWRDHEL 293 (460)
Q Consensus 216 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~-~~~~~~~e~ 293 (460)
.....++...+.+...+............+ -...+.+|+ ...| ..+|++++.... .+.|++++.
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~vPl-------------~~~~-~~~G~l~~~~~~~~~~~~~~e~ 148 (175)
T COG2203 83 IALREGRPVVVEDILQDPRFRDNPLVLLEPPIRSYLGVPL-------------IAQG-ELLGLLCVHDSEPRRQWSEEEL 148 (175)
T ss_pred hhhcCCceEEeeccccCcccccCHHHHHHHHHHHheeeee-------------eECC-EeeEEeeeeccCCCCCCCHHHH
Confidence 334445555554444332221100000000 123333443 3333 345555555554 447999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Q 012575 294 ELIDVVADQVAVALSHAAILEDS 316 (460)
Q Consensus 294 ~ll~~ia~~~a~ai~~a~l~~~~ 316 (460)
.+++.++.+++.|+.+++.+++.
T Consensus 149 ~ll~~la~~~a~ai~~~~~~~~~ 171 (175)
T COG2203 149 ELLEELAEQVAIAIERARLYEEL 171 (175)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999988763
No 58
>COG0642 BaeS Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.86 E-value=0.00039 Score=67.14 Aligned_cols=91 Identities=41% Similarity=0.541 Sum_probs=75.8
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCC-cccccccccHHH
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGS-LELDNGPFNLQI 421 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~-~~l~~~~~~L~~ 421 (460)
.+..|++.++||+|||++.+.++++.+... ..+..++.+..+...++++.++++++++++|.+.+. ........++.+
T Consensus 114 ~~~~~~~~~~hel~~pl~~i~~~~~~~~~~-~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~ 192 (336)
T COG0642 114 AKREFLANISHELRTPLTAIRGLLELLLEG-LLDPQRELLEIIEEEAERLLRLVNDLLDLSRLEAGTKLKLLLELVDLAE 192 (336)
T ss_pred HHHHHHHhhhhhhcCcHHHHHHHHHHhccC-CchhHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccccCCCCcCHHH
Confidence 577899999999999999999999866554 222267888889999999999999999999998763 444578888999
Q ss_pred HHHHHHHHHhhhc
Q 012575 422 VLREVIIFSSVLQ 434 (460)
Q Consensus 422 li~~v~~~~~~~a 434 (460)
+++++...+....
T Consensus 193 ~~~~~~~~~~~~~ 205 (336)
T COG0642 193 LLEEVVRLLAPLA 205 (336)
T ss_pred HHHHHHHHHHHHH
Confidence 9999998888765
No 59
>COG3604 FhlA Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]
Probab=97.78 E-value=0.00099 Score=66.53 Aligned_cols=175 Identities=18% Similarity=0.149 Sum_probs=124.4
Q ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCCccCC--cccccCChhHHHHhhc
Q 012575 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQIQIG--SSVPINLPIVTDVFNS 220 (460)
Q Consensus 143 ~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~ 220 (460)
.+.+.+++..+.+..+.+..+..+.+.+.+.+|++.+.+..++.++..-........+.... .......+.+..++..
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 45688999999999999999999999999999999999999998873333333333222212 2344578899999999
Q ss_pred cCceee-cCCCchhhhhhccc---CCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHH
Q 012575 221 AQAMRL-PYNCPLARIRLLVG---RYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELI 296 (460)
Q Consensus 221 ~~~~~l-~~~~~~~~~~~~~~---~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll 296 (460)
+.++++ +.++. +...+... ....+-...+.+| +..|+..+|++.+....+..++..-.+.+
T Consensus 113 ~~p~~~~~~d~~-~~~~~~~l~~~~~~~~~~a~i~~P--------------L~~~~~~~G~Ltld~~~~~~f~~~~~~~l 177 (550)
T COG3604 113 GRPLVFHPADSL-FPDPYDGLLPDTEGNKKHACIGVP--------------LKSGDKLIGALTLDHTEPDQFDEDLDEEL 177 (550)
T ss_pred CCcEEEecCCcc-cCCcccccccCccCCcceeEEeee--------------eeeCCeeeeeEEeeeecccccchhHHHHH
Confidence 999988 33322 11111100 0111124455555 45666678999988877667888888888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 297 DVVADQVAVALSHAAILEDSMRARNQLMEQNVALDS 332 (460)
Q Consensus 297 ~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~ 332 (460)
..++.-++.+..++.++++....++++++++.+++.
T Consensus 178 r~La~~a~la~~~~~l~~~l~~~~~~l~~e~~~~~~ 213 (550)
T COG3604 178 RFLAALAALAVANALLHRELSSLKERLEEENLALEE 213 (550)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 889999999999999999988888887776655543
No 60
>PRK13558 bacterio-opsin activator; Provisional
Probab=97.64 E-value=0.0032 Score=68.09 Aligned_cols=148 Identities=14% Similarity=0.054 Sum_probs=95.5
Q ss_pred HHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEeecCC-ccCCccccc-CChhHHHHhhc--
Q 012575 145 HVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTLNNQ-IQIGSSVPI-NLPIVTDVFNS-- 220 (460)
Q Consensus 145 ~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~~~~~-- 220 (460)
.++.+++.+....+.+++++.+++.+.+..+.+.++|+.+++++..+......+.. ...+..... ........+.+
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 46778888899999999999999999999999999999998887766544333321 111111111 12223333333
Q ss_pred cCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHH
Q 012575 221 AQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVA 300 (460)
Q Consensus 221 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia 300 (460)
+....+.......... . ....+.+.+|| ..++..+|++.+....++.|++++.+++..++
T Consensus 369 ~~~~~~~~~~~~~~~~----~--~~~~s~~~vPL--------------~~~g~~~GvL~v~~~~~~~f~~~e~~ll~~la 428 (665)
T PRK13558 369 AETEAVESTDVDGVSG----T--VDGSAVAAVPL--------------VYRETTYGVLVVYTAEPDEIDDRERVVLEALG 428 (665)
T ss_pred CceEEecCCCcccccc----c--cCCceEEEEeE--------------EECCEEEEEEEEeeCCCCCCCHHHHHHHHHHH
Confidence 3333332221100000 0 00115555554 45566799999998889999999999999999
Q ss_pred HHHHHHHHHHHH
Q 012575 301 DQVAVALSHAAI 312 (460)
Q Consensus 301 ~~~a~ai~~a~l 312 (460)
.++|.||.+.+.
T Consensus 429 ~~ia~aI~~~~~ 440 (665)
T PRK13558 429 RAVGAAINALES 440 (665)
T ss_pred HHHHHHHHHHHH
Confidence 999999965533
No 61
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=97.35 E-value=6.2e-05 Score=81.90 Aligned_cols=90 Identities=36% Similarity=0.512 Sum_probs=80.8
Q ss_pred HHHH--HHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHH
Q 012575 343 ARND--FRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQ 420 (460)
Q Consensus 343 ~k~~--f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~ 420 (460)
.+++ |.++++||+|+|+.. |....+.....+.+++.+.+....++.....+++++++.++.++|..++.-.++++.
T Consensus 218 ~~sq~~~~~~~sHeir~p~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~s~ln~i~d~~~v~~g~~~l~~~rf~l~ 295 (786)
T KOG0519|consen 218 SPSQKGFLATLSHEIRTPLNG--GMLGGLSDTDLDSDQRLILNTDRVSAKSLLSLLNDILDLSKVESGKGELVAKRFDLR 295 (786)
T ss_pred Cccchhhcccccceeeccccc--CcceEEeccccchHHHHHHHHHhhhccccchhHHHhhcccccccccceeeeeecchH
Confidence 4455 999999999999998 555555556788899999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhc
Q 012575 421 IVLREVIIFSSVLQ 434 (460)
Q Consensus 421 ~li~~v~~~~~~~a 434 (460)
.+++.+++.+.+.+
T Consensus 296 ~ll~~~~~~~~e~~ 309 (786)
T KOG0519|consen 296 TLLNFVISLLSELS 309 (786)
T ss_pred hhhhhhhhhhHHHh
Confidence 99999999888887
No 62
>COG3851 UhpB Signal transduction histidine kinase, glucose-6-phosphate specific [Signal transduction mechanisms]
Probab=96.88 E-value=0.25 Score=47.67 Aligned_cols=152 Identities=11% Similarity=0.102 Sum_probs=98.3
Q ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhHhHHHHHHHHHHH
Q 012575 290 DHELELIDVVADQVAVALSHAAILEDSMRARNQLMEQNVALDSARREAEKA-IHARNDFRAVMNHEMRTLMHAIIALSSL 368 (460)
Q Consensus 290 ~~e~~ll~~ia~~~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~-~~~k~~f~~~iSHELRtPLt~I~g~~~l 368 (460)
.+..+++..++.|.-.-+.......+.++.+++++.+..+-+...+++-.. +..|.+.+.-...|+..-+|+|..-+.+
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 567888888888842222222222223333444433322222222333322 3567889999999999999999999999
Q ss_pred HhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhhhc-ccceEeecCCCCC
Q 012575 369 LLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSVLQ-NFTYRVGTKLAPC 447 (460)
Q Consensus 369 L~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~~a-~~~~~l~~~~~~~ 447 (460)
.++-..++..++.-..|.+=+.|+.+-+..+|.--| +...+..-+.+.++.+++.++-.. +++.+++....+.
T Consensus 328 vkR~~~~~q~kqaas~Ie~LslrI~~svrqLL~rLR------P~~LDdL~l~qai~~l~~Em~~~ergihcq~~~~~n~~ 401 (497)
T COG3851 328 VKRAADNAQVKQAASLIEQLSLRIYDSVRQLLGRLR------PRQLDDLTLEQAIRSLLREMELEERGIHCQLDWRINET 401 (497)
T ss_pred HHhccCCHhHHhHHHHHHHHHHHHHHHHHHHHHhcC------CcccccccHHHHHHHHHHHhhhhhcCeEEEeccccCcc
Confidence 988777888888888899999999999999885444 223345667777887777666543 5555555544433
No 63
>PRK10935 nitrate/nitrite sensor protein NarQ; Provisional
Probab=96.83 E-value=0.86 Score=48.09 Aligned_cols=89 Identities=13% Similarity=0.151 Sum_probs=64.5
Q ss_pred HHHHHHhHhHHHHHHHHHHH----HhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHH
Q 012575 349 AVMNHEMRTLMHAIIALSSL----LLET--DLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIV 422 (460)
Q Consensus 349 ~~iSHELRtPLt~I~g~~~l----L~~~--~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~l 422 (460)
..++||+++|+..+..+... +... ...++..+.+..+.+...++.+.+.+++...+ ....++++.+.
T Consensus 365 ~~la~el~~~l~~~l~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~l~~~~~-------~~~~~~~l~~~ 437 (565)
T PRK10935 365 ATIARELHDSLAQVLSYLKIQLTLLKRSLDEDNAKAQSIIAEFDQALSDAYRQLRELLTTFR-------LTIQEANLGSA 437 (565)
T ss_pred HHHHHHhcchHHHHHHHHHHHHHHHHHhcccChHHHHHHHHHHHHHHHHHHHHHHHHHHHcC-------CCCCCCCHHHH
Confidence 44888888888777766543 4322 23455667888888888999999998887554 34568999999
Q ss_pred HHHHHHHHhhhcccceEeecCC
Q 012575 423 LREVIIFSSVLQNFTYRVGTKL 444 (460)
Q Consensus 423 i~~v~~~~~~~a~~~~~l~~~~ 444 (460)
+++++..+++..+.++.++.+.
T Consensus 438 l~~~~~~~~~~~~~~i~~~~~~ 459 (565)
T PRK10935 438 LEEMLDQLRNQTDAKITLDCRL 459 (565)
T ss_pred HHHHHHHHHHhhCCeEEEEeeC
Confidence 9999998887766666655443
No 64
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.40 E-value=0.016 Score=60.76 Aligned_cols=28 Identities=25% Similarity=0.273 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHHhHhHHHHHHHHHHHHh
Q 012575 343 ARNDFRAVMNHEMRTLMHAIIALSSLLL 370 (460)
Q Consensus 343 ~k~~f~~~iSHELRtPLt~I~g~~~lL~ 370 (460)
...++++.+|||+||||++|.|++++..
T Consensus 338 ~~~~~l~~~sHel~npL~~I~g~~~~~~ 365 (542)
T PRK11086 338 NYADALRAQSHEFMNKLHVILGLLHLKS 365 (542)
T ss_pred HHHHHHHhhchhhcCHHHHHHHHHHhCc
Confidence 3446778899999999999999998653
No 65
>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=0.04 Score=50.90 Aligned_cols=162 Identities=14% Similarity=0.159 Sum_probs=86.5
Q ss_pred HHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEEEee
Q 012575 122 LKNRADELDREMGLIL----TQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELSYTL 197 (460)
Q Consensus 122 l~~~~~~l~~e~~~l~----~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~~~~ 197 (460)
+|+++++|+.+.+.+- ..+.....+.++...+-...|.++++..+...+.+.|+++.+.+++.++...... ..
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 LRERNRQLEEQLEELIENARENEAIFQRLHRLVLALLAARSLQELLQALDDGLREDFDVDAVRLRLFDDDAAPGP---SL 128 (225)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--SHHHHHHHHHHHHHHTS--SEEEEEEE-SS---SE---E-
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHhcCCCeEEEEeecccccccc---ch
Confidence 6777777777776654 4444455678888899999999999999999999999999999999887654211 00
Q ss_pred cCCccCCcccccCChhHHHHh----hccCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCce
Q 012575 198 NNQIQIGSSVPINLPIVTDVF----NSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSY 273 (460)
Q Consensus 198 ~~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~ 273 (460)
... ............ ..+++..-.........-|.. ....-.+.-.+|| . .+.
T Consensus 129 ~~~------~~~~~~~~~~~~~~~l~~~~p~~G~~~~~~~~~lF~~--~~~~v~S~AlipL--------------~-~~~ 185 (225)
T PF04340_consen 129 TDH------VWLSRDAFAQVFIDLLGLQQPYCGRLSEEEAALLFGD--EAAQVGSVALIPL--------------G-SGR 185 (225)
T ss_dssp -----------E-HHHHHHHHCCCHTT---CCCS--HHHHHHHHHH--CHCC-SEEEEEEE--------------E-SSS
T ss_pred hhc------ccccHHHHHHHHHHHhCCCCceeCCCCcchhHHhcCC--CCccccchheeec--------------c-CCC
Confidence 000 000111111111 111111111111111111111 1112233334444 2 223
Q ss_pred eEEEEEeeCCCCCccccc-HHHHHHHHHHHHHHHHHH
Q 012575 274 AVMVLMLPTDGGRKWRDH-ELELIDVVADQVAVALSH 309 (460)
Q Consensus 274 ~~~v~~~~~~~~~~~~~~-e~~ll~~ia~~~a~ai~~ 309 (460)
.+|++++.+..+..|+++ ...++..++.-++.++.+
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 478888877776677665 688999999988887754
No 66
>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=95.51 E-value=1.6 Score=38.46 Aligned_cols=150 Identities=15% Similarity=0.241 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEecc-------CCCCCceEEEEeecC-CccC
Q 012575 132 EMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMP-------SRTGLNLELSYTLNN-QIQI 203 (460)
Q Consensus 132 e~~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~-------~~~~~~~~~~~~~~~-~~~~ 203 (460)
++..+++..+-.+.+-+.+..|-+.-++++....++.++...++.+...++.. +.+...+.+.+..|. ....
T Consensus 10 di~~Ie~~R~GLe~Ii~as~~L~~~~sl~~fa~gvL~Ql~~Ll~~~~~~l~~~~~~~~~~~~~~~~~~VlaatG~f~~~~ 89 (174)
T PF11849_consen 10 DIRTIERNRQGLEKIIEASASLFQIRSLQEFASGVLTQLSALLGLEDDGLYCSVRSAFPDDSDDNEFRVLAATGRFESLI 89 (174)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhCCCCCeEEEecccccCCCCCCCCEEEEEEeccchhhc
Confidence 34445555556667788888899999999999999999999999988777661 111122444443332 1111
Q ss_pred Ccccc-cCChh----HHHHhhccCceeecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEE
Q 012575 204 GSSVP-INLPI----VTDVFNSAQAMRLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVL 278 (460)
Q Consensus 204 ~~~~~-~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~ 278 (460)
+.+.. ...+. +...+.+++.+. .+....+.+| .....-.++
T Consensus 90 ~~~~~~~~~~~i~~~~~~a~~~~~~~~------------------~~~~~~ly~~----------------~~~g~~~~i 135 (174)
T PF11849_consen 90 GQPLDDLLPPEIRAALQQALSSKRSIF------------------EEDHFVLYFP----------------SSSGRESLI 135 (174)
T ss_pred CCcccccCCHHHHHHHHHHHHcCCeEe------------------cCCeEEEEEe----------------cCCCCEEEE
Confidence 21111 12222 223333222111 1111111111 111123344
Q ss_pred EeeCCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 279 MLPTDGGRKWRDHELELIDVVADQVAVALSHAAILEDSM 317 (460)
Q Consensus 279 ~~~~~~~~~~~~~e~~ll~~ia~~~a~ai~~a~l~~~~~ 317 (460)
++... +..++.+.++++.++..++++++|..++++.+
T Consensus 136 yl~~~--~~l~~~d~~LlevF~~Nvs~afdNv~L~~~l~ 172 (174)
T PF11849_consen 136 YLEGD--RPLSETDRQLLEVFCNNVSIAFDNVSLNEELE 172 (174)
T ss_pred EEeCC--CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 55443 48899999999999999999999999988754
No 67
>COG1956 GAF domain-containing protein [Signal transduction mechanisms]
Probab=94.71 E-value=1.5 Score=37.44 Aligned_cols=120 Identities=10% Similarity=0.110 Sum_probs=81.4
Q ss_pred HHHHHHHhhhhcC-CceeEEeccCCCCCceEEEEeecCCccCCcccccCChhHHHHhhccCceeecCCCchhhhhhcccC
Q 012575 163 LKTTLVELGRTLG-LEECALWMPSRTGLNLELSYTLNNQIQIGSSVPINLPIVTDVFNSAQAMRLPYNCPLARIRLLVGR 241 (460)
Q Consensus 163 l~~~~~~l~~~l~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 241 (460)
+..+..-+.+.+. ++++.+|+.+.+ .+.+....+. +....+|...+.......+++.+++++.....- ...
T Consensus 37 lan~sall~~~l~~~nW~GFYl~~~~--~LvLgPFqG~--~acv~I~~GkGVCg~A~~~~~t~~V~DV~~~~g----hia 108 (163)
T COG1956 37 LANASALLKERLPDVNWVGFYLLEGD--ELVLGPFQGK--VACVRIPFGKGVCGTAAATGETVRVDDVHAFPG----HIA 108 (163)
T ss_pred HHHHHHHHHhhccCCceEEEEEecCC--eEEEecccCC--cceEEeccCcchhHHHHhcCCeEEecccccCCC----ccc
Confidence 3333444444443 799999998844 3444333332 445578888999999999999999887654211 111
Q ss_pred CCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHH
Q 012575 242 YVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVA 304 (460)
Q Consensus 242 ~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a 304 (460)
-....++.+.+|+.. ++..+||+-+.+.....|++++...++.+++.++
T Consensus 109 CD~as~SEIVvPi~~--------------~g~~iGvlDiDS~~~~~Fd~~D~~~Le~~~~~l~ 157 (163)
T COG1956 109 CDAASNSEIVVPIFK--------------DGKLIGVLDIDSPTPGRFDEEDEAGLEKLAALLE 157 (163)
T ss_pred cccccCceEEEEEEE--------------CCEEEEEEecCCCCcccCCHHHHHHHHHHHHHHH
Confidence 123346677777643 4456999999999999999999999998888765
No 68
>PRK10963 hypothetical protein; Provisional
Probab=94.17 E-value=4.6 Score=37.16 Aligned_cols=66 Identities=20% Similarity=0.235 Sum_probs=51.1
Q ss_pred HHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCC
Q 012575 121 FLKNRADELDREMGLILTQ----EETGRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRT 187 (460)
Q Consensus 121 ~l~~~~~~l~~e~~~l~~~----~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~ 187 (460)
.||+++.+|+.+...+-.. +.....+.++...+-..-|.++++.++. .+.+.++++.+.+++.++.
T Consensus 48 ~LR~r~~~Le~~l~~Li~~A~~Ne~l~~~~~~l~l~Ll~a~~~~~l~~~L~-~~~~~f~~~~v~l~L~~~~ 117 (223)
T PRK10963 48 RQRNHIHVLEEEMTLLMEQAIANEDLFYRLLPLQSRLAAADSLQDMLMRLH-RWARDLGLAGAKIRLFPDR 117 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHHHHHHHH-HHHHHcCCCceEEEEeccc
Confidence 3677888888777765433 3344557777778889999999999996 6799999999999887653
No 69
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=93.22 E-value=1.2 Score=46.76 Aligned_cols=49 Identities=20% Similarity=0.251 Sum_probs=35.2
Q ss_pred HHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 346 DFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLD 401 (460)
Q Consensus 346 ~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~ 401 (460)
+.+..++||++|||++|.|+.++- +..+.++.+.+.++++.++++++..
T Consensus 340 e~l~~~~he~~n~L~~i~g~l~~~-------~~~~~~~~i~~~s~~~~~l~~~l~~ 388 (545)
T PRK15053 340 ESLRTLRHEHLNWMSTLNGLLQMK-------EYDRVLEMVQGESQAQQQLIDSLRE 388 (545)
T ss_pred HHHHHHHHHHhhhHHHHHHHHhhc-------hhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 345668999999999999987642 1234566677777777777776654
No 70
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=90.62 E-value=1.9 Score=30.73 Aligned_cols=46 Identities=20% Similarity=0.164 Sum_probs=35.8
Q ss_pred HHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHH
Q 012575 346 DFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTL 395 (460)
Q Consensus 346 ~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~L 395 (460)
+.+..--||+.|-|..|.|++++= ..++..+|++.+.++.+....+
T Consensus 14 ~~lR~~RHD~~NhLqvI~gllqlg----~~~~a~eYi~~~~~~~~~~s~l 59 (62)
T PF14689_consen 14 DSLRAQRHDFLNHLQVIYGLLQLG----KYEEAKEYIKELSKDLQQESEL 59 (62)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-----HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhHHHHHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHHHHH
Confidence 455677999999999999998843 3456788999988888877554
No 71
>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=89.81 E-value=5 Score=29.91 Aligned_cols=72 Identities=18% Similarity=0.225 Sum_probs=53.0
Q ss_pred HHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHH
Q 012575 351 MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFS 430 (460)
Q Consensus 351 iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~ 430 (460)
+.|-+||=|..|.++..+=.....+++.++.++.+..-..-+..+=+.|-. + -....+|+.+.+++++..+
T Consensus 2 ~~HRVkNnLq~i~sll~lq~~~~~~~e~~~~L~~~~~RI~aia~vh~~L~~-~--------~~~~~v~l~~yl~~L~~~l 72 (76)
T PF07568_consen 2 LHHRVKNNLQIISSLLRLQARRSEDPEAREALEDAQNRIQAIALVHEQLYQ-S--------EDLSEVDLREYLEELCEDL 72 (76)
T ss_pred hHHhHHhHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHhc-C--------CCCCeecHHHHHHHHHHHH
Confidence 579999999999999997777677788788877776666666544444321 1 1335799999999998765
Q ss_pred h
Q 012575 431 S 431 (460)
Q Consensus 431 ~ 431 (460)
.
T Consensus 73 ~ 73 (76)
T PF07568_consen 73 R 73 (76)
T ss_pred H
Confidence 4
No 72
>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=87.02 E-value=0.94 Score=32.48 Aligned_cols=48 Identities=23% Similarity=0.504 Sum_probs=33.1
Q ss_pred CCCCcceEEEeeccccCC-------cc-ccCCCcccCCceeEEEEEeeCCCCCccccc
Q 012575 242 YVPPDIVAVRVPLLHLSN-------FQ-INDWPELPAKSYAVMVLMLPTDGGRKWRDH 291 (460)
Q Consensus 242 ~~~~~~~~~~~pl~~~~~-------~~-~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~ 291 (460)
|..+....|+|.|.+.++ .. ...|+++++|.|.+.|.+....+ .|+..
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 556778888888855443 22 45688999999999999999887 56554
No 73
>COG3159 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=86.34 E-value=25 Score=31.68 Aligned_cols=66 Identities=18% Similarity=0.310 Sum_probs=52.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHH----HHHHHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccCCC
Q 012575 122 LKNRADELDREMGLILTQEET----GRHVRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPSRT 187 (460)
Q Consensus 122 l~~~~~~l~~e~~~l~~~~e~----~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~ 187 (460)
+++++.+++.++..+-.++.. ...+..+...+...-+.+++++++-+...+-||...+.+-+..+.
T Consensus 50 ~R~~~~~Le~~l~~L~~~A~~N~~lf~r~~~lq~~Ll~a~sl~d~l~~v~~~~a~~f~l~~a~l~L~~~~ 119 (218)
T COG3159 50 LRNRIRELEEELAALMENARANERLFYRLHALQLDLLDARSLDDLLRRVDRSWARDFGLAAASLRLFQDS 119 (218)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhCCCceEEEEechh
Confidence 577778888877776544433 334777888899999999999999999999999998888776654
No 74
>COG5385 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=80.32 E-value=8.4 Score=33.09 Aligned_cols=76 Identities=16% Similarity=0.072 Sum_probs=52.0
Q ss_pred HHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcC---CcccccccccHHHHH
Q 012575 347 FRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDG---SLELDNGPFNLQIVL 423 (460)
Q Consensus 347 f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g---~~~l~~~~~~L~~li 423 (460)
+.+-+.||+=.|..+|.+-+++|.++.-++ +.++.|..++.+.. ..|.|+|+.=| ..-.+...-+...+.
T Consensus 18 LcsRvCHDiISPvgAInnGLeLLdeg~add---DAm~LIrsSArnas----~rLqFaR~AFGAsgSag~~iDtgeaek~A 90 (214)
T COG5385 18 LCSRVCHDIISPVGAINNGLELLDEGGADD---DAMDLIRSSARNAS----VRLQFARLAFGASGSAGASIDTGEAEKAA 90 (214)
T ss_pred HHHHHHhhccCcHHHhhchhhhhccCCccH---HHHHHHHHHhhhHH----HHHHHHHHHhcccccccccccchhHHHHH
Confidence 677899999999999999999998876554 45666777777765 46788887533 222333444444444
Q ss_pred HHHHHH
Q 012575 424 REVIIF 429 (460)
Q Consensus 424 ~~v~~~ 429 (460)
++....
T Consensus 91 ~~~~a~ 96 (214)
T COG5385 91 QDFFAN 96 (214)
T ss_pred HHHHhc
Confidence 444433
No 75
>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=74.46 E-value=35 Score=30.74 Aligned_cols=90 Identities=12% Similarity=0.174 Sum_probs=64.1
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccc--hhHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVH--SKAVAVVMTIA 90 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~--~~~~~~~~~~~ 90 (460)
...|++|=++.+.-|..-+..-..-+.. -.|+|+.|++ ...+.+.++|-..|++-.+..... +....|++|++
T Consensus 33 ~~iqiiTGi~La~~Y~p~~~~A~~Sv~~i~~ev~~G~liR~~H~~gas~~~~~~~lH~~r~~~~gsY~~pre~~W~~G~~ 112 (200)
T cd00284 33 LVIQILTGVFLAMHYTPDVTLAFSSVQYIMRDVNFGWLIRSLHANGASMFFLMLYLHIFRGLYYGSYKKPRELTWVIGVI 112 (200)
T ss_pred HHHHHHHHHHHHHHHcCChHHHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHH
Confidence 3668888888888777655332222222 4578999988 556889999999999988654222 45668999998
Q ss_pred HHHHHHHHHHHHHHHHh
Q 012575 91 KMACAFVSCITALMLVH 107 (460)
Q Consensus 91 k~~ta~~s~~~a~~l~~ 107 (460)
-++..++...+...+..
T Consensus 113 l~~l~~~~af~GY~Lpw 129 (200)
T cd00284 113 LLLLTMATAFMGYVLPW 129 (200)
T ss_pred HHHHHHHHHHcccccCc
Confidence 88888887777765544
No 76
>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=74.43 E-value=86 Score=30.55 Aligned_cols=69 Identities=13% Similarity=0.159 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012575 333 ARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLS 403 (460)
Q Consensus 333 ~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~s 403 (460)
-++++++..+..+.-.+.++|.-+.. ..+..-++-+.. ..+++..+.++.+.++.++....+.|+=.+-
T Consensus 23 Y~qKleel~~lQ~~C~ssI~~QkkrL-k~L~~sLk~~~~-~~~~e~~~~i~~L~~~Ik~r~~~l~DmEa~L 91 (330)
T PF07851_consen 23 YKQKLEELSKLQDKCSSSISHQKKRL-KELKKSLKRCKK-SLSAEERELIEKLEEDIKERRCQLFDMEAFL 91 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhcc-CCChhHHHHHHHHHHHHHHHHhhHHHHHhhC
Confidence 44667777788899999999998863 444433333333 3566778889999998888888888876554
No 77
>COG4587 ABC-type uncharacterized transport system, permease component [General function prediction only]
Probab=73.80 E-value=20 Score=33.12 Aligned_cols=71 Identities=15% Similarity=0.202 Sum_probs=42.5
Q ss_pred HHHHHHHHHHHHHHHH---hhHHHHHHHHHHhcCC--CchHHHHHHHHHHHHHHHHHHHH------HHHhhccchhHHHH
Q 012575 17 LVRYQYISDILIALAY---FSIPVELIYFVQKSAF--FPYRWVLMQFGSFIILCGLTHFI------SLWTFTVHSKAVAV 85 (460)
Q Consensus 17 ~~~~~~~~d~~i~~~~---~~i~~~l~~~~~~~~~--~~~~~~~~~~~~fi~~cg~~hl~------~~~~~~~~~~~~~~ 85 (460)
.+|-|..+|....++. +.+|+.++++.-.-.- +|-.|.+.+| ...++||.+.-| +...||.+ |
T Consensus 103 ~l~~~~a~~~~~~~~~~lp~~~vL~lifa~l~~~~~~~l~~~~l~~~-~l~la~~~~~~F~i~f~~~~~aFwt~-----~ 176 (268)
T COG4587 103 YLFHELAAHLGERASRGLPFLLVLLLIFALLYGAILQFLSPWTLYLF-VLALALLFLLRFLIQFTFGLFAFWTE-----R 176 (268)
T ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhHHhhcCCHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHhhcc-----c
Confidence 4799999999999876 7889988888654432 2333433333 344456644333 33445543 4
Q ss_pred HHHHHHHH
Q 012575 86 VMTIAKMA 93 (460)
Q Consensus 86 ~~~~~k~~ 93 (460)
.+++.|.+
T Consensus 177 as~l~~~~ 184 (268)
T COG4587 177 ASSLGKFW 184 (268)
T ss_pred hhhHHHHH
Confidence 45555543
No 78
>PRK10490 sensor protein KdpD; Provisional
Probab=73.69 E-value=23 Score=39.82 Aligned_cols=54 Identities=11% Similarity=0.054 Sum_probs=39.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH--HhhccchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 51 YRWVLMQFGSFIILCGLTHFISL--WTFTVHSKAVAVVMTIAKMACAFVSCITALML 105 (460)
Q Consensus 51 ~~~~~~~~~~fi~~cg~~hl~~~--~~~~~~~~~~~~~~~~~k~~ta~~s~~~a~~l 105 (460)
+.+...++++++.+..+++||.- +||.+.+ +-|++..++.++++++....+.-+
T Consensus 443 ~G~~pai~aavls~l~~nfFF~~P~~Tf~v~~-~~~~~t~~v~l~va~v~~~l~~r~ 498 (895)
T PRK10490 443 YGRWPSVVATVINVASFDLFFVAPRGTLAVSD-VQYLLTFAVMLTVGLVIGNLTAGV 498 (895)
T ss_pred hchHHHHHHHHHHHHHHHheeCCCceEEEEcC-cccHHHHHHHHHHHHHHHHHHHHH
Confidence 45667899999999999999988 6666554 337788888888877766554333
No 79
>PRK10263 DNA translocase FtsK; Provisional
Probab=69.22 E-value=39 Score=39.02 Aligned_cols=22 Identities=23% Similarity=0.475 Sum_probs=14.7
Q ss_pred HHHHHHHHHHH---HHhhHHHHHHH
Q 012575 20 YQYISDILIAL---AYFSIPVELIY 41 (460)
Q Consensus 20 ~~~~~d~~i~~---~~~~i~~~l~~ 41 (460)
...+||+++.+ +.|.+|+.+++
T Consensus 68 GA~LAD~L~~LFGl~AYLLP~LL~~ 92 (1355)
T PRK10263 68 GAWLADTLFFIFGVMAYTIPVIIVG 92 (1355)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 36688877665 77777765543
No 80
>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=68.22 E-value=85 Score=27.66 Aligned_cols=43 Identities=14% Similarity=0.146 Sum_probs=25.7
Q ss_pred ccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHHHHHHHHHH
Q 012575 268 LPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAAI 312 (460)
Q Consensus 268 l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a~ai~~a~l 312 (460)
..+|...+-++....+. .|+++|+-+.+.-|.-+++-|-+++.
T Consensus 116 ~g~GeRLGTLvl~r~~~--~F~ddDLILaEY~ATVVGmEiLr~~~ 158 (177)
T PF06018_consen 116 YGGGERLGTLVLARFDK--EFTDDDLILAEYGATVVGMEILRSKS 158 (177)
T ss_dssp EETTEEEEEEEEEESS------HHHHHHHHHHHHHHHHHHHHHHT
T ss_pred eeCCeEEEEEEEEEcCC--CCChhhhHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444344 89999999999999988877755544
No 81
>MTH00145 CYTB cytochrome b; Provisional
Probab=66.23 E-value=44 Score=33.44 Aligned_cols=89 Identities=12% Similarity=0.144 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHH-hcCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQ-KSAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~-~~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
...|++|=.+.+.-|-.-+..-..-+. =-+|+++.|.+ ...+++.++|-..|++-.+-....-.+.-|.+|++-+
T Consensus 42 ~~~qiitG~~L~~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~~lH~~r~~~~gsy~~~~~W~~Gv~l~ 121 (379)
T MTH00145 42 LGIQILTGLFLSMHYTAHVDLAFSSVIHIMRDVNYGWLLRSLHANGASFFFICIYLHIGRGLYYGSYLMQHTWNIGVTLL 121 (379)
T ss_pred HHHHHHHHHHHHHHHcCCCchhHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccCchHHHHhHHHH
Confidence 356889999888888655432222222 24588999988 4568899999999999986544444456799998887
Q ss_pred HHHHHHHHHHHHHH
Q 012575 93 ACAFVSCITALMLV 106 (460)
Q Consensus 93 ~ta~~s~~~a~~l~ 106 (460)
+..+....+...+.
T Consensus 122 ~l~~~~af~GYvLp 135 (379)
T MTH00145 122 LLSMGTAFLGYVLP 135 (379)
T ss_pred HHHHHHHHHhhccC
Confidence 77777766665554
No 82
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=65.53 E-value=69 Score=35.07 Aligned_cols=46 Identities=9% Similarity=-0.022 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 56 MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALM 104 (460)
Q Consensus 56 ~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ta~~s~~~a~~ 104 (460)
.+.+.+++=|=||---..|+..-|. |.++..+.+.+|++....+--
T Consensus 449 ailsvl~fNyFF~ePryTf~v~d~~---y~vTf~vml~vai~t~~Lt~~ 494 (890)
T COG2205 449 ALLSVLVFNYFFTEPRYTFAVSDPQ---YLVTFAVMLAVALLTGNLTAR 494 (890)
T ss_pred HHHHHHHHhheecCCceEEEEecCc---hHHHHHHHHHHHHHHHHHHHH
Confidence 4555555555555555555544443 557777777777776655433
No 83
>PF10856 DUF2678: Protein of unknown function (DUF2678); InterPro: IPR022564 This family of proteins has no known function.
Probab=65.11 E-value=13 Score=29.87 Aligned_cols=26 Identities=15% Similarity=0.412 Sum_probs=12.7
Q ss_pred HHHhhHHHHHHHHHHhcCCC--chHHHH
Q 012575 30 LAYFSIPVELIYFVQKSAFF--PYRWVL 55 (460)
Q Consensus 30 ~~~~~i~~~l~~~~~~~~~~--~~~~~~ 55 (460)
++..+++..++.+.+|+.|+ .|||..
T Consensus 68 I~l~~~s~~lLI~WYR~gdl~Pkfr~li 95 (118)
T PF10856_consen 68 ILLICISAILLIFWYRQGDLDPKFRYLI 95 (118)
T ss_pred HHHHHHHHHhheeehhcCCCChhHHHHH
Confidence 34444455555555555555 344444
No 84
>CHL00070 petB cytochrome b6
Probab=65.10 E-value=38 Score=30.86 Aligned_cols=90 Identities=13% Similarity=0.138 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHH-hcCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccc--hhHHHHHHHH
Q 012575 17 LVRYQYISDILIALAYFSIPVELIYFVQ-KSAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVH--SKAVAVVMTI 89 (460)
Q Consensus 17 ~~~~~~~~d~~i~~~~~~i~~~l~~~~~-~~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~--~~~~~~~~~~ 89 (460)
+...|++|=++.+.-|-.-+-.-..-+. =-.++||.|++ ...+.+.++|-..|++-.+....+ +....|.+|+
T Consensus 43 ~~~iqiiTGi~L~~~Y~p~~~~Af~Sv~~I~~ev~~Gwl~R~~H~~gas~~~~~~~lH~~r~~~~gsYk~pre~~W~~Gv 122 (215)
T CHL00070 43 CFLVQVATGFAMTFYYRPTVTEAFASVQYIMTEVNFGWLIRSVHRWSASMMVLMMILHVFRVYLTGGFKKPRELTWVTGV 122 (215)
T ss_pred HHHHHHHHHHHHHHHHcCChHHHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCcccCcHHHH
Confidence 3467888888888777654332222222 13478999998 567889999999999988654322 2334699998
Q ss_pred HHHHHHHHHHHHHHHHH
Q 012575 90 AKMACAFVSCITALMLV 106 (460)
Q Consensus 90 ~k~~ta~~s~~~a~~l~ 106 (460)
+-++..+....|...+.
T Consensus 123 ~l~~l~m~~af~GY~Lp 139 (215)
T CHL00070 123 VLAVLTVSFGVTGYSLP 139 (215)
T ss_pred HHHHHHHHHHHccccCC
Confidence 88776666666554443
No 85
>PF10066 DUF2304: Uncharacterized conserved protein (DUF2304); InterPro: IPR019277 This entry represents hypothetical archaeal and bacterial proteins that have no known function.
Probab=64.51 E-value=75 Score=25.69 Aligned_cols=27 Identities=19% Similarity=0.503 Sum_probs=13.2
Q ss_pred HHHHHHhcCC-CchHHHHHHHHHHHHHH
Q 012575 39 LIYFVQKSAF-FPYRWVLMQFGSFIILC 65 (460)
Q Consensus 39 l~~~~~~~~~-~~~~~~~~~~~~fi~~c 65 (460)
+++.+||++- .++...+..++.+.+++
T Consensus 19 ii~~vr~~~l~~~~~l~Wl~~~i~~l~~ 46 (115)
T PF10066_consen 19 IIRLVRKRKLRLKYSLLWLVFSIILLIL 46 (115)
T ss_pred HHHHHHHhhccHHHHHHHHHHHHHHHHH
Confidence 4455666653 34444444444444444
No 86
>PF14248 DUF4345: Domain of unknown function (DUF4345)
Probab=64.34 E-value=70 Score=26.17 Aligned_cols=65 Identities=25% Similarity=0.161 Sum_probs=45.1
Q ss_pred HHHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHH
Q 012575 28 IALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACA 95 (460)
Q Consensus 28 i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ta 95 (460)
++..|+++-+.++|...+-+. .+..+...+.++...|+.-+.+.+.-..|+.. +|....+.+..+
T Consensus 50 ~~G~~~g~Gl~~l~~~~~~~~--~~~al~~l~~~~~~~~lgRlis~~~dG~p~~~-~~~~l~~Elv~~ 114 (124)
T PF14248_consen 50 YGGLYLGLGLLLLWAAFKPEY--RRPALRLLALFIGGGGLGRLISLALDGPPSPF-LWVALIFELVLA 114 (124)
T ss_pred HHHHHHHHHHHHHHHHccHhH--HHHHHHHHHHHHHHHHHHHHHHHHHcCCCchH-HHHHHHHHHHHH
Confidence 566888888888887665442 44566777788889999999999887666443 555555554444
No 87
>PF14965 BRI3BP: Negative regulator of p53/TP53
Probab=63.78 E-value=1e+02 Score=26.94 Aligned_cols=91 Identities=12% Similarity=0.185 Sum_probs=48.5
Q ss_pred HHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012575 31 AYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHIIP 110 (460)
Q Consensus 31 ~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ta~~s~~~a~~l~~~~p 110 (460)
+|--.++.|-.++.-- +++||..-.++++.++.|++.-. --|+.. ... .....+++++. -
T Consensus 86 ~YW~LSllLgl~~~lL-----gR~fW~lkv~lfl~~f~~Il~~~--~~~~e~------a~l----~L~~lv~~~~l---~ 145 (177)
T PF14965_consen 86 AYWFLSLLLGLLFALL-----GRVFWLLKVVLFLLSFVYILQKY--EGPPER------AAL----LLCLLVLVCFL---T 145 (177)
T ss_pred HHHHHHHHHHHHHHHH-----HHHHHHHHHHHHHHHHHHHHHcC--CCchHH------HHH----HHHHHHHHHHH---c
Confidence 6666666555443322 67777777777777766766653 122211 000 01112222222 2
Q ss_pred hhhccccHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 111 DLLSVKTRELFLKNRADELDREMGLILTQEE 141 (460)
Q Consensus 111 ~~l~~~~~~~~l~~~~~~l~~e~~~l~~~~e 141 (460)
.....+.+...++++.+.|++++++++.+..
T Consensus 146 g~~gs~~~~~~LE~kv~~LE~qvr~L~~R~~ 176 (177)
T PF14965_consen 146 GLVGSYWRSASLEAKVRHLERQVRELNIRQR 176 (177)
T ss_pred cccCCCCCcccHHHHHHHHHHHHHHHHHHhc
Confidence 2333334446678888999998888776653
No 88
>MTH00033 CYTB cytochrome b; Provisional
Probab=61.98 E-value=57 Score=32.64 Aligned_cols=88 Identities=16% Similarity=0.222 Sum_probs=63.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=++.|.-|-.-+-.-..-+.. -+|+++.|.+ ...+++.++|-..|++-......+.....|.+|++-++
T Consensus 39 ~~qiiTGi~La~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gAs~~f~~~ylHi~R~~~~gsY~r~~~W~~Gv~ll~ 118 (383)
T MTH00033 39 GIQILTGVLLAMHYRSDVSLAFSSVAHIVRDVNYGWILRYVHANGASLFFICVYCHIGRGLYYGGYSRVLTWIVGVLIFF 118 (383)
T ss_pred HHHHHHHHHHHhhhcCCCcchHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccChHHHHHhHHHHH
Confidence 568899998888777554333322221 4478999998 56788999999999999866544446668999998888
Q ss_pred HHHHHHHHHHHHH
Q 012575 94 CAFVSCITALMLV 106 (460)
Q Consensus 94 ta~~s~~~a~~l~ 106 (460)
..+....+...+.
T Consensus 119 l~m~~aF~GYvLp 131 (383)
T MTH00033 119 IMMLTAFIGYVLP 131 (383)
T ss_pred HHHHHHHhhhccc
Confidence 8777777766554
No 89
>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=61.94 E-value=61 Score=24.53 Aligned_cols=79 Identities=15% Similarity=0.177 Sum_probs=45.9
Q ss_pred HHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHH
Q 012575 351 MNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFS 430 (460)
Q Consensus 351 iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~ 430 (460)
+.|-+||-|+.|.+....-.+...+.+ ++.+.+..-..-|.+ ..+++. + -..+.++|.++++..+.-+
T Consensus 2 L~HRvKN~lavv~ai~~~t~r~~~s~~--~~~~~~~~Rl~ALa~-a~~ll~--~-------~~~~~~~L~~lv~~~l~p~ 69 (83)
T PF07536_consen 2 LNHRVKNLLAVVQAIARQTARSAASVE--EFAEAFSGRLQALAR-AHDLLS--R-------SDWEGVSLRDLVEAELAPY 69 (83)
T ss_pred chhHHHHHHHHHHHHHHHHcccCCCHH--HHHHHHHHHHHHHHH-HHHHHh--c-------CCCCCccHHHHHHHHHHhc
Confidence 579999999999999988766543332 333333222222221 223322 1 1235799999999888766
Q ss_pred hhhcccceEee
Q 012575 431 SVLQNFTYRVG 441 (460)
Q Consensus 431 ~~~a~~~~~l~ 441 (460)
....+-.+.++
T Consensus 70 ~~~~~~ri~~~ 80 (83)
T PF07536_consen 70 GSEDGERITLS 80 (83)
T ss_pred cCCCCCeEEee
Confidence 65333444443
No 90
>COG3462 Predicted membrane protein [Function unknown]
Probab=60.19 E-value=51 Score=26.17 Aligned_cols=65 Identities=15% Similarity=0.092 Sum_probs=31.7
Q ss_pred hHHHHHHHHHHHHHHHHHH-HHHHHhhccchh----HHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhcc
Q 012575 51 YRWVLMQFGSFIILCGLTH-FISLWTFTVHSK----AVAVVMTIAKMACAFVSCITALMLVHIIPDLLSV 115 (460)
Q Consensus 51 ~~~~~~~~~~fi~~cg~~h-l~~~~~~~~~~~----~~~~~~~~~k~~ta~~s~~~a~~l~~~~p~~l~~ 115 (460)
|-|++.=..+.|...|+.. .+.-+++|+..| +-|.-..++..+-+++++...+.+...+-....-
T Consensus 8 ~~w~ligliavi~~v~li~~~~~gg~~y~~gy~gm~GG~yGm~lImpI~~~vvli~lvvfm~~~~g~~r~ 77 (117)
T COG3462 8 FAWLLIGLIAVIAVVGLIPSGFHGGAFYPGGYRGMMGGLYGMWLIMPIFWAVVLIFLVVFMFYILGAVRR 77 (117)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccCcccCCCccccccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 4455533333333333322 233355665555 2233334667777777776665555544443333
No 91
>MTH00053 CYTB cytochrome b; Provisional
Probab=59.36 E-value=74 Score=31.84 Aligned_cols=90 Identities=16% Similarity=0.167 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
+..|++|=++.+.-|-.-+..-..-+.. -+|+++.|.+ ...+++.++|-..|++-..-....-....|.+|++-+
T Consensus 42 ~~~qiiTGi~L~~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~ylHi~R~~~~gsy~~~~~W~~Gv~l~ 121 (381)
T MTH00053 42 LIIQIITGIFLAMHYCADVNLAFSSVAHITRDVNYGFILRYLHANGASMFFLCVYFHIGRGIYYGSYTKIIVWNVGVLIF 121 (381)
T ss_pred HHHHHHHHHHHHheccCChHHHHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCchHHHhhHHHH
Confidence 3568888888888776655433333322 4588999988 4678899999999999885443333355799999888
Q ss_pred HHHHHHHHHHHHHHh
Q 012575 93 ACAFVSCITALMLVH 107 (460)
Q Consensus 93 ~ta~~s~~~a~~l~~ 107 (460)
+..+....+...+..
T Consensus 122 ~l~m~~af~GYvLpw 136 (381)
T MTH00053 122 LLMILTAFIGYVLPW 136 (381)
T ss_pred HHHHHHHHHHhccch
Confidence 888777777765543
No 92
>PRK03735 cytochrome b6; Provisional
Probab=59.24 E-value=35 Score=31.31 Aligned_cols=90 Identities=12% Similarity=0.125 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccc--hhHHHHHHHH
Q 012575 17 LVRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVH--SKAVAVVMTI 89 (460)
Q Consensus 17 ~~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~--~~~~~~~~~~ 89 (460)
....|++|=++.+.-|---+..-..-+.. -+++|+.|++ ...+.+.++|-..|++-.+....+ +....|++|+
T Consensus 51 ~~~iqi~TGi~L~~~Y~P~~~~A~~Sv~~I~~ev~~GwliR~~H~~gas~~~~~~~lH~~r~~~~gsYk~pre~~W~~Gv 130 (223)
T PRK03735 51 CFVIQILSGMFLTMYYVPDIKNAYESVYYLQNEVAFGWIVRGMHHWGASLVIVMMFLHTLRVFFTGGYKKPRELNWVVGV 130 (223)
T ss_pred HHHHHHHHHHHHHHHHCCCchhHHHHHHHHHcccccHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHcCCCCceeHHHH
Confidence 34678888888887665433222222221 3478999998 567889999999999988543222 2345699998
Q ss_pred HHHHHHHHHHHHHHHHH
Q 012575 90 AKMACAFVSCITALMLV 106 (460)
Q Consensus 90 ~k~~ta~~s~~~a~~l~ 106 (460)
+-++..+....|...+.
T Consensus 131 ~l~~l~~~~af~GY~Lp 147 (223)
T PRK03735 131 LIFFVTVGLGFTGYLLP 147 (223)
T ss_pred HHHHHHHHHHhccccCC
Confidence 88777777666665443
No 93
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=58.67 E-value=2.6e+02 Score=29.95 Aligned_cols=40 Identities=15% Similarity=-0.011 Sum_probs=29.3
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHHhhhhcCCceeEEeccC
Q 012575 146 VRMLTHEIRSTLDRHTILKTTLVELGRTLGLEECALWMPS 185 (460)
Q Consensus 146 l~~lt~~I~~sld~~~il~~~~~~l~~~l~~~~~~i~~~~ 185 (460)
...+.+..+...|..+-|-.--..+....+++.+++|.-+
T Consensus 330 ~arl~~~ma~~~~~~d~L~~~~~dll~L~~adGaal~fg~ 369 (750)
T COG4251 330 HARLLRYMAHAADFVDGLIDHQDDLLDLMPADGAALCFGG 369 (750)
T ss_pred HHHHHHHHhhhcchhhhhcCCchhhHhhccCCceEEEECC
Confidence 3444555666777777777777778888899999998743
No 94
>COG3556 Predicted membrane protein [Function unknown]
Probab=58.36 E-value=1.1e+02 Score=25.38 Aligned_cols=72 Identities=15% Similarity=0.092 Sum_probs=46.8
Q ss_pred HHhcCCCc---------hHHHHHHHHHHHHHHHHHHHHHH---HhhccchhHHHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q 012575 43 VQKSAFFP---------YRWVLMQFGSFIILCGLTHFISL---WTFTVHSKAVAVVMTIAKMACAFVSCITALMLVHIIP 110 (460)
Q Consensus 43 ~~~~~~~~---------~~~~~~~~~~fi~~cg~~hl~~~---~~~~~~~~~~~~~~~~~k~~ta~~s~~~a~~l~~~~p 110 (460)
+--|+|+| .-+++++.++.++..|..-+|-. |-+++++ +.+|.---...+.++.|+...+.++.+.-
T Consensus 27 vllr~dl~~e~~krLa~~D~~YGl~A~aVlisGi~rv~~~~KG~dfYv~n-~~F~aKmglFvlvgLlSi~PTv~fl~W~r 105 (150)
T COG3556 27 VLLRGDLPLETLKRLAIIDRVYGLSASAVLISGIARVFWSGKGVDFYVHN-WMFHAKMGLFVLVGLLSIIPTVRFLSWNR 105 (150)
T ss_pred hhhCCCCCHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHhccceeEEEec-hHHHHHHHHHHHHHHHhccchhHHHHHHh
Confidence 34477774 35678888888888888777655 4445543 45665555556777778777777776655
Q ss_pred hhhcc
Q 012575 111 DLLSV 115 (460)
Q Consensus 111 ~~l~~ 115 (460)
+.=+-
T Consensus 106 q~ka~ 110 (150)
T COG3556 106 QLKAN 110 (150)
T ss_pred hhccC
Confidence 54333
No 95
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=58.35 E-value=2.4e+02 Score=29.47 Aligned_cols=25 Identities=24% Similarity=0.316 Sum_probs=21.8
Q ss_pred HHHHHHHHHHhHhHHHHHHHHHHHH
Q 012575 345 NDFRAVMNHEMRTLMHAIIALSSLL 369 (460)
Q Consensus 345 ~~f~~~iSHELRtPLt~I~g~~~lL 369 (460)
.+-+...+||+.|-|++|.|+.++=
T Consensus 334 a~aLRaq~HEfmNkLhtI~GLlql~ 358 (537)
T COG3290 334 AEALRAQSHEFMNKLHTILGLLQLG 358 (537)
T ss_pred HHHHHHhhHHHHHHHHHHHHHHhhc
Confidence 3677889999999999999999864
No 96
>smart00786 SHR3_chaperone ER membrane protein SH3. This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) PUBMED:15623581. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=58.12 E-value=5.1 Score=35.49 Aligned_cols=33 Identities=12% Similarity=0.218 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHH-HhhccchhHHHHHHH
Q 012575 56 MQFGSFIILCGLTHFISL-WTFTVHSKAVAVVMT 88 (460)
Q Consensus 56 ~~~~~fi~~cg~~hl~~~-~~~~~~~~~~~~~~~ 88 (460)
.-|+.|+++|.+.+++++ ++.|+.+++++|-+.
T Consensus 5 ~~~~t~lIl~~tsF~lGvlf~~~pyD~~~Lw~~~ 38 (196)
T smart00786 5 CSFGTALIIGSTSFFLGILFANFPYDYPLLWSPD 38 (196)
T ss_pred cccccchhhhhHHHHHHHHHhcCccccchhcCCC
Confidence 357899999999999999 557888999888665
No 97
>MTH00100 CYTB cytochrome b; Provisional
Probab=57.45 E-value=1e+02 Score=30.89 Aligned_cols=89 Identities=13% Similarity=0.168 Sum_probs=63.5
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=.+.+.-|-..+..-..-+.. -+|+|+.|.+ ...+.+.++|-..|++-.+.....-.+.-|.+|++-++
T Consensus 42 ~~qiiTG~~L~~~Y~p~~~~a~~Sv~~i~~~v~~G~~iR~~H~~gas~~~~~~~~H~~r~~~~gsy~~~~~W~~G~~l~~ 121 (379)
T MTH00100 42 ILQILTGLFLAMHYTSDTTTAFSSVAHICRDVNYGWIIRYLHANGASMFFICLFLHVGRGLYYGSYLFLETWNIGIILLF 121 (379)
T ss_pred HHHHHHHHHHHHHHcCChhhHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccCchHHHHHHHHHH
Confidence 558899888888887765443333332 4588999988 45688999999999998854433323446999998888
Q ss_pred HHHHHHHHHHHHHh
Q 012575 94 CAFVSCITALMLVH 107 (460)
Q Consensus 94 ta~~s~~~a~~l~~ 107 (460)
..+....+...+..
T Consensus 122 l~~~~af~Gy~Lpw 135 (379)
T MTH00100 122 TVMATAFMGYVLPW 135 (379)
T ss_pred HHHHHHHHHhccCh
Confidence 88777777766654
No 98
>MTH00022 CYTB cytochrome b; Validated
Probab=54.87 E-value=56 Score=32.67 Aligned_cols=88 Identities=15% Similarity=0.099 Sum_probs=62.5
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=++.|.-|-.-+..-..-+.. -+|+|+.|.+ ...+++.++|-..|++-.+-....-.+.-|.+|++-++
T Consensus 41 ~~qiiTG~~La~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~~lHi~r~~~~gsy~~~~~W~~Gv~l~~ 120 (379)
T MTH00022 41 VIQIITGCFLSMHYCSDVSLAFASVGHIMRDVNYGFLLRYLHANGASLFFLCLYIHIGRGLYYGGYLKFHVWNVGVVIFL 120 (379)
T ss_pred HHHHHHHHHHHhhhcCChhhHHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCcchhhhcHHHHH
Confidence 458899998888887766544433432 5588999988 56788999999999998864322223446999988877
Q ss_pred HHHHHHHHHHHHH
Q 012575 94 CAFVSCITALMLV 106 (460)
Q Consensus 94 ta~~s~~~a~~l~ 106 (460)
..+....+...+.
T Consensus 121 l~~~~af~GyvLp 133 (379)
T MTH00022 121 LTMATAFMGYVLP 133 (379)
T ss_pred HHHHHHHheeeec
Confidence 7777666665444
No 99
>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=52.72 E-value=1.2e+02 Score=24.44 Aligned_cols=22 Identities=27% Similarity=0.138 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHHhhhhhhhc
Q 012575 93 ACAFVSCITALMLVHIIPDLLS 114 (460)
Q Consensus 93 ~ta~~s~~~a~~l~~~~p~~l~ 114 (460)
+++.+.+..+..+....-+.++
T Consensus 77 iv~~~~l~la~i~~~~~~~~l~ 98 (121)
T PF07332_consen 77 IVAGLYLLLALILLLIGRRRLR 98 (121)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 3444444444444444444443
No 100
>MTH00086 CYTB cytochrome b; Provisional
Probab=52.62 E-value=1.1e+02 Score=30.19 Aligned_cols=89 Identities=11% Similarity=0.135 Sum_probs=61.5
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
+..|++|=++.+.-|-.-+-.-..-+.. -+|+++.|.+ ...+++.++|-..|.+-.+-......+.-|.+|++-.
T Consensus 30 l~iQiiTGi~L~~~Y~p~~~~Af~Sv~~I~~~v~~GwliR~~H~~gas~~f~~~ylHi~R~~~ygsy~~~~~W~~Gv~l~ 109 (355)
T MTH00086 30 LVFQILTGTFLAFYYTADSSMAFSSVQYIMYEVNFGWLFRIFHFNGASLFFIFLYLHIFKGLFMMSYRLKKVWISGLTIY 109 (355)
T ss_pred HHHHHHHHHHHHhhhcCCchhHHHHHHHHhCcccccHHHHHHHHhHHHHHHHHHHHHHHHHHHHcccCCchHHHHhHHHH
Confidence 3568888888888776554333222322 4578999988 4568899999999999886543333345799998888
Q ss_pred HHHHHHHHHHHHHH
Q 012575 93 ACAFVSCITALMLV 106 (460)
Q Consensus 93 ~ta~~s~~~a~~l~ 106 (460)
+..++...+...+.
T Consensus 110 ~l~m~~af~GYvLp 123 (355)
T MTH00086 110 LLVMMEAFMGYVLV 123 (355)
T ss_pred HHHHHHHHhhhhcc
Confidence 77777666665554
No 101
>MTH00016 CYTB cytochrome b; Validated
Probab=52.43 E-value=92 Score=31.15 Aligned_cols=88 Identities=14% Similarity=0.144 Sum_probs=60.8
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHH-hcCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQ-KSAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~-~~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=++.+.-|-..+-.-..-+. =-+|+++.|.+ ...+++.++|-..|++-.+-...+-.+.-|.+|++-++
T Consensus 43 ~~qiitG~~L~~~Y~p~~~~Af~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~ylHi~R~~~~gsy~~~~~W~~Gv~l~~ 122 (378)
T MTH00016 43 VIQILTGLFLSMHYTPHIDLAFSSVAHISRDVNYGWLLRNLHANGASFFFICLYLHIGRGIYYGSYFLMETWNIGVILLL 122 (378)
T ss_pred HHHHHHHHHHHhhhcCCcchhHHHHHHHHccCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhccccccchHHHhhHHHHH
Confidence 55888888888888765432222222 24578999988 45588999999999998865433333447999988877
Q ss_pred HHHHHHHHHHHHH
Q 012575 94 CAFVSCITALMLV 106 (460)
Q Consensus 94 ta~~s~~~a~~l~ 106 (460)
..++...+...+.
T Consensus 123 l~m~~af~GYvLp 135 (378)
T MTH00016 123 LTMATAFLGYVLP 135 (378)
T ss_pred HHHHHHHhhhccc
Confidence 7777666665553
No 102
>MTH00034 CYTB cytochrome b; Validated
Probab=52.25 E-value=82 Score=31.52 Aligned_cols=90 Identities=14% Similarity=0.170 Sum_probs=62.8
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
...|++|=++.+.-|-.-+..-..-+.. -+|+|+.|.+ ...+.+.++|-..|++-.+....+-.+.-|.+|++-.
T Consensus 41 ~~~qiiTG~~L~~~Y~p~~~~A~~Sv~~i~~~v~~Gw~iR~~H~~gas~~f~~~~lH~~r~~~~gsy~~~~~W~~G~~l~ 120 (379)
T MTH00034 41 LIIQIITGIFLAMHYTADISLAFSSVSHICRDVNYGWLLRNIHANGASLFFICLYFHIGRGLYYGSYVNIETWNIGVILF 120 (379)
T ss_pred HHHHHHHHHHHHHHHcCCccchHHHHHHHHhcCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCchHHHHhHHHH
Confidence 3568888888888776554333333332 4478999988 5678899999999999885443332345799999888
Q ss_pred HHHHHHHHHHHHHHh
Q 012575 93 ACAFVSCITALMLVH 107 (460)
Q Consensus 93 ~ta~~s~~~a~~l~~ 107 (460)
+..+....|...+..
T Consensus 121 ~l~~~~af~Gy~Lpw 135 (379)
T MTH00034 121 LLTMLTAFVGYVLPW 135 (379)
T ss_pred HHHHHHHHhhcCcch
Confidence 888777777766544
No 103
>MTH00131 CYTB cytochrome b; Provisional
Probab=51.24 E-value=1.1e+02 Score=30.55 Aligned_cols=90 Identities=13% Similarity=0.179 Sum_probs=61.8
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
...|++|=++.+.-|---+-.-..-+.. -+|+|+.|.+ ...+.+.++|-..|++-.+-...+-.+.-|.+|++-+
T Consensus 41 ~~~qiitG~~L~~~Y~p~~~~a~~Sv~~i~~ev~~G~~iR~~H~~gas~~~~~~~lH~~r~~~~gsy~~~~~W~~G~~l~ 120 (380)
T MTH00131 41 LITQILTGLFLAMHYTSDISTAFSSVAHICRDVNYGWLIRNLHANGASFFFICIYLHIGRGLYYGSYLYKETWNIGVVLL 120 (380)
T ss_pred HHHHHHHHHHHHHHHhCCchhHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHhHHHH
Confidence 3568899888888777654433333332 4588999988 4568888999999999885432222334799998887
Q ss_pred HHHHHHHHHHHHHHh
Q 012575 93 ACAFVSCITALMLVH 107 (460)
Q Consensus 93 ~ta~~s~~~a~~l~~ 107 (460)
+..+....|...+..
T Consensus 121 ~l~~~~~f~Gy~Lpw 135 (380)
T MTH00131 121 LLVMMTAFVGYVLPW 135 (380)
T ss_pred HHHHHHHHHhccCcc
Confidence 777777766655543
No 104
>MTH00224 CYTB cytochrome b; Provisional
Probab=50.98 E-value=86 Score=31.36 Aligned_cols=88 Identities=13% Similarity=0.121 Sum_probs=62.6
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=.+.+.-|-..+-.-..-+.. -+|+|+.|.+ ...+.+.++|-..|++-.+.....-.+.-|.+|++-++
T Consensus 43 ~~qiiTGi~L~~~Y~p~~~~Af~Sv~~i~~ev~~Gw~iR~~H~~gas~~f~~~~lH~~R~~~~gsy~~~~~W~~Gv~l~~ 122 (379)
T MTH00224 43 VIQVLTGLFLSMHYAPNIEMAFSSVAHISRDVNYGWLLRSIHANGASMFFLFIYLHVGRGLYYGSFNLSETWNIGVILFI 122 (379)
T ss_pred HHHHHHHHHHHHHHcCCchHHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccCHHHHHHhHHHHH
Confidence 558899988888887766444333432 4578999988 56788999999999998865433334447999988877
Q ss_pred HHHHHHHHHHHHH
Q 012575 94 CAFVSCITALMLV 106 (460)
Q Consensus 94 ta~~s~~~a~~l~ 106 (460)
..+....|...+.
T Consensus 123 l~~~~af~GY~Lp 135 (379)
T MTH00224 123 LTMATAFLGYVLP 135 (379)
T ss_pred HHHHHHHeEeeec
Confidence 7776666665443
No 105
>MTH00074 CYTB cytochrome b; Provisional
Probab=50.23 E-value=1.2e+02 Score=30.48 Aligned_cols=89 Identities=13% Similarity=0.183 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
...|++|=.+.+.-|-.-+..-..-+.. -+|+|+.|.+ ...+++.++|-..|++-.+-...+-.+.-|.+|++-+
T Consensus 42 ~~~qiitG~~L~~~Y~p~~~~a~~Sv~~i~~~v~~Gw~~R~~H~~gas~~f~~~~lH~~r~~~~gsy~~~~~W~~G~~l~ 121 (380)
T MTH00074 42 LIAQIITGLFLAMHYTADTSSAFSSVAHICRDVNYGWLMRNIHANGASFFFICIYLHIGRGLYYGSYMYKETWNIGVILL 121 (380)
T ss_pred HHHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchHHHhhHHHH
Confidence 4668899888888887655433333332 4588999988 4568899999999999885443322344789988877
Q ss_pred HHHHHHHHHHHHHH
Q 012575 93 ACAFVSCITALMLV 106 (460)
Q Consensus 93 ~ta~~s~~~a~~l~ 106 (460)
+..+....+...+.
T Consensus 122 ~l~~~~af~Gy~Lp 135 (380)
T MTH00074 122 FLVMATAFVGYVLP 135 (380)
T ss_pred HHHHHHHHHhcccc
Confidence 77666666655443
No 106
>PF05449 DUF754: Protein of unknown function (DUF754); InterPro: IPR008473 This entry is represented by Bacteriophage D3, Orf90. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=50.22 E-value=95 Score=23.59 Aligned_cols=45 Identities=16% Similarity=0.161 Sum_probs=30.0
Q ss_pred HHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHh
Q 012575 29 ALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWT 75 (460)
Q Consensus 29 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~ 75 (460)
++++..|-+-|++| +|++-.+|+...+++-++++.-..--+.++.
T Consensus 4 a~~c~~i~lrl~~y--rr~garhr~~~s~lA~lli~~~~~~~i~~l~ 48 (83)
T PF05449_consen 4 ALICLAIALRLMFY--RRNGARHRPWISWLAYLLIVAYGSVPIRILF 48 (83)
T ss_pred HHHHHHHHHHHhee--ecCCCccCcHHHHHHHHHHHHHHHHHHHHHh
Confidence 56788888888887 6667788888877766555543333444444
No 107
>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=50.09 E-value=1.6e+02 Score=25.01 Aligned_cols=45 Identities=16% Similarity=0.383 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHH-HHhcCCCchHHHHHHHHHHHHH
Q 012575 20 YQYISDILIALAYFSIPVELIYF-VQKSAFFPYRWVLMQFGSFIIL 64 (460)
Q Consensus 20 ~~~~~d~~i~~~~~~i~~~l~~~-~~~~~~~~~~~~~~~~~~fi~~ 64 (460)
.....+.++.++++.-.+-+.|. .+||+.+|...+.++....++.
T Consensus 54 ~~~~~~~~~~~~~~~~~l~~~~lffkr~~~~P~~~I~~ll~~v~~~ 99 (149)
T PF10754_consen 54 ALWYFEVAINIAMWLFTLWLLYLFFKRKRRFPKLYIIWLLISVLFI 99 (149)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHccchhHHHHHHHHHHHHHHH
Confidence 45667888888776666666654 4666677888887776666633
No 108
>PRK05415 hypothetical protein; Provisional
Probab=49.24 E-value=2.7e+02 Score=27.38 Aligned_cols=26 Identities=12% Similarity=0.070 Sum_probs=13.6
Q ss_pred HHHHHHHHhcccHHHHHHHHHHHhhh
Q 012575 147 RMLTHEIRSTLDRHTILKTTLVELGR 172 (460)
Q Consensus 147 ~~lt~~I~~sld~~~il~~~~~~l~~ 172 (460)
....+.+....|..+++.-.-.++..
T Consensus 171 ~r~~~~~~~~~~~~e~l~L~e~~vl~ 196 (341)
T PRK05415 171 QRWQASLHETHNDAELLRLYEREVLP 196 (341)
T ss_pred HHHHHhhcccCCHHHHHHHHHHHhhH
Confidence 33444555556666666555554433
No 109
>MTH00046 CYTB cytochrome b; Validated
Probab=49.22 E-value=85 Score=31.04 Aligned_cols=85 Identities=13% Similarity=0.144 Sum_probs=57.5
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
+..|++|=.+.+.-|-..+..-..-+.. -+|+|+.|.+ ...+++.++|-..|.+-..-...+-.+.-|.+|++-.
T Consensus 32 l~iQiiTGi~La~~Y~p~~~~Af~Sv~~I~~~v~~GwliR~~H~~gAs~~f~~~ylHi~R~~~~gsY~~~~~W~~Gv~l~ 111 (355)
T MTH00046 32 MVIQVLTGVLLSLLYVADSLCSFFCVMSLSNDSFFTWCVRYWHIWGVNVLFILLFIHMGRALYYSSYSKKGVWNVGFILY 111 (355)
T ss_pred HHHHHHHHHHHHHHHcCCchHHHHHHHHHHccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHhHHHH
Confidence 3468899998888887655433332322 4588999998 5678899999999999885433332445788888776
Q ss_pred HHHHHHHHHH
Q 012575 93 ACAFVSCITA 102 (460)
Q Consensus 93 ~ta~~s~~~a 102 (460)
+..+....+.
T Consensus 112 ~l~m~~aF~G 121 (355)
T MTH00046 112 LLVMVEAFLG 121 (355)
T ss_pred HHHHHHHHee
Confidence 5555444443
No 110
>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=48.04 E-value=26 Score=22.43 Aligned_cols=25 Identities=32% Similarity=0.534 Sum_probs=20.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 50 PYRWVLMQFGSFIILCGLTHFISLW 74 (460)
Q Consensus 50 ~~~~~~~~~~~fi~~cg~~hl~~~~ 74 (460)
|+.....++++|.+++-+.|++-.-
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 6777778899999999999987663
No 111
>MTH00119 CYTB cytochrome b; Provisional
Probab=47.99 E-value=1.2e+02 Score=30.34 Aligned_cols=90 Identities=11% Similarity=0.122 Sum_probs=63.4
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHH
Q 012575 18 VRYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKM 92 (460)
Q Consensus 18 ~~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~ 92 (460)
...|++|=.+.+.-|-..+-.-..-+.. -+|+|+.|.+ ...+.+.+++-..|++-.+....+-...-|++|++-.
T Consensus 42 ~~~qiitG~~L~~~Y~p~~~~a~~Sv~~i~~~v~~G~~iR~~H~~ga~~~~~~~~lH~~r~~~~gsy~~~~~W~~Gv~l~ 121 (380)
T MTH00119 42 LITQILTGLFLAMHYTADISLAFSSVAHICRDVQYGWLIRNLHANGASMFFICIYLHIGRGLYYGSYLYKETWNTGVILL 121 (380)
T ss_pred HHHHHHHHHHHHHHhcCCchHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhceecccchhhhhhHHH
Confidence 4668899888888777665433333322 4578999988 4557888888899999986543333345799999888
Q ss_pred HHHHHHHHHHHHHHh
Q 012575 93 ACAFVSCITALMLVH 107 (460)
Q Consensus 93 ~ta~~s~~~a~~l~~ 107 (460)
+..+....|...+..
T Consensus 122 ~l~~~~~f~Gy~Lpw 136 (380)
T MTH00119 122 LLLMATAFVGYVLPW 136 (380)
T ss_pred HHHHHHHHHhcccch
Confidence 888777777766544
No 112
>COG4420 Predicted membrane protein [Function unknown]
Probab=47.89 E-value=2e+02 Score=25.49 Aligned_cols=18 Identities=6% Similarity=-0.023 Sum_probs=9.8
Q ss_pred cchhHHHHHHHHHHHHHH
Q 012575 78 VHSKAVAVVMTIAKMACA 95 (460)
Q Consensus 78 ~~~~~~~~~~~~~k~~ta 95 (460)
+.+||..|+..+.....|
T Consensus 84 wDpyPFi~LnLllS~~Aa 101 (191)
T COG4420 84 WDPYPFILLNLLLSTLAA 101 (191)
T ss_pred CCCccHHHHHHHHHHHHH
Confidence 355776666655444333
No 113
>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=47.42 E-value=54 Score=24.66 Aligned_cols=28 Identities=14% Similarity=0.101 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHhHhHH--HHHHHHHHHH
Q 012575 342 HARNDFRAVMNHEMRTLM--HAIIALSSLL 369 (460)
Q Consensus 342 ~~k~~f~~~iSHELRtPL--t~I~g~~~lL 369 (460)
..+.+|...++.||+||. +.|..+...+
T Consensus 28 ~~~~~F~~AL~DDLNTp~Ala~L~~l~k~i 57 (81)
T cd07955 28 ALVARLREALADDLDTPKALAALDAWAREA 57 (81)
T ss_pred HHHHHHHHHHHhhCChHHHHHHHHHHHHHH
Confidence 466899999999999996 4555555555
No 114
>PF13491 DUF4117: Domain of unknown function (DUF4117)
Probab=46.83 E-value=53 Score=28.40 Aligned_cols=54 Identities=22% Similarity=0.302 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHH---HHhhHHHHHHHHH---HhcCCC--chHHHHHHHHHHHHHHHHHHHHH
Q 012575 19 RYQYISDILIAL---AYFSIPVELIYFV---QKSAFF--PYRWVLMQFGSFIILCGLTHFIS 72 (460)
Q Consensus 19 ~~~~~~d~~i~~---~~~~i~~~l~~~~---~~~~~~--~~~~~~~~~~~fi~~cg~~hl~~ 72 (460)
.-..+||.++.. +-+.+|+.+++.. -++++. +.++.+..+..++.+|++.|+..
T Consensus 50 ~Ga~~a~~l~~~fG~~a~~~p~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~l~~l~~ 111 (171)
T PF13491_consen 50 LGAYLADFLFQLFGLGAYLLPLLLIVWGIRLFRRRSLRRRIRRWLGLLLLLLSLSGLLSLLI 111 (171)
T ss_pred HhHHHHHhHHhccchHHHHHHHHHHHHHHHHHHccCchhhHHHHHHHHHHHHHHHHHHHHhc
Confidence 347789999876 5555777776542 233333 45555666666777788777643
No 115
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=45.69 E-value=1.3e+02 Score=22.84 Aligned_cols=13 Identities=15% Similarity=0.424 Sum_probs=5.2
Q ss_pred HHHHhhhhhhhcc
Q 012575 103 LMLVHIIPDLLSV 115 (460)
Q Consensus 103 ~~l~~~~p~~l~~ 115 (460)
+..+++++-+.++
T Consensus 12 vLvi~l~~~l~~l 24 (90)
T PF06103_consen 12 VLVIFLIKVLKKL 24 (90)
T ss_pred HHHHHHHHHHHHH
Confidence 3333444444444
No 116
>PRK04158 transcriptional repressor CodY; Validated
Probab=44.98 E-value=2.7e+02 Score=26.12 Aligned_cols=43 Identities=19% Similarity=0.252 Sum_probs=29.1
Q ss_pred ccCCceeEEEEEee-CCCCCcccccHHHHHHHHHHHHHHHHHHHHH
Q 012575 268 LPAKSYAVMVLMLP-TDGGRKWRDHELELIDVVADQVAVALSHAAI 312 (460)
Q Consensus 268 l~~g~~~~~v~~~~-~~~~~~~~~~e~~ll~~ia~~~a~ai~~a~l 312 (460)
+..|+..+|-+.+. .++ .++++++.+++.-|.-+|.-+.+.+.
T Consensus 117 I~ggGeRLGTLvl~r~~~--~f~~dDliL~EyaATVVgLEIlR~~a 160 (256)
T PRK04158 117 IIGGGERLGTLILARFDK--EFTDDDLILAEYAATVVGMEILREKA 160 (256)
T ss_pred EecCCeEEEEEEEEecCC--CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444445555544 444 89999999999999988877755443
No 117
>COG1480 Predicted membrane-associated HD superfamily hydrolase [General function prediction only]
Probab=44.29 E-value=4.1e+02 Score=28.67 Aligned_cols=34 Identities=21% Similarity=0.136 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhccccHHH
Q 012575 87 MTIAKMACAFVSCITALMLVHIIPDLLSVKTREL 120 (460)
Q Consensus 87 ~~~~k~~ta~~s~~~a~~l~~~~p~~l~~~~~~~ 120 (460)
.+...++..+.+...++.++|+.-..-.+.+.-.
T Consensus 435 ~~~~~flsGl~s~il~iGllP~fE~~F~~~T~~r 468 (700)
T COG1480 435 DAIFAFLSGLLSGILVLGLLPYFEALFGLLTTFR 468 (700)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhccCchhh
Confidence 3445556666666677777777766666666444
No 118
>MTH00191 CYTB cytochrome b; Provisional
Probab=44.24 E-value=1.6e+02 Score=29.36 Aligned_cols=89 Identities=13% Similarity=0.163 Sum_probs=61.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=.+.+.-|---+-.-..-+.. -+|+|+.|.+ ...+.+.+++-..|++-.+....+-.+.-|.+|++-++
T Consensus 39 ~~q~itG~~L~~~Y~p~~~~a~~Sv~~i~~~v~~G~~~R~~H~~gas~~~~~~~~H~~r~~~~gsy~~~~~W~~G~~l~~ 118 (365)
T MTH00191 39 IIQILTGLFLAMHYTADISLAFSSVVHICRDVNYGWLLRNIHANGASFFFICIYLHIGRGLYYGSYLNKETWNVGVILLI 118 (365)
T ss_pred HHHHHHHHHHHhhhcCCchHHHHHHHHHHhcCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhheeccchhhHhhHHHHH
Confidence 558888888888777665433322322 4578999988 45688999999999998854333323447999988887
Q ss_pred HHHHHHHHHHHHHh
Q 012575 94 CAFVSCITALMLVH 107 (460)
Q Consensus 94 ta~~s~~~a~~l~~ 107 (460)
..++...|...+..
T Consensus 119 l~~~~~f~Gy~Lpw 132 (365)
T MTH00191 119 LSMATAFLGYVLPW 132 (365)
T ss_pred HHHHHHHhhccccc
Confidence 77777777655543
No 119
>KOG3814 consensus Signaling protein van gogh/strabismus [Signal transduction mechanisms]
Probab=44.15 E-value=1.8e+02 Score=28.81 Aligned_cols=43 Identities=19% Similarity=0.352 Sum_probs=24.1
Q ss_pred HHhhHHHHHHHHHHhcCCCchHHHHH-HHHHHHHHHHHHHHHHHHhhc
Q 012575 31 AYFSIPVELIYFVQKSAFFPYRWVLM-QFGSFIILCGLTHFISLWTFT 77 (460)
Q Consensus 31 ~~~~i~~~l~~~~~~~~~~~~~~~~~-~~~~fi~~cg~~hl~~~~~~~ 77 (460)
....|.+-.+||=+.+.|+|.-+++- +.-..+++| +++.|.|+
T Consensus 166 l~L~ig~walf~Rk~~A~mPRvf~~RAlll~LV~~~----~fayWLFY 209 (531)
T KOG3814|consen 166 LILLIGIWALFFRKAMADMPRVFVVRALLLVLVFLI----VFAYWLFY 209 (531)
T ss_pred HHHHHHHHHHHhhhhhccCchhHHHHHHHHHHHHHH----HHHHHHHH
Confidence 44556666667655566888766663 222233334 56666654
No 120
>PF08229 SHR3_chaperone: ER membrane protein SH3 ; InterPro: IPR013248 This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) []. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=43.59 E-value=9.2 Score=34.15 Aligned_cols=33 Identities=12% Similarity=0.236 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHH-HhhccchhHHHHHHHH
Q 012575 57 QFGSFIILCGLTHFISL-WTFTVHSKAVAVVMTI 89 (460)
Q Consensus 57 ~~~~fi~~cg~~hl~~~-~~~~~~~~~~~~~~~~ 89 (460)
-|+.++++|.+.+++++ ++.|+.+++++|-+..
T Consensus 6 ~~~t~lIi~stsF~LG~lf~~~~yD~~~Lw~~~~ 39 (196)
T PF08229_consen 6 SFGTGLIICSTSFLLGVLFSNWPYDYPTLWSSPP 39 (196)
T ss_pred ceeeeeehHhhHHHHHHHHHcccchhHHhcCCCC
Confidence 46788899999999998 6678888888876643
No 121
>MTH00156 CYTB cytochrome b; Provisional
Probab=43.51 E-value=1e+02 Score=30.50 Aligned_cols=89 Identities=15% Similarity=0.151 Sum_probs=60.9
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHh-cCCCchHHHH----HHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQK-SAFFPYRWVL----MQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMA 93 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~-~~~~~~~~~~----~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ 93 (460)
..|++|=.+.+.-|-.-+..-..-+.. -+|+|+.|.+ ...+.+.++|-..|++-.......-.+.-|.+|++-..
T Consensus 32 ~~qiiTG~~L~~~Y~p~~~~A~~Sv~~i~~~v~~Gw~iR~~H~~gas~~~~~~~lH~~r~~~~gsy~~~~~W~~G~~l~~ 111 (356)
T MTH00156 32 MIQIITGLFLAMHYTADIELAFSSVIHICRDVNYGWLLRTLHANGASFFFICIYLHIGRGIYYGSYKLKHTWMSGVIILF 111 (356)
T ss_pred HHHHHHHHHHHHHhcCCchhHHHHHHHHHccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCcchhHhhHHHHH
Confidence 458888888888777655433333332 4588999988 45688999999999998854322223447899988877
Q ss_pred HHHHHHHHHHHHHh
Q 012575 94 CAFVSCITALMLVH 107 (460)
Q Consensus 94 ta~~s~~~a~~l~~ 107 (460)
..+....|...+..
T Consensus 112 ~~~~~af~GY~Lpw 125 (356)
T MTH00156 112 LVMATAFLGYVLPW 125 (356)
T ss_pred HHHHHHHeeeeccc
Confidence 77777666655543
No 122
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=43.38 E-value=1.1e+02 Score=21.65 Aligned_cols=13 Identities=15% Similarity=0.233 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 012575 126 ADELDREMGLILT 138 (460)
Q Consensus 126 ~~~l~~e~~~l~~ 138 (460)
..+++++++.+++
T Consensus 50 ~~~~~k~l~~le~ 62 (68)
T PF06305_consen 50 IRRLRKELKKLEK 62 (68)
T ss_pred HHHHHHHHHHHHH
Confidence 3444444444333
No 123
>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=42.45 E-value=37 Score=24.40 Aligned_cols=27 Identities=15% Similarity=0.239 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHhcCC
Q 012575 22 YISDILIALAYFSIPVELIYFVQKSAF 48 (460)
Q Consensus 22 ~~~d~~i~~~~~~i~~~l~~~~~~~~~ 48 (460)
+++|++..+.+.+|-..++|-++.|+.
T Consensus 1 MI~d~iLi~ICVaii~lIlY~iYnr~~ 27 (68)
T PF05961_consen 1 MIGDFILIIICVAIIGLILYGIYNRKK 27 (68)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 478999999999999999999988773
No 124
>TIGR02787 codY_Gpos GTP-sensing transcriptional pleiotropic repressor CodY. This model represents the full length of CodY, a pleiotropic repressor in Bacillus subtilis and other Firmicutes (low-GC Gram-positive bacteria) that responds to intracellular levels of GTP and branched chain amino acids. The C-terminal helix-turn-helix DNA-binding region is modeled by pfam08222 in Pfam.
Probab=40.80 E-value=3e+02 Score=25.56 Aligned_cols=44 Identities=20% Similarity=0.285 Sum_probs=27.9
Q ss_pred CcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHHHHHHHHH
Q 012575 266 PELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVAVALSHAA 311 (460)
Q Consensus 266 ~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a~ai~~a~ 311 (460)
|...+|...+-++....+. .|+++++-+.+.-|.-+++-+-+..
T Consensus 113 PI~g~g~RLGTl~l~r~~~--~F~~dDliLaEy~aTVVG~Eilr~~ 156 (251)
T TIGR02787 113 PIYGGGERLGTLILARSDK--EFNDDDLVLAEYAATVVGMELLRAQ 156 (251)
T ss_pred eeecCCceeEEEEEEEcCC--CCCcccchhhhhHhHHHHHHHHHHH
Confidence 3344444444333333343 8999999999988888887664443
No 125
>COG4377 Predicted membrane protein [Function unknown]
Probab=40.32 E-value=84 Score=28.08 Aligned_cols=27 Identities=15% Similarity=0.311 Sum_probs=21.5
Q ss_pred HHHHhhHHHHHHHHHHhcCCCchHHHH
Q 012575 29 ALAYFSIPVELIYFVQKSAFFPYRWVL 55 (460)
Q Consensus 29 ~~~~~~i~~~l~~~~~~~~~~~~~~~~ 55 (460)
++++..+|+..++|.+|+-++..+-++
T Consensus 15 aiall~~pIG~i~w~krky~~~l~v~g 41 (258)
T COG4377 15 AIALLAFPIGSIWWAKRKYQINLAVLG 41 (258)
T ss_pred HHHHHHHHHHHHHHHHHHhcchHHHHh
Confidence 788889999999999888876555444
No 126
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=39.77 E-value=3.3e+02 Score=26.70 Aligned_cols=21 Identities=14% Similarity=0.194 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 012575 122 LKNRADELDREMGLILTQEET 142 (460)
Q Consensus 122 l~~~~~~l~~e~~~l~~~~e~ 142 (460)
+++.|++|+++..+++.+..+
T Consensus 62 L~~EN~~Lk~Ena~L~~~l~~ 82 (337)
T PRK14872 62 LETENFLLKERIALLEERLKS 82 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 555667777776666554444
No 127
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=39.74 E-value=1.1e+02 Score=26.25 Aligned_cols=40 Identities=15% Similarity=0.127 Sum_probs=26.4
Q ss_pred HHHHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHH
Q 012575 27 LIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCG 66 (460)
Q Consensus 27 ~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg 66 (460)
+|.++-+.+-+.++.+.|.|.+-.||=+.+.+..++++.+
T Consensus 22 ~i~~ll~~l~~~~~~Y~r~r~~tKyRDL~II~~L~ll~l~ 61 (149)
T PF11694_consen 22 LIIILLLVLIFFFIKYLRNRLDTKYRDLSIIALLLLLLLI 61 (149)
T ss_pred HHHHHHHHHHHHHHHHHHhcCcchhhhHHHHHHHHHHHHH
Confidence 3444444455556666788888889888877776666554
No 128
>PF08066 PMC2NT: PMC2NT (NUC016) domain; InterPro: IPR012588 Exosomes are nano-compartments that function in the degradation or processing of RNA (including mRNA, rRNA, snRNA and snoRNA) [, ]. Exosomes occur in both archaea and eukaryotes, and have a similar overall structure to each other and to bacterial/organelle PNPases (polynucleotide phosphorylases; 2.7.7.8 from EC) [], consisting of a barrel structure composed of a hexameric ring of PH domains that act as a degradation chamber, and an S1-domain/KH-domain containing cap that binds the RNA substrate (and sometimes accessory proteins) in order to regulate and restrict entry into the degradation chamber []. There are two types of exosomes in eukaryotes, cytoplasmic exosomes that are responsible for 3'-5' exoribonuclease degradation of mRNAs, and nuclear exosomes that degrade pre-mRNAs (such as nonsense transcripts) and degrade rRNAs, snRNAs and snoRNAs. Unstructured RNA substrates feed in through the pore made by the S1 domains, are degraded by the PH domain ring, and exit as nucleotides via the PH pore at the opposite end of the barrel [, ]. There are several accessory proteins that help degrade, unwind or polyadenylate RNA substrate before they enter the exosome. This entry represents the N-terminal domain of Rrp6 (exosome component 10 in humans), a nuclear exosome accessory factor that interacts with the bottom of the hexameric PH-ring opposite the cap. Rrp6 functions as a hydrolytic exonuclease, and is homologous to RNase-D in Escherichia coli. More information about these proteins can be found at Protein of the Month: RNA Exosomes [].; GO: 0006396 RNA processing, 0000176 nuclear exosome (RNase complex)
Probab=39.51 E-value=1.3e+02 Score=23.16 Aligned_cols=51 Identities=12% Similarity=0.111 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHHHHHhh
Q 012575 381 MIETVLKSSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVIIFSSV 432 (460)
Q Consensus 381 ~l~~I~~~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~~~~~~ 432 (460)
+-+.+.+.++|+.+++|++|.......+.... ....++.+-.+.+++..-.
T Consensus 26 f~~~ld~~s~rll~l~n~ll~~~~~~~~~~~~-~~~~d~d~~~~~vvd~~D~ 76 (91)
T PF08066_consen 26 FAESLDEQSQRLLSLINSLLKSAGSKSNISSP-DDVDDVDERWDSVVDVNDS 76 (91)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhccccccccCC-CccccHHHHHHHHHHHHHH
Confidence 44567888999999999999887655433222 1234555555554444433
No 129
>PHA03049 IMV membrane protein; Provisional
Probab=38.51 E-value=46 Score=23.80 Aligned_cols=27 Identities=19% Similarity=0.282 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHhcCC
Q 012575 22 YISDILIALAYFSIPVELIYFVQKSAF 48 (460)
Q Consensus 22 ~~~d~~i~~~~~~i~~~l~~~~~~~~~ 48 (460)
+++|++.-+.+.+|-..++|=++.|+.
T Consensus 1 MI~d~~l~iICVaIi~lIvYgiYnkk~ 27 (68)
T PHA03049 1 MIGDIILVIICVVIIGLIVYGIYNKKT 27 (68)
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 478999999999999999999988874
No 130
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=37.83 E-value=3.5e+02 Score=25.47 Aligned_cols=36 Identities=17% Similarity=0.267 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Q 012575 122 LKNRADELDREMGLILTQEETGRHVRMLTHEIRSTL 157 (460)
Q Consensus 122 l~~~~~~l~~e~~~l~~~~e~~~~l~~lt~~I~~sl 157 (460)
+++.+++|++|...++.+..+.+.+.+=.+.++..+
T Consensus 74 l~~en~~L~~e~~~l~~~~~~~~~l~~en~~L~~lL 109 (276)
T PRK13922 74 LREENEELKKELLELESRLQELEQLEAENARLRELL 109 (276)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455666777776666665555544444444444433
No 131
>COG1270 CbiB Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]
Probab=36.50 E-value=3.6e+02 Score=26.25 Aligned_cols=32 Identities=22% Similarity=0.288 Sum_probs=25.8
Q ss_pred HHHHHHHHHHHHhcccHHHHHHHHHHHhhhhc
Q 012575 143 GRHVRMLTHEIRSTLDRHTILKTTLVELGRTL 174 (460)
Q Consensus 143 ~~~l~~lt~~I~~sld~~~il~~~~~~l~~~l 174 (460)
.+.+.++..+=.+.+|..+|...+++.+.+.+
T Consensus 122 R~~ls~iV~RDts~L~~~~i~~AaIES~aEN~ 153 (320)
T COG1270 122 RRALSMIVGRDTSKLSEAEIASAAIESLAENL 153 (320)
T ss_pred HHHHHHHhcCCcccCCHHHHHHHHHHHHHHhc
Confidence 34466676667788999999999999998865
No 132
>PF09858 DUF2085: Predicted membrane protein (DUF2085); InterPro: IPR019206 This entry, found in various hypothetical prokaryotic proteins, has no known function.
Probab=35.87 E-value=1.8e+02 Score=22.55 Aligned_cols=43 Identities=16% Similarity=0.264 Sum_probs=20.0
Q ss_pred HhhHHHHHHHHHHh-cCCCchHHHHHHHHHHHH-HHHHHHHHHHH
Q 012575 32 YFSIPVELIYFVQK-SAFFPYRWVLMQFGSFII-LCGLTHFISLW 74 (460)
Q Consensus 32 ~~~i~~~l~~~~~~-~~~~~~~~~~~~~~~fi~-~cg~~hl~~~~ 74 (460)
|.+..+..+++... .+..|..+.+......+. +=|+|+++..+
T Consensus 27 y~G~~~~~~~~~~~r~~~~~~~~~~~~l~~lpm~iDg~~q~~~~~ 71 (93)
T PF09858_consen 27 YLGLLIGLLLFYLGRIRLPPLSIWLALLLLLPMAIDGFTQLFGWR 71 (93)
T ss_pred HHHHHHHHHHHHHhhcccccchHHHHHHHHHHHHHHHHHHhceec
Confidence 33333344444322 222244444443333333 33888888843
No 133
>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=35.49 E-value=4.1e+02 Score=25.48 Aligned_cols=25 Identities=8% Similarity=0.085 Sum_probs=13.4
Q ss_pred HHHHHHHHHhcccHHHHHHHHHHHh
Q 012575 146 VRMLTHEIRSTLDRHTILKTTLVEL 170 (460)
Q Consensus 146 l~~lt~~I~~sld~~~il~~~~~~l 170 (460)
.....+.+....|.++++.-.-+++
T Consensus 119 ~~r~~~~~~~~~d~~ell~L~e~~v 143 (289)
T TIGR01620 119 RAAWKETENEVIDGPELIELAEREV 143 (289)
T ss_pred HHHHHHhccccCCHHHHHHHHHHHh
Confidence 3444445555566666665554444
No 134
>PF06072 Herpes_US9: Alphaherpesvirus tegument protein US9; InterPro: IPR009278 This family consists of several US9 and related proteins from the Alphaherpesviruses. The function of the US9 protein is unknown although in Bovine herpesvirus 5 Us9 is essential for the anterograde spread of the virus from the olfactory mucosa to the bulb [].; GO: 0019033 viral tegument
Probab=35.43 E-value=65 Score=22.56 Aligned_cols=22 Identities=14% Similarity=0.039 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 012575 56 MQFGSFIILCGLTHFISLWTFT 77 (460)
Q Consensus 56 ~~~~~fi~~cg~~hl~~~~~~~ 77 (460)
....+|+++|++.-+++.+..|
T Consensus 37 ~~v~~~~~~c~~S~~lG~~~~~ 58 (60)
T PF06072_consen 37 AIVFAVVALCVLSGGLGALVAW 58 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHhhc
Confidence 4455567789988888888766
No 135
>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=35.02 E-value=4.1e+02 Score=28.56 Aligned_cols=54 Identities=20% Similarity=0.354 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISL 73 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~ 73 (460)
..+.=+++.=++|+.-+|+.+++..+.++.=..++ +...+....+.++||++..
T Consensus 70 ~~y~rgni~e~lA~~llPlvll~~~~~~~~~~~r~-~~~lAl~~all~lsHll~~ 123 (616)
T PF10131_consen 70 NIYWRGNIPETLAFALLPLVLLFLYRFIKKRKYRY-WILLALSMALLALSHLLST 123 (616)
T ss_pred HHHhcchHHHHHHHHHHHHHHHHHHHHHhcCCchh-HHHHHHHHHHHHHHhHHHH
Confidence 44555777778889999998755443221112332 3333344455566785554
No 136
>cd08763 Cyt_b561_CYB561 Vertebrate cytochrome b(561), CYB561 gene product. Cytochrome b(561), as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=34.07 E-value=2.9e+02 Score=23.37 Aligned_cols=52 Identities=12% Similarity=-0.002 Sum_probs=26.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhccchhH---------HHHHHHHHHHHHHHHHHHHH
Q 012575 51 YRWVLMQFGSFIILCGLTHFISLWTFTVHSKA---------VAVVMTIAKMACAFVSCITA 102 (460)
Q Consensus 51 ~~~~~~~~~~fi~~cg~~hl~~~~~~~~~~~~---------~~~~~~~~k~~ta~~s~~~a 102 (460)
+.+--++.-+-+++++.-.+.++.+++.|..+ .-...|..-++.+++++.+.
T Consensus 75 ~SlHswlGl~t~~L~~lQ~~~G~~~f~~P~~~~~~r~~~~p~H~~~G~~~f~la~~t~~lG 135 (143)
T cd08763 75 YSLHSWCGILTFVLYFLQWLIGFSFFLFPGASFTLRSQYKPLHEFFGRALFLSSVGTSLLG 135 (143)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHHcCCCchHHHHHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444455556666667776666655411 12344555555555554444
No 137
>COG3114 CcmD Heme exporter protein D [Intracellular trafficking and secretion]
Probab=32.73 E-value=1.9e+02 Score=20.73 Aligned_cols=22 Identities=32% Similarity=0.317 Sum_probs=12.7
Q ss_pred cccHHHHHHHHHHHHHHHHHHH
Q 012575 115 VKTRELFLKNRADELDREMGLI 136 (460)
Q Consensus 115 ~~~~~~~l~~~~~~l~~e~~~l 136 (460)
++.+...|++..+++.||.+..
T Consensus 38 v~qrr~iL~~v~r~~aReaR~~ 59 (67)
T COG3114 38 VLQRRAILRGVARQRAREARLR 59 (67)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445566676666666655443
No 138
>COG3301 NrfD Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]
Probab=32.68 E-value=4.1e+02 Score=25.32 Aligned_cols=42 Identities=19% Similarity=0.272 Sum_probs=20.8
Q ss_pred HHHHHHhcCCCc-hHHHHHHHHHHHHHHHHHHHH----HHHhhccch
Q 012575 39 LIYFVQKSAFFP-YRWVLMQFGSFIILCGLTHFI----SLWTFTVHS 80 (460)
Q Consensus 39 l~~~~~~~~~~~-~~~~~~~~~~fi~~cg~~hl~----~~~~~~~~~ 80 (460)
+.+..+|++... +.+.....|...++.|+..+. --|++|.+.
T Consensus 34 la~l~~r~g~~~~~~r~~svlg~la~iigLl~li~dL~rPw~f~~~m 80 (305)
T COG3301 34 LAVLLKRFGKLKALLRTGSVLGFLAVILGLLFLIFDLTRPWTFWKLM 80 (305)
T ss_pred HHHHHHHHhhhhhhHhhhhHHHHHHHHHHHHHHHHHhcChHHHHHHH
Confidence 333344444332 355555555555555555443 337777653
No 139
>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=32.35 E-value=87 Score=30.50 Aligned_cols=23 Identities=30% Similarity=0.397 Sum_probs=15.8
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHh
Q 012575 23 ISDILIALAYFSIPVELIYFVQK 45 (460)
Q Consensus 23 ~~d~~i~~~~~~i~~~l~~~~~~ 45 (460)
++|+++.+.-..+..-++..+++
T Consensus 25 vgdi~~~~~il~ll~~~~~~~~~ 47 (318)
T PF12725_consen 25 VGDILYYLLILFLLYYLIRLIRK 47 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888887766666666666554
No 140
>PF11212 DUF2999: Protein of unknown function (DUF2999); InterPro: IPR021376 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=31.43 E-value=55 Score=23.81 Aligned_cols=50 Identities=20% Similarity=0.467 Sum_probs=33.0
Q ss_pred HhHHHHHHHHHHHHhcCCCCHH-HHHHHHHHHHHHHHHHHHHHHH-HHHhhhhcCC
Q 012575 356 RTLMHAIIALSSLLLETDLTPE-QRVMIETVLKSSNLLTTLVDDV-LDLSRLEDGS 409 (460)
Q Consensus 356 RtPLt~I~g~~~lL~~~~~~~~-~~~~l~~I~~~~~rl~~LI~~L-L~~sr~e~g~ 409 (460)
.|||.++....++ ..+++ .+..+..+-.+-.-+..-|++| ||||+.|+.+
T Consensus 27 ~NPl~AMa~i~qL----Gip~eKLQ~lm~~VMqnP~LikeAv~ELgLDFsKve~Ak 78 (82)
T PF11212_consen 27 QNPLAAMATIQQL----GIPQEKLQQLMAQVMQNPALIKEAVEELGLDFSKVEAAK 78 (82)
T ss_pred hCHHHHHHHHHHc----CCCHHHHHHHHHHHhcChHHHHHHHHHhCCcHHHHHHHH
Confidence 4899887655543 23444 3556666666666677777777 8999988654
No 141
>PF10319 7TM_GPCR_Srj: Serpentine type 7TM GPCR chemoreceptor Srj; InterPro: IPR019423 G-protein-coupled receptors, GPCRs, constitute a vast protein family that encompasses a wide range of functions (including various autocrine, paracrine and endocrine processes). They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups. We use the term clan to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence []. The currently known clan members include the rhodopsin-like GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating pheromone receptors, and the metabotropic glutamate receptor family. There is a specialised database for GPCRs (http://www.gpcr.org/7tm/). The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli []. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' []. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [, , ]. Many of these proteins have homologues in Caenorhabditis briggsae. This entry represents serpentine receptor class j (Srj) from the Str superfamily [, ]. The Srj family is designated as the out-group based on its location in preliminary phylogenetic analyses of the entire superfamily [].
Probab=31.24 E-value=3.3e+02 Score=26.35 Aligned_cols=98 Identities=19% Similarity=0.419 Sum_probs=69.0
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHhcCC-C-chHHHHHHHHHHHHHHHHHHHHHHHhhccchh---------------HH
Q 012575 21 QYISDILIALAYFSIPVELIYFVQKSAF-F-PYRWVLMQFGSFIILCGLTHFISLWTFTVHSK---------------AV 83 (460)
Q Consensus 21 ~~~~d~~i~~~~~~i~~~l~~~~~~~~~-~-~~~~~~~~~~~fi~~cg~~hl~~~~~~~~~~~---------------~~ 83 (460)
|.+.-..-.++|++.|+.+-.....++. + .||+.+..||.|-++|.+.+++--.. ++++ ..
T Consensus 8 ~~~Pk~~~~lsf~~Np~fiyli~~~~~~~~G~Yr~LL~~Fa~fn~~~S~~~~~vp~~--vh~yry~F~~fi~dG~F~~~s 85 (310)
T PF10319_consen 8 HYIPKIFGILSFIVNPIFIYLIFTEKKSQFGNYRYLLLFFAIFNLIYSVVDLLVPIC--VHGYRYAFVVFISDGPFFEKS 85 (310)
T ss_pred HHHHHHHHHHHHHHhhhhheeEEcccccccccHHHHHHHHHHHHHHHHHHHHHhhhe--eeccceEEEEEEcCCcCcCcc
Confidence 5588888889999999754443444442 3 99999999999999999988864421 1110 00
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccHHH
Q 012575 84 AVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTREL 120 (460)
Q Consensus 84 ~~~~~~~k~~ta~~s~~~a~~l~~~~p~~l~~~~~~~ 120 (460)
-.-..+.-.=.+++|+.-|+.....+=+.+.+..+..
T Consensus 86 ~l~~~~ls~RCsfIs~sYaIL~~HFvYRYl~l~~~~~ 122 (310)
T PF10319_consen 86 ELGQHLLSIRCSFISGSYAILHIHFVYRYLVLFNSKF 122 (310)
T ss_pred hHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhCcHH
Confidence 1123344555778888889999999999999877544
No 142
>cd08766 Cyt_b561_ACYB-1_like Plant cytochrome b(561), including the carbon monoxide oxygenase ACYB-1. Cytochrome b(561), as found in plants, similar to the Arabidopsis thaliana ACYB-1 gene product, a cytochrome b561 isoform localized to the tonoplast. This protein might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), and might be capable of trans-membrane electron transport from intracellular ascorbate to extracellular ferric chelates. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=31.00 E-value=3.3e+02 Score=23.07 Aligned_cols=25 Identities=24% Similarity=0.126 Sum_probs=12.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccch
Q 012575 56 MQFGSFIILCGLTHFISLWTFTVHS 80 (460)
Q Consensus 56 ~~~~~fi~~cg~~hl~~~~~~~~~~ 80 (460)
|+.-..++++++-.+.++.++|.|.
T Consensus 80 wlGl~t~~L~~lQ~~~G~~~f~~P~ 104 (144)
T cd08766 80 WLGIGTISLFGLQWLFGFVTFWFPG 104 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 3333444555555555555555553
No 143
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=30.98 E-value=4.7e+02 Score=24.79 Aligned_cols=29 Identities=14% Similarity=0.093 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 012575 83 VAVVMTIAKMACAFVSCITALMLVHIIPD 111 (460)
Q Consensus 83 ~~~~~~~~k~~ta~~s~~~a~~l~~~~p~ 111 (460)
..|...+.-++.+++....++..+++-|.
T Consensus 70 ~~~~~~~l~~~Gglwy~~lsl~~~~l~p~ 98 (284)
T PF12805_consen 70 EALEHALLFLAGGLWYLLLSLLWWPLRPY 98 (284)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Confidence 45666677777778888888888887777
No 144
>PF11382 DUF3186: Protein of unknown function (DUF3186); InterPro: IPR021522 This bacterial family of proteins has no known function.
Probab=30.37 E-value=2.5e+02 Score=27.21 Aligned_cols=47 Identities=15% Similarity=0.248 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012575 309 HAAILEDSMRARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEM 355 (460)
Q Consensus 309 ~a~l~~~~~~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHEL 355 (460)
+..+........+.++++++++++..+++++.....++|...++-++
T Consensus 30 ~~~l~~~l~~~~~~lr~e~~~l~~~~~~~~~~~~~~d~f~~~~~~~l 76 (308)
T PF11382_consen 30 QPNLIDSLEDQFDSLREENDELRAELDALQAQLNAADQFIAAVAPRL 76 (308)
T ss_pred chhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455555566677888888888888888888888999998887654
No 145
>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=30.15 E-value=4.4e+02 Score=24.24 Aligned_cols=96 Identities=20% Similarity=0.250 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHHHHhc-CCCchHHHHHHHHHHHHHHHHHHHHHHHhhc---------cchhHHHHH
Q 012575 17 LVRYQYISDILIALAYFSIPVELIYFVQKS-AFFPYRWVLMQFGSFIILCGLTHFISLWTFT---------VHSKAVAVV 86 (460)
Q Consensus 17 ~~~~~~~~d~~i~~~~~~i~~~l~~~~~~~-~~~~~~~~~~~~~~fi~~cg~~hl~~~~~~~---------~~~~~~~~~ 86 (460)
+..-++.|..+..-+.|.|.+.|++++-++ ..+-+.....+++=|+. | ..|+++.+.=. -+..++. -
T Consensus 55 ~~ia~~~ss~~~~~~l~~~slsll~gvI~~r~~~l~pfl~~Qi~D~~~-c-ll~~~g~yie~pa~l~~~~~~~~~~li-P 131 (258)
T TIGR00799 55 LRIADLYSSFLLINALFIISVSLLMGVVKNREKYLYPFLSLQIMDFLL-C-LLTLLGSYIELPAYLKLARPRPGPSKI-P 131 (258)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceeeHHHHHHHHHHHH-H-HHHHhhhhhcchhhhhhccccCccccc-h
Confidence 456688888666668899999999986554 44434444666665443 2 13333332210 0000111 1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhhcc
Q 012575 87 MTIAKMACAFVSCITALMLVHIIPDLLSV 115 (460)
Q Consensus 87 ~~~~k~~ta~~s~~~a~~l~~~~p~~l~~ 115 (460)
..-..+.=..+++.||+...--+|..+..
T Consensus 132 FfclQifDF~Ls~Lta~ss~~ylp~y~~~ 160 (258)
T TIGR00799 132 LMTLQLLDFCLSILTLCSSYMEVPTYLNF 160 (258)
T ss_pred HHHHHHHHHHHHHHHHhhhheechHHHHH
Confidence 11233444566777777666666654333
No 146
>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=29.95 E-value=3.8e+02 Score=23.50 Aligned_cols=15 Identities=27% Similarity=0.629 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHH
Q 012575 55 LMQFGSFIILCGLTH 69 (460)
Q Consensus 55 ~~~~~~fi~~cg~~h 69 (460)
....|..++++|.+-
T Consensus 11 ~iilgilli~~gI~~ 25 (191)
T PF04156_consen 11 LIILGILLIASGIAA 25 (191)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345555556666554
No 147
>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=29.92 E-value=3.9e+02 Score=24.49 Aligned_cols=29 Identities=17% Similarity=0.481 Sum_probs=19.0
Q ss_pred HhhHHHHHHHHHHhcCCCchHHHHHHHHHHH
Q 012575 32 YFSIPVELIYFVQKSAFFPYRWVLMQFGSFI 62 (460)
Q Consensus 32 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi 62 (460)
++.+|+.+.++.+||+. .+|.....|+++
T Consensus 2 ~~~~pi~l~~~~rk~~~--~~~~~f~~Ga~~ 30 (223)
T PF10086_consen 2 SILLPILLFIYFRKRKK--ISWKPFILGALV 30 (223)
T ss_pred eehHHHHHHHHHHHhcc--chHHHHHHHHHH
Confidence 35789988888888774 455554444433
No 148
>KOG3787 consensus Glutamate/aspartate and neutral amino acid transporters [Amino acid transport and metabolism]
Probab=29.77 E-value=36 Score=34.37 Aligned_cols=37 Identities=24% Similarity=0.349 Sum_probs=24.1
Q ss_pred HhhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHH
Q 012575 32 YFSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTH 69 (460)
Q Consensus 32 ~~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~h 69 (460)
+--|-+.|+||+--||. ||+++.+++-+++-+.|+..
T Consensus 278 H~~i~lPliYF~~TrkN-P~~f~~Gm~Qal~TA~gTsS 314 (507)
T KOG3787|consen 278 HGFIVLPLIYFVVTRKN-PFRFIAGLLQALATAFGTAS 314 (507)
T ss_pred HHHHHhhheeEEEEccC-hHHHHHHHHHHHHHHHhccc
Confidence 33444557787655554 88888888887777776443
No 149
>PF06638 Strabismus: Strabismus protein; InterPro: IPR009539 This family consists of several strabismus (STB) or Van Gogh-like (VANGL) proteins 1 and 2. The exact function of this family is unknown. It is thought, however that STB1 gene and STB2 may be potent tumour suppressor gene candidates [].; GO: 0007275 multicellular organismal development, 0016021 integral to membrane
Probab=28.68 E-value=2.3e+02 Score=29.25 Aligned_cols=29 Identities=21% Similarity=0.459 Sum_probs=13.9
Q ss_pred cCCCchHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 012575 46 SAFFPYRWVLMQFGSFIILCGLTHFISLWTFT 77 (460)
Q Consensus 46 ~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~~~ 77 (460)
+.++|.-.+|- ++++++.+..+++.|.|+
T Consensus 157 ~a~lPRif~fR---a~ll~Lvfl~~~syWLFY 185 (505)
T PF06638_consen 157 RADLPRIFVFR---ALLLVLVFLFLFSYWLFY 185 (505)
T ss_pred cCCCchhHHHH---HHHHHHHHHHHHHHHHHh
Confidence 33667655553 222223333366666653
No 150
>PF06177 QueT: QueT transporter; InterPro: IPR010387 This entry is represented by Bacteriophage Dp-1, QueT. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family includes the queT gene encoding a hypothetical integral membrane protein with 5 predicted transmembrane regions. The queT genes in Firmicutes are often preceded by the PreQ1 (7-aminomethyl-7-deazaguanine) riboswitches of two distinct classes [, ], suggesting involvement of the QueT transporters in uptake of a queuosine biosynthetic intermediate.
Probab=28.60 E-value=3.8e+02 Score=22.97 Aligned_cols=12 Identities=33% Similarity=0.451 Sum_probs=5.8
Q ss_pred HHHHHHHHHHhc
Q 012575 35 IPVELIYFVQKS 46 (460)
Q Consensus 35 i~~~l~~~~~~~ 46 (460)
+...+.|..+|+
T Consensus 76 ia~~l~~~~~~~ 87 (152)
T PF06177_consen 76 IAAYLTYKLKKK 87 (152)
T ss_pred HHHHHHHHHHHH
Confidence 333455655543
No 151
>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=28.57 E-value=3.8e+02 Score=26.50 Aligned_cols=53 Identities=19% Similarity=0.298 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHh
Q 012575 318 RARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLL 370 (460)
Q Consensus 318 ~~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~ 370 (460)
..|+++.++.+++++.++.+.+.++.|.+|+.++--.|++-+.+..-.-+.+.
T Consensus 101 ~~Rk~L~~~~~el~~~k~~l~~~~~~k~~~L~~l~~~L~~l~~a~~plq~~l~ 153 (355)
T PF09766_consen 101 EQRKRLEEQLKELEQRKKKLQQENKKKKKFLDSLPPQLKSLKKAAKPLQEYLG 153 (355)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHhC
Confidence 45667888888999999999999999999999999999988877777766664
No 152
>PRK14872 rod shape-determining protein MreC; Provisional
Probab=28.21 E-value=4e+02 Score=26.16 Aligned_cols=27 Identities=22% Similarity=0.356 Sum_probs=15.2
Q ss_pred hhhhccccHHHHHHHHHHHHHHHHHHH
Q 012575 110 PDLLSVKTRELFLKNRADELDREMGLI 136 (460)
Q Consensus 110 p~~l~~~~~~~~l~~~~~~l~~e~~~l 136 (460)
-++..+...-+.|++.+.+|+.+....
T Consensus 57 ~~y~~L~~EN~~Lk~Ena~L~~~l~~~ 83 (337)
T PRK14872 57 SHALVLETENFLLKERIALLEERLKSY 83 (337)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555555555666666666555543
No 153
>KOG3088 consensus Secretory carrier membrane protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=27.76 E-value=76 Score=30.03 Aligned_cols=82 Identities=11% Similarity=0.140 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHh--HHHHHHHHHHHHhc---CCCCHHHHHHHHHHH-----HH
Q 012575 319 ARNQLMEQNVALDSARREAEKAIHARNDFRAVMNHEMRT--LMHAIIALSSLLLE---TDLTPEQRVMIETVL-----KS 388 (460)
Q Consensus 319 ~~~~l~~~~~~L~~~~~~l~~~~~~k~~f~~~iSHELRt--PLt~I~g~~~lL~~---~~~~~~~~~~l~~I~-----~~ 388 (460)
.+++|.++.++|++..+|+++.+++... .+++-+-+| ||-+..-+--..-. .+.+.+.++.+..+. -.
T Consensus 65 kq~eL~~rqeEL~Rke~ELdRREr~~a~--~g~~~~~nNWPPLP~~~pv~PcfyqD~s~EIPv~~Qk~vk~~yylwm~~~ 142 (313)
T KOG3088|consen 65 KQAELLKKQEELRRKEQELDRRERALAR--AGIVIRENNWPPLPSFIPVFPCFYQDISNEIPVEFQKLVKRAYYLWMGLV 142 (313)
T ss_pred HHHHHHHHHHHHHHHHHHHhHHHHHHhh--ccCcccccCCCCCCCCCCcccccccccccccCHHHHHHHHHHHHHHHHHH
Confidence 3344444555555555555554444433 355555555 44433322222221 134445444443333 33
Q ss_pred HHHHHHHHHHHHHH
Q 012575 389 SNLLTTLVDDVLDL 402 (460)
Q Consensus 389 ~~rl~~LI~~LL~~ 402 (460)
..-+.++|--+--+
T Consensus 143 ~tL~~Niia~la~~ 156 (313)
T KOG3088|consen 143 LTLLWNIIACLAWW 156 (313)
T ss_pred HHHHHHHHHHHHHH
Confidence 44445555555444
No 154
>PRK13922 rod shape-determining protein MreC; Provisional
Probab=26.72 E-value=5.4e+02 Score=24.19 Aligned_cols=17 Identities=24% Similarity=0.153 Sum_probs=9.1
Q ss_pred ccCCceeEEEEEeeCCC
Q 012575 268 LPAKSYAVMVLMLPTDG 284 (460)
Q Consensus 268 l~~g~~~~~v~~~~~~~ 284 (460)
.|+|-.++.|..+..++
T Consensus 230 fP~Gi~VG~V~~v~~~~ 246 (276)
T PRK13922 230 FPAGLPVGKVTSVERDD 246 (276)
T ss_pred CCCCCEEEEEEEEEeCC
Confidence 44555556666554443
No 155
>KOG3689 consensus Cyclic nucleotide phosphodiesterase [Signal transduction mechanisms]
Probab=25.30 E-value=7.4e+02 Score=27.07 Aligned_cols=155 Identities=8% Similarity=0.074 Sum_probs=78.9
Q ss_pred cccHHHHHHHHHHHhhhhcCCceeEEeccCCCCCceEEE-------EeecCCccCC----cccccCChhHHHHhhccCce
Q 012575 156 TLDRHTILKTTLVELGRTLGLEECALWMPSRTGLNLELS-------YTLNNQIQIG----SSVPINLPIVTDVFNSAQAM 224 (460)
Q Consensus 156 sld~~~il~~~~~~l~~~l~~~~~~i~~~~~~~~~~~~~-------~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~ 224 (460)
-.+...++..+.-.+.....+.+|.+.+++.+....... ...++..+.. .....+......+-.++...
T Consensus 180 ~~~~~~~~~~~~~~~~~~~~~~~~si~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ld~~l~g~va~t~~~~ 259 (707)
T KOG3689|consen 180 QTDRESIFPKILYTARSLLQCTRCSIQLLDMSTLEEFSWVLDVLETEQTKPSTSDMAEIEFKKLLDYGLRGYVASTGEGL 259 (707)
T ss_pred hcchhcccchhhhhhhhhhhhcccceeeeccccchhhhhhhHHHhhhhcCCCCchhhhHHHHhhhhhhhhheeecccCcC
Confidence 456666666666666667778999998877764431100 0000000000 00001111112222333333
Q ss_pred eecCCCchhhhhhcccCCCCCcceEEEeeccccCCccccCCCcccCCceeEEEEEeeCCCCCcccccHHHHHHHHHHHHH
Q 012575 225 RLPYNCPLARIRLLVGRYVPPDIVAVRVPLLHLSNFQINDWPELPAKSYAVMVLMLPTDGGRKWRDHELELIDVVADQVA 304 (460)
Q Consensus 225 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~pl~~~~~~~~~~~~~l~~g~~~~~v~~~~~~~~~~~~~~e~~ll~~ia~~~a 304 (460)
.+++...+..+.........+-...+++|+... .|..++....++...+..|+..+..+.+..+.-++
T Consensus 260 ni~~~~~~~~f~~q~d~~~~~~~~il~~pi~~~------------~~~~igv~~~~nk~~g~~f~~~de~~~~~~~~~~g 327 (707)
T KOG3689|consen 260 NISNAIADPRFDKQVDEDGTGIRPILCIPIKNK------------KGEVIGVQQLVNKEDGNPFSRNDEDLFEAFTIFCG 327 (707)
T ss_pred CCCCccccccccccccccccccceeEEEecccc------------cCceecceeeeccccCCccccchHHHHHHHHHHHh
Confidence 333333322222221111111222455554332 12333334444555566799999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012575 305 VALSHAAILEDSMRARNQ 322 (460)
Q Consensus 305 ~ai~~a~l~~~~~~~~~~ 322 (460)
..+.++..|......+.+
T Consensus 328 l~i~~~~~y~~~~~s~~r 345 (707)
T KOG3689|consen 328 LSIHNTHMYSKINKSEPR 345 (707)
T ss_pred hhhhhhhhHHHHhhhccc
Confidence 999999998887665543
No 156
>PF02652 Lactate_perm: L-lactate permease; InterPro: IPR003804 L-lactate permease is an integral membrane protein probably involved in L-lactate transport.; GO: 0015129 lactate transmembrane transporter activity, 0015727 lactate transport
Probab=25.03 E-value=4.6e+02 Score=27.55 Aligned_cols=38 Identities=11% Similarity=0.217 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhHHHHHHHHHHhcCCCchHHHHHHHHHH
Q 012575 24 SDILIALAYFSIPVELIYFVQKSAFFPYRWVLMQFGSF 61 (460)
Q Consensus 24 ~d~~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~f 61 (460)
+-....+..+.+|+.+++++-++|.++-.|.+.+++++
T Consensus 180 ~a~~~~~~~~~ip~~~v~~~~g~k~~r~~~p~~L~~g~ 217 (522)
T PF02652_consen 180 VALQLPVLSLLIPFLMVWLVGGWKGVREVWPFALVAGL 217 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHhccchhHHHHHHHHHHHHH
Confidence 33444667888999999999888876666655555444
No 157
>PF13060 DUF3921: Protein of unknown function (DUF3921)
Probab=24.58 E-value=1.3e+02 Score=20.09 Aligned_cols=18 Identities=22% Similarity=0.540 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012575 337 AEKAIHARNDFRAVMNHE 354 (460)
Q Consensus 337 l~~~~~~k~~f~~~iSHE 354 (460)
+.+..++.+++++.+|||
T Consensus 31 ~d~i~kaqeeylsals~e 48 (58)
T PF13060_consen 31 ADEIQKAQEEYLSALSHE 48 (58)
T ss_pred HHHHHHHHHHHHHHhhHH
Confidence 345557888999999998
No 158
>PF07787 DUF1625: Protein of unknown function (DUF1625); InterPro: IPR012430 Sequences making up this family are derived from hypothetical proteins expressed by both prokaryotic and eukaryotic species. The region in question is approximately 250 residues long.
Probab=24.37 E-value=1.7e+02 Score=27.19 Aligned_cols=26 Identities=19% Similarity=0.439 Sum_probs=15.4
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHh
Q 012575 50 PYRWVLMQFGSFIILCGLTHFISLWT 75 (460)
Q Consensus 50 ~~~~~~~~~~~fi~~cg~~hl~~~~~ 75 (460)
-..|++-.+|.+.+..|+.-++..+.
T Consensus 181 ~~tW~lR~~G~llmf~G~~~~~~~l~ 206 (248)
T PF07787_consen 181 TLTWILRFIGWLLMFIGFFLLFSPLY 206 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566666666666666666666543
No 159
>PF04279 IspA: Intracellular septation protein A ; InterPro: IPR006008 Intracellular septation protein A is a family of proteins which are essential for both normal cell division and bacterial virulence and are believed to play a role in the septation process [].; GO: 0016021 integral to membrane
Probab=24.02 E-value=4.9e+02 Score=22.80 Aligned_cols=51 Identities=14% Similarity=0.168 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHHHHhhHHHHH--HH-HHHhcCCCchHHHHHHHHHHHHHHH-HHHHHH
Q 012575 19 RYQYISDILIALAYFSIPVEL--IY-FVQKSAFFPYRWVLMQFGSFIILCG-LTHFIS 72 (460)
Q Consensus 19 ~~~~~~d~~i~~~~~~i~~~l--~~-~~~~~~~~~~~~~~~~~~~fi~~cg-~~hl~~ 72 (460)
.....+|...|.+-+.+-..+ +| ++++|+ ....-+.-+++++++| .|-++.
T Consensus 15 v~y~~~~i~~At~~~i~~~~~~v~~~~~~~r~---v~~~~~is~~lv~vfG~lTl~~~ 69 (176)
T PF04279_consen 15 VVYKTYGIFVATAVLIVATLAQVAYSWIRRRK---VPKMQWISLVLVLVFGGLTLLFH 69 (176)
T ss_pred HHHHHhCHHHHHHHHHHHHHHHHHHHHHHhCc---CchhHHHHHHHHHHHHHHHHHhC
Confidence 445567766666443333222 22 233333 4444444444444444 444443
No 160
>PF13651 EcoRI_methylase: Adenine-specific methyltransferase EcoRI
Probab=24.01 E-value=26 Score=33.78 Aligned_cols=11 Identities=27% Similarity=0.631 Sum_probs=8.9
Q ss_pred CCCCCCCCCCc
Q 012575 3 SCDCIDTQWPP 13 (460)
Q Consensus 3 ~~~~~~~~~~~ 13 (460)
.||||||-|+-
T Consensus 38 ~cnCdDp~~Sn 48 (336)
T PF13651_consen 38 LCNCDDPRESN 48 (336)
T ss_pred EEeCCCcchhH
Confidence 59999987754
No 161
>PF01988 VIT1: VIT family; InterPro: IPR008217 Proteins containing this entry have no known function and are predicted to be integral membrane proteins. They include the Ccc1 protein from Saccharomyces cerevisiae (Baker's yeast) (P47818 from SWISSPROT) that may have a role in regulating calcium levels [].
Probab=23.61 E-value=5.5e+02 Score=23.16 Aligned_cols=32 Identities=22% Similarity=0.314 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhccccHHHHH
Q 012575 83 VAVVMTIAKMACAFVSCITALMLVHIIPDLLSVKTRELFL 122 (460)
Q Consensus 83 ~~~~~~~~k~~ta~~s~~~a~~l~~~~p~~l~~~~~~~~l 122 (460)
...+.|+.-.+...+|.... .+++.++..+..
T Consensus 32 ~vl~~gla~~iAga~SMa~G--------~yls~~se~~~~ 63 (213)
T PF01988_consen 32 VVLLAGLAGLIAGAISMAVG--------EYLSVKSERDLY 63 (213)
T ss_pred HHHHHHHHHHHHHHHHHHHH--------HHHHHHhhhhHH
Confidence 35556665555555554443 445555544433
No 162
>PF09980 DUF2214: Predicted membrane protein (DUF2214); InterPro: IPR018706 This family has no known function.
Probab=23.50 E-value=4.7e+02 Score=22.36 Aligned_cols=87 Identities=15% Similarity=0.233 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHHHhhHHHHHHHHHHhcCCC---------chHHHHHHHHHHHHHHHHHHHHHH---HhhccchhHH
Q 012575 16 LLVRYQYISDILIALAYFSIPVELIYFVQKSAFF---------PYRWVLMQFGSFIILCGLTHFISL---WTFTVHSKAV 83 (460)
Q Consensus 16 ~~~~~~~~~d~~i~~~~~~i~~~l~~~~~~~~~~---------~~~~~~~~~~~fi~~cg~~hl~~~---~~~~~~~~~~ 83 (460)
++..+|++| |...+.++-.+-..+ |+++ ..-.++++-+..+++.|..-.+.. +-++.+ .|+
T Consensus 6 llAylH~la---i~~l~~~L~~E~~ll---r~~~~~~~~~~L~~~D~~yGlaal~vl~tGilRv~~~~KG~~fY~~-nP~ 78 (150)
T PF09980_consen 6 LLAYLHYLA---IFLLFAALTAERLLL---RPDMSAAELKRLARADIVYGLAALVVLATGILRVFWFGKGWAFYLH-NPL 78 (150)
T ss_pred HHHHHHHHH---HHHHHHHHHHHHHHh---cCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHHHHh-ChH
Confidence 456777765 344444555555444 4443 345567778888888888777744 333333 355
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q 012575 84 AVVMTIAKMACAFVSCITALMLVHII 109 (460)
Q Consensus 84 ~~~~~~~k~~ta~~s~~~a~~l~~~~ 109 (460)
+|.=-....+.++.|+.-.+.++++-
T Consensus 79 F~~K~~lfvligllSi~PT~~~irWr 104 (150)
T PF09980_consen 79 FWAKMGLFVLIGLLSIYPTLTFIRWR 104 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 66655555666777777766666543
No 163
>PF06105 Aph-1: Aph-1 protein; InterPro: IPR009294 This family consists of several eukaryotic Aph-1 proteins. Gamma-secretase catalyses the intramembrane proteolysis of Notch, beta-amyloid precursor protein, and other substrates as part of a new signalling paradigm and as a key step in the pathogenesis of Alzheimer's disease. It is thought that the presenilin heterodimer comprises the catalytic site and that a highly glycosylated form of nicastrin associates with it. Aph-1 and Pen-2, two membrane proteins genetically linked to gamma-secretase, associate directly with presenilin and nicastrin in the active protease complex. Co-expression of all four proteins leads to marked increases in presenilin heterodimers, full glycosylation of nicastrin, and enhanced gamma-secretase activity [].; GO: 0016485 protein processing, 0043085 positive regulation of catalytic activity, 0016021 integral to membrane
Probab=23.19 E-value=2.2e+02 Score=26.45 Aligned_cols=48 Identities=21% Similarity=0.364 Sum_probs=35.8
Q ss_pred hhHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHhhccchhH
Q 012575 33 FSIPVELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTFTVHSKA 82 (460)
Q Consensus 33 ~~i~~~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~~~~~~~~ 82 (460)
|+=|+.+..+.-.++ |++-++.+.|+|.=+..+...--+|..++|-..
T Consensus 13 fgP~lalf~~tIa~~--p~liIi~i~~aFfWLvSLLlss~iW~i~~pl~~ 60 (238)
T PF06105_consen 13 FGPALALFVFTIARD--PQLIIILIAGAFFWLVSLLLSSLIWFIVVPLRD 60 (238)
T ss_pred HCHHHHhhheeeeCC--CchhHHHHHHHHHHHHHHHHHHHHHHhhhcccc
Confidence 444555555544444 999999999999999988888888988877543
No 164
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=23.09 E-value=4.2e+02 Score=22.02 Aligned_cols=12 Identities=25% Similarity=0.434 Sum_probs=4.4
Q ss_pred HHhhHHHHHHHH
Q 012575 31 AYFSIPVELIYF 42 (460)
Q Consensus 31 ~~~~i~~~l~~~ 42 (460)
+.+.+.+.++.|
T Consensus 20 ~~~~~~~~~~~~ 31 (176)
T PF13567_consen 20 ALLLLLLLLLLF 31 (176)
T ss_pred HHHHHHHHHHHH
Confidence 333333333333
No 165
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=23.08 E-value=4.3e+02 Score=24.22 Aligned_cols=35 Identities=14% Similarity=0.127 Sum_probs=20.7
Q ss_pred HHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012575 40 IYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWTF 76 (460)
Q Consensus 40 ~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~~ 76 (460)
.|=+.++.|= +-.++++++|+...+...++++++.
T Consensus 16 ~y~~trk~dp--~l~~~ml~a~l~~~~v~v~ig~l~~ 50 (224)
T PF13829_consen 16 AYKMTRKEDP--KLPWLMLGAFLGPIAVFVLIGLLFG 50 (224)
T ss_pred HHHHHHHHCc--chHHHHHHHHHHHHHHHHHHHHHHc
Confidence 4556677762 2333556667776666666666653
No 166
>COG2119 Predicted membrane protein [Function unknown]
Probab=22.98 E-value=1.6e+02 Score=26.00 Aligned_cols=43 Identities=19% Similarity=0.201 Sum_probs=21.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHH-hhc----cchhHHHHHHHHHHHHH
Q 012575 51 YRWVLMQFGSFIILCGLTHFISLW-TFT----VHSKAVAVVMTIAKMAC 94 (460)
Q Consensus 51 ~~~~~~~~~~fi~~cg~~hl~~~~-~~~----~~~~~~~~~~~~~k~~t 94 (460)
|+|+.+..|.++.+.. .|.++.+ ..| .|..+..|+++..-+++
T Consensus 31 ~~~~~v~~g~~~a~~~-m~~la~~vG~~~~~~~~~~~~~~~~~~~Flaf 78 (190)
T COG2119 31 YRRWPVFAGIAIALFA-MHALAVLVGHAAASLLPERPLAWASGVLFLAF 78 (190)
T ss_pred cCCchhHHHHHHHHHH-HHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence 4455555666555553 4444442 223 24445666666544333
No 167
>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=22.44 E-value=3.2e+02 Score=22.95 Aligned_cols=21 Identities=38% Similarity=0.735 Sum_probs=15.5
Q ss_pred cCCCchHHHHHHHHHHHHHHH
Q 012575 46 SAFFPYRWVLMQFGSFIILCG 66 (460)
Q Consensus 46 ~~~~~~~~~~~~~~~fi~~cg 66 (460)
.-+.++|-++++|+++++++.
T Consensus 106 ~~~~~~Rvllgl~~al~vlvA 126 (142)
T PF11712_consen 106 GWSFPYRVLLGLFGALLVLVA 126 (142)
T ss_pred ccchHHHHHHHHHHHHHHHHH
Confidence 346688888888888877764
No 168
>PF13321 DUF4084: Domain of unknown function (DUF4084)
Probab=22.22 E-value=2.4e+02 Score=25.96 Aligned_cols=61 Identities=25% Similarity=0.370 Sum_probs=41.1
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHH---HhcCCCchHHHHHHHH-HHHHHHHHHHHHHHHhhccchh
Q 012575 21 QYISDILIALAYFSIPVELIYFV---QKSAFFPYRWVLMQFG-SFIILCGLTHFISLWTFTVHSK 81 (460)
Q Consensus 21 ~~~~d~~i~~~~~~i~~~l~~~~---~~~~~~~~~~~~~~~~-~fi~~cg~~hl~~~~~~~~~~~ 81 (460)
+..+|..|-++||.--..++|-| ++|-.-.+.++-+..| ..+.+.|..|++.....-.++.
T Consensus 158 ~~~~~~~i~i~Y~I~~~L~i~~VISLY~~~~~s~~~~aLII~~~I~~V~~~~HL~~~~~~~~~S~ 222 (304)
T PF13321_consen 158 MLTSDTWILIGYFIAQSLVIYAVISLYRRESYSSSRIALIIGFTIILVYGYIHLFQLNSGTKSSG 222 (304)
T ss_pred ccccceeeeehhHHHHHHHHHHHHHHHhhhhhhhhhhHHHHhhHHHHHHHHHHHHHHhcCCccch
Confidence 34688888899998777666654 4454445666664444 4566789999999866544443
No 169
>PRK05687 fliH flagellar assembly protein H; Validated
Probab=22.21 E-value=6.3e+02 Score=23.33 Aligned_cols=39 Identities=13% Similarity=0.336 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHHHHHhhhhcCCcccccccccHHHHHHHHH
Q 012575 388 SSNLLTTLVDDVLDLSRLEDGSLELDNGPFNLQIVLREVI 427 (460)
Q Consensus 388 ~~~rl~~LI~~LL~~sr~e~g~~~l~~~~~~L~~li~~v~ 427 (460)
+.+.+..+|.+.|.--....+...+...|-|+.- |++.+
T Consensus 156 ~~~~il~~v~~al~~lp~~~~~v~i~v~P~D~~~-v~~~~ 194 (246)
T PRK05687 156 DPSAILAAIRELLQALPMFSGKPQLRVNPDDLEL-VEQLL 194 (246)
T ss_pred CHHHHHHHHHHHHHhccccCCCceEEECHHHHHH-HHHHH
Confidence 4556777888877765444567777777777644 44443
No 170
>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=22.15 E-value=2.9e+02 Score=19.37 Aligned_cols=51 Identities=18% Similarity=0.267 Sum_probs=32.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 50 PYRWVLMQFGSFIILCGLTHFISLWTFTVHSKAVAVVMTIAKMACAFVSCITALML 105 (460)
Q Consensus 50 ~~~~~~~~~~~fi~~cg~~hl~~~~~~~~~~~~~~~~~~~~k~~ta~~s~~~a~~l 105 (460)
....+...+|...++.|..++...+.-..+.. .....+.++++++..++.+
T Consensus 20 ~~~~~~~i~g~~~i~~Gi~~l~~~~~~~~~~~-----~~~~~l~~gi~~i~~Gi~~ 70 (72)
T PF03729_consen 20 SLAALAIILGIWLIISGIFQLISAFRRRKGSK-----GWWWSLLSGILSIVLGIIL 70 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhccccch-----hhHHHHHHHHHHHHHHHHH
Confidence 45566788999999999999998887322211 1233455566666655443
No 171
>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=21.98 E-value=30 Score=32.54 Aligned_cols=45 Identities=22% Similarity=0.344 Sum_probs=0.0
Q ss_pred HHHHHHH-HHHH-------HHHHHHhhHHHHHHHHHHhcCCC-chHHHHHHHHH
Q 012575 16 LLVRYQY-ISDI-------LIALAYFSIPVELIYFVQKSAFF-PYRWVLMQFGS 60 (460)
Q Consensus 16 ~~~~~~~-~~d~-------~i~~~~~~i~~~l~~~~~~~~~~-~~~~~~~~~~~ 60 (460)
+|+|+-+ .||. +-++|.+-|-+.++.|+.||+-+ |..-.+++|.+
T Consensus 36 il~w~~iimsd~t~~a~~vl~sfAvvliiIIiIImlF~RrLLCPLGlLCiilim 89 (381)
T PF05297_consen 36 ILVWFFIIMSDLTQGALTVLYSFAVVLIIIIIIIMLFKRRLLCPLGLLCIILIM 89 (381)
T ss_dssp ------------------------------------------------------
T ss_pred HHHHHHHHHhccccchHHHHHHHHHHHHHHHHHHHHHHHhhcCcchHHHHHHHH
Confidence 3456544 3553 44445555666666777777765 77766655544
No 172
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=21.87 E-value=7.8e+02 Score=26.17 Aligned_cols=69 Identities=20% Similarity=0.165 Sum_probs=35.0
Q ss_pred HHHHhhhhhhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHhhhh
Q 012575 103 LMLVHIIPDLLSVKTRELFLKNRADELDREMGLILTQEETGRHVRMLTHEIRSTLDRHTILKTTLVELGRT 173 (460)
Q Consensus 103 ~~l~~~~p~~l~~~~~~~~l~~~~~~l~~e~~~l~~~~e~~~~l~~lt~~I~~sld~~~il~~~~~~l~~~ 173 (460)
+.+..++-+.+....+...+++..++|++.++++- .+..+.-..+..+|..-.+.+..++.+-+++.+.
T Consensus 310 ~l~~~~~~Rr~~~~~r~~~~~~a~~eLE~rV~eRT--adL~~~n~~l~~EIaer~~ae~~LR~~QdeLvQA 378 (603)
T COG4191 310 LLLALWLRRRRRARLRLAELQEARAELERRVEERT--ADLTRANARLQAEIAEREQAEAALRRAQDELVQA 378 (603)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444555555555555556666666554421 1111222334455555566666666666666553
No 173
>PF10669 Phage_Gp23: Protein gp23 (Bacteriophage A118); InterPro: IPR018926 This entry is represented by the major tail subunit protein, Gp23 of Listeria phage A118 and prophage found in Bacilli. The function is currently unknown.
Probab=21.75 E-value=3.9e+02 Score=20.76 Aligned_cols=84 Identities=21% Similarity=0.316 Sum_probs=49.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhHhHHHHHHHHHHHHhc-CCCCHHHHH
Q 012575 303 VAVALSHAAILEDSMRARNQLMEQNVALDSARR-EAEKAIHARNDFRAVMNHEMRTLMHAIIALSSLLLE-TDLTPEQRV 380 (460)
Q Consensus 303 ~a~ai~~a~l~~~~~~~~~~l~~~~~~L~~~~~-~l~~~~~~k~~f~~~iSHELRtPLt~I~g~~~lL~~-~~~~~~~~~ 380 (460)
+...|-.+++....+..+.+.++.....++.++ +-.+..+.|+.|..+|...=| +|-+ +++--.+++
T Consensus 28 iILLIi~~~IW~~~r~~r~~MKEER~K~E~~~q~r~rES~~Er~K~~~s~~~~q~-----------Lm~rQN~mm~~qqq 96 (121)
T PF10669_consen 28 IILLIITKSIWHDSRQVRIRMKEERSKKEEKRQKRNRESKRERQKFIWSMNKQQS-----------LMNRQNNMMKQQQQ 96 (121)
T ss_pred HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHhHHhhhhHHHH-----------HHHHHhHHHHHHHH
Confidence 344556677777777777777665544444333 334566788888887754322 1221 223334556
Q ss_pred HHHHHHHHHHHHHHHHH
Q 012575 381 MIETVLKSSNLLTTLVD 397 (460)
Q Consensus 381 ~l~~I~~~~~rl~~LI~ 397 (460)
.++...++...+.+-++
T Consensus 97 sidslsksvgklahkvd 113 (121)
T PF10669_consen 97 SIDSLSKSVGKLAHKVD 113 (121)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 77777778777776654
No 174
>PF09190 DALR_2: DALR domain; InterPro: IPR015273 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This DALR domain is found in cysteinyl-tRNA-synthetases []. ; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1LI5_B 1LI7_B 1U0B_B 3TQO_A.
Probab=21.53 E-value=1.2e+02 Score=21.35 Aligned_cols=26 Identities=19% Similarity=0.296 Sum_probs=17.1
Q ss_pred HHHHHHHHHhHhHH--HHHHHHHHHHhc
Q 012575 346 DFRAVMNHEMRTLM--HAIIALSSLLLE 371 (460)
Q Consensus 346 ~f~~~iSHELRtPL--t~I~g~~~lL~~ 371 (460)
+|...|..|++||. +.|..+...+-+
T Consensus 1 ~F~~AmdDDfNT~~Ala~lf~l~~~~N~ 28 (63)
T PF09190_consen 1 EFIEAMDDDFNTPEALAALFELVKEINR 28 (63)
T ss_dssp HHHHHHCBTS-HHHHHHHHHHHHHHHHH
T ss_pred ChHHHHhHhcCcHHHHHHHHHHHHHHHH
Confidence 48889999999995 445555554433
No 175
>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=21.49 E-value=2.9e+02 Score=19.23 Aligned_cols=56 Identities=14% Similarity=0.081 Sum_probs=35.4
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHHHHHHHHHHHH
Q 012575 344 RNDFRAVMNHEMRTLMHAIIALSSLLLET--DLTPEQRVMIETVLKSSNLLTTLVDDV 399 (460)
Q Consensus 344 k~~f~~~iSHELRtPLt~I~g~~~lL~~~--~~~~~~~~~l~~I~~~~~rl~~LI~~L 399 (460)
|..+...+..++-.-|++|...++.+... ..+++.++.++.+.+.+.....=+.++
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 34566777777888889998888888753 233455566666655555544444443
No 176
>PF06181 DUF989: Protein of unknown function (DUF989); InterPro: IPR010389 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=21.36 E-value=3.7e+02 Score=25.65 Aligned_cols=45 Identities=20% Similarity=0.493 Sum_probs=25.8
Q ss_pred HHhhHHHHHHHHHHhcCCC----chHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 012575 31 AYFSIPVELIYFVQKSAFF----PYRWVLMQFGSFIILCGLTHFISLWTFT 77 (460)
Q Consensus 31 ~~~~i~~~l~~~~~~~~~~----~~~~~~~~~~~fi~~cg~~hl~~~~~~~ 77 (460)
-|||+|...+- ++.+--+ |++|+.. ...++.-.-.-|+|+.---.
T Consensus 229 ~ylTlPvLf~M-iSnHyp~~y~~~~nWlil-~li~~~g~~IRhfFn~rH~~ 277 (300)
T PF06181_consen 229 NYLTLPVLFLM-ISNHYPMTYGHPYNWLIL-ALIMLAGALIRHFFNLRHAG 277 (300)
T ss_pred ceeHHHHHHHH-HhccCccccccchhHHHH-HHHHHHHHHHHHHHHHhhcc
Confidence 69999976555 3433222 7777543 22233334456999885543
No 177
>PF14150 YesK: YesK-like protein
Probab=20.84 E-value=3.8e+02 Score=20.27 Aligned_cols=47 Identities=21% Similarity=0.321 Sum_probs=30.0
Q ss_pred HHHHHHhhHHHHHHHHHHhcCCCchHHHHHHHH-HHHHHHHHHHHHHHHh
Q 012575 27 LIALAYFSIPVELIYFVQKSAFFPYRWVLMQFG-SFIILCGLTHFISLWT 75 (460)
Q Consensus 27 ~i~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~-~fi~~cg~~hl~~~~~ 75 (460)
++.++++-+-..+.|+.|||- |-|..-+.++ ..+++|-.+.+.+++.
T Consensus 3 llg~~~~ii~f~~S~~lr~r~--p~k~~~~il~~ililis~~~v~~S~f~ 50 (81)
T PF14150_consen 3 LLGIVTFIIVFGVSVLLRKRF--PKKQPEIILPLILILISLLTVLISIFL 50 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHHHHHHHHHHHhe
Confidence 456777777778888888774 3333334444 4667776677777654
No 178
>PF14979 TMEM52: Transmembrane 52
Probab=20.75 E-value=1e+02 Score=26.02 Aligned_cols=17 Identities=41% Similarity=1.148 Sum_probs=10.5
Q ss_pred HHHHHHHHHHHHHHHHH
Q 012575 52 RWVLMQFGSFIILCGLT 68 (460)
Q Consensus 52 ~~~~~~~~~fi~~cg~~ 68 (460)
-|++++.+...++||+|
T Consensus 22 IwLill~~~llLLCG~t 38 (154)
T PF14979_consen 22 IWLILLIGFLLLLCGLT 38 (154)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 35556666667777754
No 179
>PF04544 Herpes_UL20: Herpesvirus egress protein UL20; InterPro: IPR007629 UL20 is predicted to be a transmembrane protein with multiple membrane spans. It is involved in the trans-cellular transport of enveloped virions, and is therefore important for viral egress. However, UL20 operates in different cellular compartments and different stages of egress in Suid herpesvirus 1 (Pseudorabies virus) and herpes simplex virus. This is thought to be due to differences in egress pathways between these two viruses [].; GO: 0019067 viral assembly, maturation, egress, and release
Probab=20.41 E-value=6e+02 Score=22.43 Aligned_cols=48 Identities=15% Similarity=0.203 Sum_probs=27.3
Q ss_pred HHHHHHHHhhHHHHHHHHHH---hcCCCchHHHH-HHHHHHHHHHHHHHHHH
Q 012575 25 DILIALAYFSIPVELIYFVQ---KSAFFPYRWVL-MQFGSFIILCGLTHFIS 72 (460)
Q Consensus 25 d~~i~~~~~~i~~~l~~~~~---~~~~~~~~~~~-~~~~~fi~~cg~~hl~~ 72 (460)
=..+.++|+.--..-.+|++ |++-+|+++.- +..|.+.+.|+..++..
T Consensus 60 ~~~~T~~yY~~l~l~~~~~Y~NIk~DrLPL~~~qq~~~g~~~~~~~i~f~~~ 111 (179)
T PF04544_consen 60 GLAITAAYYMRLALMAFFLYRNIKRDRLPLSTPQQWILGALCGGRAIYFLVI 111 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhccCCCcHHHHHHHHHHHHHhHHHHHHH
Confidence 34455566665555566665 34457998777 44455555555444433
No 180
>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=20.30 E-value=4.2e+02 Score=23.70 Aligned_cols=38 Identities=21% Similarity=0.354 Sum_probs=24.0
Q ss_pred HHHHHHHhcCCCchHHHHHHHHHHHHHHHHHHHHHHHh
Q 012575 38 ELIYFVQKSAFFPYRWVLMQFGSFIILCGLTHFISLWT 75 (460)
Q Consensus 38 ~l~~~~~~~~~~~~~~~~~~~~~fi~~cg~~hl~~~~~ 75 (460)
..+||..||..=..|-+.+-++++++-..++.++..|.
T Consensus 127 ~~iyfl~~K~~~~~rA~~~~~~~L~~G~~lGs~l~~~l 164 (194)
T PF11833_consen 127 ACIYFLNRKERKLGRAFLWTLGGLVVGLILGSLLASWL 164 (194)
T ss_pred HHHHHHHHhcchHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 45688877665455555577777777555555555543
No 181
>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]
Probab=20.29 E-value=4.4e+02 Score=26.36 Aligned_cols=44 Identities=18% Similarity=0.212 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHhHhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Q 012575 344 RNDFRAVMNHEMRTLMHAIIALSSLLLETDLTPEQRVMIETVLK 387 (460)
Q Consensus 344 k~~f~~~iSHELRtPLt~I~g~~~lL~~~~~~~~~~~~l~~I~~ 387 (460)
..++-..++..+||-.....++++-+.+-...++..+.+....+
T Consensus 248 L~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk 291 (400)
T COG3071 248 LKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALK 291 (400)
T ss_pred HHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence 44799999999999777777888877765555555554444333
No 182
>TIGR02921 PEP_integral PEP-CTERM family integral membrane protein. Members of this protein family, found in three different species so far, have a PEP-CTERM sequence at the carboxyl-terminus (see model TIGR02595), but are unusual among PEP-CTERM proteins in having multiple predicted transmembrane segments. The function is unknown. It is proposed that a member of the EpsH family, to be designated exosortase (see TIGR02602), recognizes and cleaves PEP-CTERM proteins in a manner analogous to the cleavage of LPXTG proteins by sortase (see Haft, et al., 2006).
Probab=20.29 E-value=1.1e+03 Score=25.28 Aligned_cols=41 Identities=24% Similarity=0.392 Sum_probs=24.0
Q ss_pred HHHHHHHHHHHH---------HHHHhhHHHHHHHHHHhcCCCchHHHHHHH
Q 012575 17 LVRYQYISDILI---------ALAYFSIPVELIYFVQKSAFFPYRWVLMQF 58 (460)
Q Consensus 17 ~~~~~~~~d~~i---------~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~ 58 (460)
|-|+|+....++ -+++|.||....+|.-.- .+.|+|+.-+|
T Consensus 137 lqw~~l~~~~~ml~~giy~~~~l~~~~ip~~~gff~l~~-~i~~~~~~~i~ 186 (952)
T TIGR02921 137 LQWLQLLAAMLMLLFGIYAAALLAFFAIPAAAGFFELLE-EIEFEHLGDIF 186 (952)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHhHHHHHHH-HHHHHhHHHHH
Confidence 457666555433 238899999888774321 23566655433
No 183
>PRK04654 sec-independent translocase; Provisional
Probab=20.29 E-value=2.8e+02 Score=25.12 Aligned_cols=22 Identities=9% Similarity=0.060 Sum_probs=11.7
Q ss_pred HHHHHHHhHhHHHHHHHHHHHH
Q 012575 348 RAVMNHEMRTLMHAIIALSSLL 369 (460)
Q Consensus 348 ~~~iSHELRtPLt~I~g~~~lL 369 (460)
+..+.-++|+++.-+.--++-+
T Consensus 70 i~~~~~~lk~~~~el~q~a~~~ 91 (214)
T PRK04654 70 LREAEDQLRNTQQQVEQGARAL 91 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 4455555666665555444443
No 184
>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=20.26 E-value=7e+02 Score=23.77 Aligned_cols=12 Identities=17% Similarity=0.371 Sum_probs=4.6
Q ss_pred HHHHHHHHHHHH
Q 012575 312 ILEDSMRARNQL 323 (460)
Q Consensus 312 l~~~~~~~~~~l 323 (460)
++++.+++++++
T Consensus 71 l~~EN~~Lr~e~ 82 (283)
T TIGR00219 71 LEYENYKLRQEL 82 (283)
T ss_pred HHHHHHHHHHHH
Confidence 333433333333
No 185
>PHA02749 hypothetical protein; Provisional
Probab=20.14 E-value=1e+02 Score=27.90 Aligned_cols=54 Identities=19% Similarity=0.287 Sum_probs=36.1
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhcC-CCchHHHH--HHHHHHHHHHHHHHHHHH
Q 012575 20 YQYISDILIALAYFSIPVELIYFVQKSA-FFPYRWVL--MQFGSFIILCGLTHFISL 73 (460)
Q Consensus 20 ~~~~~d~~i~~~~~~i~~~l~~~~~~~~-~~~~~~~~--~~~~~fi~~cg~~hl~~~ 73 (460)
+|.++-.+||++|.-.|+.++.-.|... -+|-++.. .+|-+|..+...-++-+.
T Consensus 151 lhliagaf~ai~~lllp~iivltyr~~~~~ip~~~~il~~~~na~a~liasy~lsda 207 (322)
T PHA02749 151 LHLIAGAFIAIAGLLLPIIIVLTYRGEAGGIPPGRDILMLLFNAFAMLIASYFLSDA 207 (322)
T ss_pred hHHhhhHHHHHHHHhhhheEEEeeccccCCCCCcchhHHHHHHHHHHHHHHHHHHHH
Confidence 5889999999999999987664334332 35655544 677777777655444444
No 186
>PF10966 DUF2768: Protein of unknown function (DUF2768); InterPro: IPR020076 This entry contains proteins with no known function.
Probab=20.13 E-value=3.2e+02 Score=19.19 Aligned_cols=20 Identities=35% Similarity=0.474 Sum_probs=13.1
Q ss_pred HHHHHHhhHHHHHHHHHHhc
Q 012575 27 LIALAYFSIPVELIYFVQKS 46 (460)
Q Consensus 27 ~i~~~~~~i~~~l~~~~~~~ 46 (460)
+.++...-|...++|+.|.+
T Consensus 6 ~~~iglMfisv~~i~~sR~K 25 (58)
T PF10966_consen 6 FGAIGLMFISVILIYFSRYK 25 (58)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44555666667788887743
No 187
>PF05884 ZYG-11_interact: Interactor of ZYG-11; InterPro: IPR008574 This family consists of proteins of unknown function found in Caenorhabditis species.
Probab=20.09 E-value=4e+02 Score=25.52 Aligned_cols=21 Identities=33% Similarity=0.615 Sum_probs=15.5
Q ss_pred HHHHHHhhHHHHHHHHHHhcC
Q 012575 27 LIALAYFSIPVELIYFVQKSA 47 (460)
Q Consensus 27 ~i~~~~~~i~~~l~~~~~~~~ 47 (460)
++-++|+.||+..-|...++.
T Consensus 140 Aaila~iviP~~~~y~ln~~~ 160 (299)
T PF05884_consen 140 AAILAYIVIPLIAYYYLNKED 160 (299)
T ss_pred HHHHHHHHHHHHHHhhccccc
Confidence 445599999998888765543
No 188
>PRK00888 ftsB cell division protein FtsB; Reviewed
Probab=20.06 E-value=4.5e+02 Score=20.84 Aligned_cols=72 Identities=10% Similarity=0.055 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhh---hhhccccHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHhccc
Q 012575 87 MTIAKMACAFVSCITALMLVHIIP---DLLSVKTRELFLKNRADELDREMGLILTQEETGRH-VRMLTHEIRSTLD 158 (460)
Q Consensus 87 ~~~~k~~ta~~s~~~a~~l~~~~p---~~l~~~~~~~~l~~~~~~l~~e~~~l~~~~e~~~~-l~~lt~~I~~sld 158 (460)
+.++.++..++.++.++.++.--. ....+......+++.+++++++.+.++.+-+..+. -..+.+..|..+.
T Consensus 1 m~~~~~vll~ll~~l~y~l~~g~~G~~~~~~l~~q~~~~~~e~~~l~~~n~~L~~eI~~L~~~~dyiEe~AR~~Lg 76 (105)
T PRK00888 1 MRLLTLLLLALLVWLQYSLWFGKNGILDYWRVNDQVAAQQQTNAKLKARNDQLFAEIDDLKGGQEAIEERARNELG 76 (105)
T ss_pred CcHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCcHHHHHHHHHHHcC
Done!