Query 015216
Match_columns 411
No_of_seqs 333 out of 1432
Neff 9.6
Searched_HMMs 46136
Date Fri Mar 29 04:12:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/015216.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/015216hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13560 hypothetical protein; 100.0 1.2E-26 2.6E-31 246.3 27.8 268 6-391 193-481 (807)
2 PRK09776 putative diguanylate 100.0 1.1E-26 2.3E-31 254.4 26.4 260 15-392 280-541 (1092)
3 PRK13560 hypothetical protein; 99.9 2.5E-24 5.3E-29 228.6 27.1 267 8-392 58-337 (807)
4 PRK09776 putative diguanylate 99.9 2.2E-24 4.8E-29 236.2 25.4 259 7-384 400-663 (1092)
5 TIGR02040 PpsR-CrtJ transcript 99.9 8E-24 1.7E-28 209.2 25.2 238 15-379 130-368 (442)
6 PRK11359 cyclic-di-GMP phospho 99.9 1.4E-22 3E-27 215.2 26.2 245 17-384 11-260 (799)
7 TIGR02938 nifL_nitrog nitrogen 99.9 2.7E-23 5.8E-28 208.1 19.4 254 18-383 4-259 (494)
8 TIGR02040 PpsR-CrtJ transcript 99.9 4E-22 8.6E-27 197.2 20.3 250 23-383 1-251 (442)
9 PF13426 PAS_9: PAS domain; PD 99.8 1.9E-17 4.2E-22 129.1 12.9 104 28-135 1-104 (104)
10 PF13426 PAS_9: PAS domain; PD 99.7 5.8E-17 1.3E-21 126.3 13.5 104 251-374 1-104 (104)
11 PF08448 PAS_4: PAS fold; Int 99.7 2.4E-16 5.1E-21 124.3 11.2 110 24-138 1-110 (110)
12 PF00989 PAS: PAS fold; Inter 99.7 9.7E-16 2.1E-20 121.4 13.5 112 18-133 1-113 (113)
13 PF08448 PAS_4: PAS fold; Int 99.6 2.6E-15 5.7E-20 118.3 12.1 110 247-377 1-110 (110)
14 PF00989 PAS: PAS fold; Inter 99.6 2E-14 4.3E-19 113.8 12.8 112 241-372 1-113 (113)
15 PRK13559 hypothetical protein; 99.6 9.8E-14 2.1E-18 133.7 16.9 131 240-387 42-172 (361)
16 PRK13557 histidine kinase; Pro 99.5 1.7E-13 3.6E-18 139.0 17.9 130 240-386 29-158 (540)
17 PRK11091 aerobic respiration c 99.5 6.8E-14 1.5E-18 148.2 13.7 144 230-393 144-287 (779)
18 PRK13559 hypothetical protein; 99.5 5.2E-13 1.1E-17 128.6 16.9 123 16-139 41-163 (361)
19 PRK11091 aerobic respiration c 99.5 2.5E-13 5.3E-18 144.0 15.8 122 15-140 152-273 (779)
20 PRK13557 histidine kinase; Pro 99.5 6.6E-13 1.4E-17 134.7 14.3 126 15-141 27-152 (540)
21 PRK13558 bacterio-opsin activa 99.5 1.9E-12 4.2E-17 134.8 17.7 133 243-392 150-282 (665)
22 TIGR02938 nifL_nitrog nitrogen 99.4 7.8E-13 1.7E-17 132.4 12.3 133 241-393 4-136 (494)
23 PRK10060 RNase II stability mo 99.4 5.1E-12 1.1E-16 131.0 16.1 122 244-385 114-236 (663)
24 PRK13558 bacterio-opsin activa 99.4 1.2E-11 2.7E-16 128.7 17.0 120 19-139 149-268 (665)
25 PF08447 PAS_3: PAS fold; Int 99.4 6.7E-12 1.4E-16 95.4 10.1 86 266-369 1-91 (91)
26 PF08447 PAS_3: PAS fold; Int 99.3 1.2E-11 2.5E-16 94.1 8.6 86 43-130 1-91 (91)
27 TIGR00229 sensory_box PAS doma 99.3 5.7E-11 1.2E-15 91.9 12.2 120 241-381 3-123 (124)
28 TIGR00229 sensory_box PAS doma 99.3 9.2E-11 2E-15 90.7 12.2 117 18-139 3-120 (124)
29 KOG3558 Hypoxia-inducible fact 99.3 1E-10 2.3E-15 113.8 14.7 105 254-375 275-379 (768)
30 PRK10060 RNase II stability mo 99.2 1.2E-10 2.5E-15 120.9 15.4 119 16-139 109-229 (663)
31 COG3829 RocR Transcriptional r 99.2 2.3E-10 5.1E-15 110.1 15.3 234 21-390 4-237 (560)
32 PRK11359 cyclic-di-GMP phospho 99.1 3.4E-10 7.5E-15 120.5 12.7 122 16-141 134-256 (799)
33 cd00130 PAS PAS domain; PAS mo 99.1 3.6E-09 7.9E-14 77.8 13.0 103 27-133 1-103 (103)
34 PF13596 PAS_10: PAS domain; P 99.1 1.8E-09 3.9E-14 84.6 10.8 106 20-134 1-106 (106)
35 cd00130 PAS PAS domain; PAS mo 99.0 9.5E-09 2.1E-13 75.5 13.0 102 251-372 2-103 (103)
36 PRK11360 sensory histidine kin 99.0 1.4E-08 3E-13 104.3 17.3 126 239-387 260-386 (607)
37 PF14598 PAS_11: PAS domain; P 99.0 1.7E-08 3.8E-13 79.4 12.4 102 32-136 6-109 (111)
38 PRK11073 glnL nitrogen regulat 98.9 1.6E-08 3.6E-13 96.8 14.4 118 241-385 7-124 (348)
39 PF12860 PAS_7: PAS fold 98.9 6.2E-09 1.4E-13 82.8 8.2 103 24-139 1-113 (115)
40 PF14598 PAS_11: PAS domain; P 98.9 4.5E-08 9.8E-13 77.0 12.4 96 263-374 11-108 (111)
41 TIGR02966 phoR_proteo phosphat 98.9 1.1E-08 2.4E-13 96.9 10.7 108 15-139 3-110 (333)
42 PRK11388 DNA-binding transcrip 98.9 1.7E-07 3.6E-12 97.0 19.8 107 243-377 205-311 (638)
43 KOG0501 K+-channel KCNQ [Inorg 98.9 7.7E-09 1.7E-13 99.0 8.6 109 252-377 28-138 (971)
44 PRK11360 sensory histidine kin 98.9 2E-08 4.4E-13 103.1 12.5 119 16-141 260-379 (607)
45 PRK11073 glnL nitrogen regulat 98.8 3.3E-08 7.1E-13 94.7 12.2 111 18-139 7-117 (348)
46 TIGR02966 phoR_proteo phosphat 98.8 4.3E-08 9.4E-13 92.8 12.4 113 238-383 3-115 (333)
47 PF13596 PAS_10: PAS domain; P 98.8 2.3E-08 4.9E-13 78.3 8.5 106 243-373 1-106 (106)
48 PF12860 PAS_7: PAS fold 98.8 4.9E-08 1.1E-12 77.6 9.0 105 247-380 1-115 (115)
49 COG5002 VicK Signal transducti 98.7 1.4E-07 3.1E-12 85.6 11.1 143 239-408 109-256 (459)
50 KOG0501 K+-channel KCNQ [Inorg 98.7 7.7E-08 1.7E-12 92.3 9.7 123 16-139 12-139 (971)
51 COG2202 AtoS FOG: PAS/PAC doma 98.6 7E-06 1.5E-10 69.6 18.6 115 243-378 114-231 (232)
52 PRK11086 sensory histidine kin 98.6 1.8E-06 4E-11 87.7 16.9 124 236-391 216-342 (542)
53 PRK15053 dpiB sensor histidine 98.6 2.3E-05 4.9E-10 79.9 23.9 122 239-393 220-343 (545)
54 COG3829 RocR Transcriptional r 98.5 1.3E-06 2.8E-11 84.7 13.5 112 15-139 114-225 (560)
55 COG5002 VicK Signal transducti 98.5 1.5E-06 3.3E-11 79.1 12.5 114 15-139 108-221 (459)
56 PRK10820 DNA-binding transcrip 98.5 6.5E-07 1.4E-11 90.0 9.9 109 15-137 77-189 (520)
57 KOG3559 Transcriptional regula 98.4 3.5E-06 7.7E-11 77.5 11.7 80 263-342 234-313 (598)
58 PRK11006 phoR phosphate regulo 98.4 6.6E-07 1.4E-11 88.4 7.5 112 9-140 90-201 (430)
59 COG2202 AtoS FOG: PAS/PAC doma 98.3 1.9E-05 4.1E-10 66.9 13.5 119 16-139 110-231 (232)
60 PRK11006 phoR phosphate regulo 98.3 3.1E-06 6.6E-11 83.6 8.8 112 237-383 94-205 (430)
61 PF08670 MEKHLA: MEKHLA domain 98.3 2.9E-05 6.4E-10 63.4 12.7 112 18-132 32-144 (148)
62 PRK10820 DNA-binding transcrip 98.2 7.7E-06 1.7E-10 82.3 11.3 108 239-376 78-189 (520)
63 PF13188 PAS_8: PAS domain; PD 98.2 2.2E-06 4.7E-11 60.2 5.0 43 18-67 1-43 (64)
64 PRK11086 sensory histidine kin 98.1 3.1E-05 6.7E-10 78.7 13.3 109 15-139 218-329 (542)
65 COG3290 CitA Signal transducti 98.1 6.4E-05 1.4E-09 73.1 13.1 124 237-392 211-337 (537)
66 KOG3560 Aryl-hydrocarbon recep 98.1 4.2E-05 9.2E-10 73.2 11.5 94 263-374 292-385 (712)
67 KOG1229 3'5'-cyclic nucleotide 98.0 2.3E-06 4.9E-11 79.8 2.4 102 240-344 156-258 (775)
68 KOG3558 Hypoxia-inducible fact 97.9 1.5E-05 3.3E-10 78.6 5.6 97 40-136 283-379 (768)
69 KOG1229 3'5'-cyclic nucleotide 97.8 1.5E-05 3.3E-10 74.4 3.4 106 19-128 158-264 (775)
70 PRK15053 dpiB sensor histidine 97.8 0.00017 3.6E-09 73.5 11.1 107 16-139 220-328 (545)
71 PRK11388 DNA-binding transcrip 97.8 0.00016 3.4E-09 75.1 11.0 109 18-138 203-311 (638)
72 PF13188 PAS_8: PAS domain; PD 97.7 9.3E-05 2E-09 51.7 4.9 44 242-292 2-45 (64)
73 COG5000 NtrY Signal transducti 97.7 0.00029 6.3E-09 69.2 9.8 114 15-139 367-480 (712)
74 COG3290 CitA Signal transducti 97.7 0.00023 5E-09 69.3 9.2 110 15-139 212-323 (537)
75 PF08670 MEKHLA: MEKHLA domain 97.6 0.00097 2.1E-08 54.6 11.3 101 243-344 33-134 (148)
76 PRK09959 hybrid sensory histid 97.6 0.00089 1.9E-08 74.9 13.9 137 233-392 568-708 (1197)
77 PRK09959 hybrid sensory histid 97.5 0.0015 3.2E-08 73.1 14.1 124 9-139 568-694 (1197)
78 COG2461 Uncharacterized conser 97.4 0.00048 1E-08 64.1 7.8 113 17-139 289-401 (409)
79 smart00091 PAS PAS domain. PAS 97.4 0.00054 1.2E-08 45.2 5.9 59 19-80 2-60 (67)
80 COG3852 NtrB Signal transducti 97.3 0.0038 8.2E-08 56.6 11.9 94 245-344 11-105 (363)
81 COG3852 NtrB Signal transducti 97.2 0.0025 5.4E-08 57.8 9.2 106 21-136 10-116 (363)
82 TIGR02373 photo_yellow photoac 97.2 0.0042 9.1E-08 48.7 9.0 67 21-90 19-86 (124)
83 COG5000 NtrY Signal transducti 97.0 0.013 2.8E-07 58.1 13.1 111 242-380 371-482 (712)
84 smart00091 PAS PAS domain. PAS 97.0 0.0021 4.5E-08 42.2 5.6 59 243-304 3-61 (67)
85 KOG3753 Circadian clock protei 96.9 0.0062 1.3E-07 62.1 10.0 80 260-339 337-419 (1114)
86 smart00086 PAC Motif C-termina 96.5 0.016 3.5E-07 33.8 6.6 41 95-136 3-43 (43)
87 COG2461 Uncharacterized conser 96.5 0.0082 1.8E-07 56.1 6.9 116 239-380 288-403 (409)
88 COG3283 TyrR Transcriptional r 96.5 0.0068 1.5E-07 56.3 6.2 90 15-117 77-166 (511)
89 TIGR02373 photo_yellow photoac 96.3 0.03 6.6E-07 44.0 8.4 64 247-313 22-86 (124)
90 smart00086 PAC Motif C-termina 96.3 0.026 5.7E-07 32.8 6.8 41 318-375 3-43 (43)
91 PF07310 PAS_5: PAS domain; I 96.0 0.079 1.7E-06 43.2 9.9 103 23-130 33-136 (137)
92 PRK10841 hybrid sensory kinase 95.9 0.15 3.2E-06 55.5 14.0 121 235-397 328-448 (924)
93 KOG3560 Aryl-hydrocarbon recep 95.8 0.032 6.9E-07 54.2 7.5 94 40-135 292-385 (712)
94 PF07310 PAS_5: PAS domain; I 95.1 0.25 5.5E-06 40.3 9.7 79 263-344 50-128 (137)
95 COG3283 TyrR Transcriptional r 95.1 0.048 1E-06 50.8 5.8 56 242-300 81-136 (511)
96 KOG3559 Transcriptional regula 94.3 0.093 2E-06 49.1 5.7 85 30-117 227-311 (598)
97 KOG3561 Aryl-hydrocarbon recep 93.8 0.048 1E-06 56.6 3.0 95 263-373 381-476 (803)
98 PRK10618 phosphotransfer inter 93.4 0.88 1.9E-05 49.2 11.9 43 235-279 337-379 (894)
99 KOG3561 Aryl-hydrocarbon recep 93.0 0.054 1.2E-06 56.2 2.1 59 242-303 95-154 (803)
100 COG3284 AcoR Transcriptional a 92.6 1.3 2.8E-05 44.7 10.9 102 17-129 76-178 (606)
101 PF08348 PAS_6: YheO-like PAS 92.3 1.2 2.6E-05 35.2 8.4 89 29-139 20-112 (118)
102 PRK10841 hybrid sensory kinase 91.5 3.9 8.5E-05 44.7 14.1 100 15-140 331-430 (924)
103 PF08348 PAS_6: YheO-like PAS 90.2 7.9 0.00017 30.6 11.1 50 315-383 68-117 (118)
104 PF08446 PAS_2: PAS fold; Int 88.6 0.42 9.1E-06 37.3 2.8 43 30-74 17-62 (110)
105 PF08446 PAS_2: PAS fold; Int 87.3 0.78 1.7E-05 35.8 3.6 43 254-298 18-63 (110)
106 KOG3753 Circadian clock protei 87.2 1.4 3.1E-05 45.7 6.1 89 40-128 340-431 (1114)
107 PRK13719 conjugal transfer tra 80.1 3.4 7.3E-05 36.2 4.8 40 16-58 17-56 (217)
108 PRK10618 phosphotransfer inter 78.2 4.7 0.0001 43.7 6.3 40 15-56 340-379 (894)
109 PF06785 UPF0242: Uncharacteri 77.8 3.9 8.5E-05 37.7 4.6 89 19-115 284-378 (401)
110 COG3887 Predicted signaling pr 75.2 24 0.00053 35.7 9.6 37 239-278 73-109 (655)
111 COG5388 Uncharacterized protei 73.4 18 0.00039 30.9 7.1 107 22-134 52-160 (209)
112 PF09308 LuxQ-periplasm: LuxQ, 71.9 53 0.0012 29.3 10.1 83 25-132 69-151 (238)
113 PRK14538 putative bifunctional 68.3 8.3 0.00018 41.3 5.1 48 16-69 100-148 (838)
114 COG3284 AcoR Transcriptional a 66.9 65 0.0014 33.0 10.7 92 243-344 79-171 (606)
115 COG3887 Predicted signaling pr 64.7 15 0.00032 37.1 5.7 42 12-56 69-110 (655)
116 PF14827 Cache_3: Sensory doma 54.6 57 0.0012 25.3 6.6 74 252-372 40-113 (116)
117 PF09884 DUF2111: Uncharacteri 53.5 56 0.0012 23.8 5.5 47 305-373 37-83 (84)
118 PF06785 UPF0242: Uncharacteri 50.0 26 0.00057 32.5 4.3 79 252-338 298-378 (401)
119 COG5388 Uncharacterized protei 49.1 85 0.0018 26.9 6.8 92 248-344 55-148 (209)
120 PF09884 DUF2111: Uncharacteri 47.6 70 0.0015 23.3 5.3 47 82-134 37-83 (84)
121 PRK13719 conjugal transfer tra 46.7 33 0.00071 30.2 4.3 37 242-281 20-56 (217)
122 PRK14538 putative bifunctional 45.4 29 0.00063 37.3 4.5 46 241-292 102-148 (838)
123 PF10114 PocR: Sensory domain 45.0 1.8E+02 0.0039 24.2 9.6 97 15-131 9-105 (173)
124 PF12282 H_kinase_N: Signal tr 40.3 90 0.0019 25.6 5.8 55 80-139 79-133 (145)
125 COG4191 Signal transduction hi 37.0 4.9E+02 0.011 26.8 13.2 96 15-135 86-182 (603)
126 PF02743 Cache_1: Cache domain 31.5 1E+02 0.0022 21.9 4.4 30 106-136 12-41 (81)
127 PF14827 Cache_3: Sensory doma 23.6 1.2E+02 0.0026 23.5 3.7 74 29-133 40-113 (116)
128 PF02743 Cache_1: Cache domain 23.6 2.2E+02 0.0047 20.1 4.9 31 327-374 10-40 (81)
129 COG2964 Uncharacterized protei 23.5 1.2E+02 0.0026 26.7 3.9 35 99-136 85-119 (220)
130 cd07055 BMC_like_2 Bacterial M 21.6 1.5E+02 0.0033 20.2 3.3 24 354-378 30-53 (61)
No 1
>PRK13560 hypothetical protein; Provisional
Probab=99.95 E-value=1.2e-26 Score=246.29 Aligned_cols=268 Identities=15% Similarity=0.131 Sum_probs=210.2
Q ss_pred chHHHhhhhHHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHH
Q 015216 6 GLIEQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREA 85 (411)
Q Consensus 6 ~~~e~~~~~~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~ 85 (411)
+..|+.+. ...++++.+++++|++++++|.+ |+|+++|+++++++||++++++|+++.++.++.............
T Consensus 193 k~ae~~l~-~~~~~l~~l~e~~~~~i~~~d~~---g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~ 268 (807)
T PRK13560 193 KRAEERID-EALHFLQQLLDNIADPAFWKDED---AKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAK 268 (807)
T ss_pred HHHHHHHH-HHHHHHHHHHhhCCCeEEEEcCC---CCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHH
Confidence 34555665 67788999999999999999997 999999999999999999999999998887765544443444555
Q ss_pred HHhCCcceeeEEEEccCCCeEEEEEE--EEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhh
Q 015216 86 IREERPIEVNLLNYKKDGTPFWMLFK--MSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSC 163 (411)
Q Consensus 86 ~~~~~~~~~e~~~~~~dG~~~~~~~~--~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~ 163 (411)
+..+....++.++.++||..+|+.+. ..|+.+ .+|.+.|++++++|||++|++
T Consensus 269 ~~~~~~~~~e~~~~~~dG~~~~~~~~~~~~~~~~-~~g~~~g~~~~~~DITerk~~------------------------ 323 (807)
T PRK13560 269 FDADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDD-KENHCAGLVGAITDISGRRAA------------------------ 323 (807)
T ss_pred hccCCceEEEEEEEcCCCCEEEEEEEecceEEEc-CCCCEEEEEEEEEechHHHHH------------------------
Confidence 66667777888999999999976655 456678 899999999999999999997
Q ss_pred hhhhhhhhhhcccccccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHH
Q 015216 164 RREVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSL 243 (411)
Q Consensus 164 ~~e~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l 243 (411)
+..++. .++.+
T Consensus 324 ----------------------------------e~~L~~-----------------------------------se~~l 334 (807)
T PRK13560 324 ----------------------------------ERELLE-----------------------------------KEDML 334 (807)
T ss_pred ----------------------------------HHHHHH-----------------------------------HHHHH
Confidence 222222 22346
Q ss_pred HHHHhcccccEEEEcCCCCCCCEEEe-cHHHHHHhCCCcccccCCccccccCCC---------------CchHHH--HHH
Q 015216 244 YISLGRIKQSFVLIDPHLPDMPMVYA-SDAFLKLTGYDRNEVVGQNCRFLNGVD---------------TDTTVL--YQI 305 (411)
Q Consensus 244 ~~~l~~~~~~i~~~d~~~~d~~i~~~-N~~~~~l~G~~~~e~~g~~~~~l~~~~---------------~~~~~~--~~~ 305 (411)
..++++++++++++|. ++.++++ |+++++++||+.++++|+++..+.+.. ..+... ..+
T Consensus 335 ~~l~~~~~~~i~~~d~---~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 411 (807)
T PRK13560 335 RAIIEAAPIAAIGLDA---DGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACPM 411 (807)
T ss_pred HHHHHhCcccEEEEcC---CCCEEEecCHHHHHHhCCCHHHHcCCCccccChhhhhhhhhchhhhcCCcCCcchhhhhhH
Confidence 6677889999999999 8899987 678888999999999999865443221 111111 112
Q ss_pred HHHHhhcCceE-EEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHH
Q 015216 306 KESIQTEQACT-VRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSL 384 (411)
Q Consensus 306 ~~~~~~~~~~~-~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~ 384 (411)
...+..+..+. .+++..+++|..+|+.+...|+.+.+|. +.+++++++|||++|++|++|++
T Consensus 412 ~~~~~~~~~~~~~e~~~~~~~g~~~~~~~~~~p~~d~~g~-----------------~~~~~~~~~DITerk~~E~~L~~ 474 (807)
T PRK13560 412 AKTIKGGKIFDGQEVLIEREDDGPADCSAYAEPLHDADGN-----------------IIGAIALLVDITERKQVEEQLLL 474 (807)
T ss_pred HHHHhcCCcccCceEEEEcCCCCeEEEEEEEeeeECCCCC-----------------EEEEEEEeehhhhHHHHHHHHHH
Confidence 33355555543 4778889999999999999999999999 99999999999999999999998
Q ss_pred HHHHHHH
Q 015216 385 EMRQLSA 391 (411)
Q Consensus 385 ~~~~l~~ 391 (411)
++..++.
T Consensus 475 ~~~~~e~ 481 (807)
T PRK13560 475 ANLIVEN 481 (807)
T ss_pred HHHHHhc
Confidence 7655543
No 2
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.95 E-value=1.1e-26 Score=254.35 Aligned_cols=260 Identities=13% Similarity=0.134 Sum_probs=223.5
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhC-Ccce
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIE 93 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~ 93 (411)
..+++++.+++++|++++++|.+ |+++++|+++++++||+.++++|+++.++.+|++.......+...+.++ ..+.
T Consensus 280 ~~e~r~~~l~e~~~~~i~~~d~d---G~i~~~N~~~~~l~G~~~~el~g~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~ 356 (1092)
T PRK09776 280 ESETRFRNAMEYSAIGMALVGTE---GQWLQVNKALCQFLGYSQEELRGLTFQQLTWPEDLNKDLQQVEKLLSGEINSYS 356 (1092)
T ss_pred HHHHHHHHHHHhCCceEEEEcCC---CcEEehhHHHHHHhCCCHHHHccCCceeccCcchhHhHHHHHHHHHcCCcccee
Confidence 56678999999999999999997 9999999999999999999999999988888887776666665555544 3467
Q ss_pred eeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhhhhhhhhhh
Q 015216 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (411)
Q Consensus 94 ~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 173 (411)
.+.+..++||+.+|+..+..|+.+ .+|.+.+++++.+|||++|++
T Consensus 357 ~e~~~~~~dG~~~~~~~~~~~~~~-~~g~~~~~i~~~~DITerk~~---------------------------------- 401 (1092)
T PRK09776 357 MEKRYYRRDGEVVWALLAVSLVRD-TDGTPLYFIAQIEDINELKRT---------------------------------- 401 (1092)
T ss_pred eeeEEEcCCCCEEEEEEEEEEEEC-CCCCEeeehhhHHhhHHHHHH----------------------------------
Confidence 788899999999999999999999 899999999999999999997
Q ss_pred cccccccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHHHHhccccc
Q 015216 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (411)
Q Consensus 174 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~ 253 (411)
+.+.+... +.+..+++..+.+
T Consensus 402 ------------------------e~~l~~~~-----------------------------------~~~~~~~~~~~~~ 422 (1092)
T PRK09776 402 ------------------------EQVNERLM-----------------------------------ERITLANEAGGIG 422 (1092)
T ss_pred ------------------------HHHHHHHH-----------------------------------HHHHHHHHhcCce
Confidence 22222222 2344556778899
Q ss_pred EEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCc-cccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEE
Q 015216 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQN-CRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (411)
Q Consensus 254 i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 332 (411)
++.+|. ++.++++|+++++++||+.++..+.. +....+|++.......+.+.+.++..+..+++.+++|| .+|+.
T Consensus 423 i~~~d~---~~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~dG-~~w~~ 498 (1092)
T PRK09776 423 IWEWDL---KPNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQGRSPFKLEFRIVVKDG-VRHIR 498 (1092)
T ss_pred EEEEec---CCCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHhcCCCeeEEEEEEcCCc-eEEEE
Confidence 999999 88999999999999999998855433 45567888888877788888888889999999999999 99999
Q ss_pred EEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHh
Q 015216 333 LHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 392 (411)
Q Consensus 333 ~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 392 (411)
....|+.|++|+ +.+++++.+|||++|+++++|++++++++.+
T Consensus 499 ~~~~~~~d~~G~-----------------~~~~ig~~~DITerk~~e~~L~~~~~~l~~~ 541 (1092)
T PRK09776 499 ALANRVLNKDGE-----------------VERLLGINMDMTEVRQLNEALFQEKERLHIT 541 (1092)
T ss_pred EeeEEEECCCCC-----------------EEEEEeeeeehhHHHHHHHHHHHHHHHHHHH
Confidence 999999999999 9999999999999999999999988888754
No 3
>PRK13560 hypothetical protein; Provisional
Probab=99.93 E-value=2.5e-24 Score=228.65 Aligned_cols=267 Identities=12% Similarity=0.048 Sum_probs=203.1
Q ss_pred HHHhhhhHHHHHHHHHHhhCCCeEEEEcCCCCCcc--EEEecHHHHHHhCCchhhhccCC--CCCCCCCccchhHH----
Q 015216 8 IEQSFNNRYTLWVHEALDELPDSFTITDPSISGHP--IVFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTI---- 79 (411)
Q Consensus 8 ~e~~~~~~~~~~l~~l~e~~~~~i~i~d~~~~dg~--i~~~N~~~~~l~G~~~eeliG~~--~~~l~~~~~~~~~~---- 79 (411)
.|.++......+++.+++++|.++++++.+ ++|. +.+++++...++||.+.++++.. +..+.+|++...+.
T Consensus 58 ~~~~l~~~~e~~~r~l~~~~p~~i~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~~ 136 (807)
T PRK13560 58 AEAEAQDCREQCERNLKANIPGGMFLFALD-GDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFANPF 136 (807)
T ss_pred HHHHHHHHHHHHHHHHHhcCCceEEEEEEc-CccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhChh
Confidence 444554233334499999999999999886 2244 34488888889999888876643 44567777765544
Q ss_pred ---HHHHHHHHhCCcceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchh
Q 015216 80 ---MEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLR 156 (411)
Q Consensus 80 ---~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~ 156 (411)
..+..++..+.....+++++++||. |+.+...|.++ .+|.+ ++.|+++|||++|++
T Consensus 137 ~~~~~~~~~~~~~~~~~~e~r~~~~dg~--~~~~~~~~~~~-~~g~~-~~~g~~~DIT~rk~a----------------- 195 (807)
T PRK13560 137 RSAETIAMALQSDDWQEEEGHFRCGDGR--FIDCCLRFERH-AHADD-QVDGFAEDITERKRA----------------- 195 (807)
T ss_pred hHHHHHHHHhccCcccceEEEEEeCCcc--EEEEEeeeeec-CCCce-EEEEEEEccchHHHH-----------------
Confidence 2233344445567788999999996 66677888888 78875 689999999999997
Q ss_pred HhhhhhhhhhhhhhhhhcccccccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcch
Q 015216 157 EIVFGSCRREVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGM 236 (411)
Q Consensus 157 ~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 236 (411)
+..++.
T Consensus 196 -----------------------------------------e~~l~~--------------------------------- 201 (807)
T PRK13560 196 -----------------------------------------EERIDE--------------------------------- 201 (807)
T ss_pred -----------------------------------------HHHHHH---------------------------------
Confidence 222222
Q ss_pred hhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceE
Q 015216 237 GFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (411)
Q Consensus 237 ~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 316 (411)
.++.+..+++++|++++++|. +|+++++|+++++++||++++++|+++..+.++.............+..+....
T Consensus 202 --~~~~l~~l~e~~~~~i~~~d~---~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 276 (807)
T PRK13560 202 --ALHFLQQLLDNIADPAFWKDE---DAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDADGSQI 276 (807)
T ss_pred --HHHHHHHHHhhCCCeEEEEcC---CCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccCCceE
Confidence 223466678999999999999 889999999999999999999999999888766544444344455566677778
Q ss_pred EEEEEEecCCCEEEEEEE--eeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHh
Q 015216 317 VRILNYRKDKSSFWNLLH--ISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 392 (411)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~--~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 392 (411)
.+.+++++||+.+|+.+. ..|+.+.+|. +.+++++++|||++|++|++|++++++++.+
T Consensus 277 ~e~~~~~~dG~~~~~~~~~~~~~~~~~~g~-----------------~~g~~~~~~DITerk~~e~~L~~se~~l~~l 337 (807)
T PRK13560 277 IEAEFQNKDGRTRPVDVIFNHAEFDDKENH-----------------CAGLVGAITDISGRRAAERELLEKEDMLRAI 337 (807)
T ss_pred EEEEEEcCCCCEEEEEEEecceEEEcCCCC-----------------EEEEEEEEEechHHHHHHHHHHHHHHHHHHH
Confidence 888999999999976655 4566788898 8999999999999999999999998888765
No 4
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.93 E-value=2.2e-24 Score=236.17 Aligned_cols=259 Identities=15% Similarity=0.147 Sum_probs=211.4
Q ss_pred hHHHhhhhHHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCC-CCCCCCCccchhHHHHHHHH
Q 015216 7 LIEQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN-GRMFQGPRTNRRTIMEIREA 85 (411)
Q Consensus 7 ~~e~~~~~~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~-~~~l~~~~~~~~~~~~~~~~ 85 (411)
..|++++ +..++++.+++..+.++|.+|.+ +.++++|+++.+++||+.++..+.. +....+|++.......+.+.
T Consensus 400 ~~e~~l~-~~~~~~~~~~~~~~~~i~~~d~~---~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~ 475 (1092)
T PRK09776 400 RTEQVNE-RLMERITLANEAGGIGIWEWDLK---PNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDA 475 (1092)
T ss_pred HHHHHHH-HHHHHHHHHHHhcCceEEEEecC---CCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHH
Confidence 4455555 66778899999999999999998 9999999999999999988844432 34456777777777888888
Q ss_pred HHhCCcceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhh
Q 015216 86 IREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRR 165 (411)
Q Consensus 86 ~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 165 (411)
+.++.++..+++.+++|| .+|+.....|+.+ .+|++.+++++.+|||++|++
T Consensus 476 ~~~~~~~~~e~r~~~~dG-~~w~~~~~~~~~d-~~G~~~~~ig~~~DITerk~~-------------------------- 527 (1092)
T PRK09776 476 LQGRSPFKLEFRIVVKDG-VRHIRALANRVLN-KDGEVERLLGINMDMTEVRQL-------------------------- 527 (1092)
T ss_pred HhcCCCeeEEEEEEcCCc-eEEEEEeeEEEEC-CCCCEEEEEeeeeehhHHHHH--------------------------
Confidence 889999999999999999 9999999999999 899999999999999999997
Q ss_pred hhhhhhhhcccccccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHH
Q 015216 166 EVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYI 245 (411)
Q Consensus 166 e~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~ 245 (411)
+..++.. ++.+..
T Consensus 528 --------------------------------e~~L~~~-----------------------------------~~~l~~ 540 (1092)
T PRK09776 528 --------------------------------NEALFQE-----------------------------------KERLHI 540 (1092)
T ss_pred --------------------------------HHHHHHH-----------------------------------HHHHHH
Confidence 2222221 223555
Q ss_pred HHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCC--chHHHHHHHHHHhhcCc--eEEEEEE
Q 015216 246 SLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT--DTTVLYQIKESIQTEQA--CTVRILN 321 (411)
Q Consensus 246 ~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~--~~~~~~~~~~~~~~~~~--~~~e~~~ 321 (411)
.+++++++++++|. +++++++|+++++++||+.++++|+++..+.+..+ .......+......... +..+...
T Consensus 541 ~l~~~~~~i~~~D~---~g~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 617 (1092)
T PRK09776 541 TLDSIGEAVVCTDM---AMKVTFMNPVAEKMTGWTQEEALGVPLLTVLHITFGDNGPLMENIYSCLTSRSAAYLEQDVVL 617 (1092)
T ss_pred HHhccccEEEEECC---CCeEEEEcHHHHHHhCCCHHHHcCCCHHHHcccccCCcchhhHHHHHHHhcCCCccccceEEE
Confidence 67889999999999 88999999999999999999999999766654322 22222234444444433 4567778
Q ss_pred EecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHH
Q 015216 322 YRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSL 384 (411)
Q Consensus 322 ~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~ 384 (411)
.+++|..+|+..+..|+.+.+|+ +.+++++++|||++|+.+++|..
T Consensus 618 ~~~~G~~~~~~~~~~pi~~~~g~-----------------~~g~v~~~~DITe~k~~e~~L~~ 663 (1092)
T PRK09776 618 HCRSGGSYDVHYSITPLSTLDGE-----------------NIGSVLVIQDVTESRKMLRQLSY 663 (1092)
T ss_pred EeCCCcEEEEEEEeeeeecCCCC-----------------EEEEEEEEEecchHHHHHHHHHh
Confidence 89999999999999999999999 99999999999999999998864
No 5
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR. This model represents the transcriptional regulator PpsR which is strictly associated with photosynthetic proteobacteria and found in photosynthetic operons. PpsR has been reported to be a repressor. These proteins contain a Helix-Turn_Helix motif of the "fis" type (pfam02954).
Probab=99.93 E-value=8e-24 Score=209.23 Aligned_cols=238 Identities=16% Similarity=0.094 Sum_probs=178.0
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
...++++.++++++++++++|.. +|+|+++|+++++++||++++++|+++..+.++++.......+......|.....
T Consensus 130 ~~e~r~~~l~e~~~~~i~~~d~~--~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~ 207 (442)
T TIGR02040 130 EMETRYRVVLEVSSDAVLLVDMS--TGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSAAPV 207 (442)
T ss_pred HHHHHHHHHHhhCCceEEEEECC--CCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCCcce
Confidence 44678999999999999999972 3999999999999999999999999988888887777667777777777765555
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhhhhhhhhhhc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLD 174 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 174 (411)
++. .++|...| .+.++++.. +|.. .+++...|||+++++
T Consensus 208 ~~~--~~~~~~~~-~~~~~~~~~--~~~~-~~l~~~~dit~~~~~----------------------------------- 246 (442)
T TIGR02040 208 RIL--LRRSQKRL-LVVVSVFRQ--DGES-LFLCQLSPAGATQPV----------------------------------- 246 (442)
T ss_pred EEE--EcCCCeEE-EEEEEEEEe--CCce-EEEEEEcccchhhhh-----------------------------------
Confidence 443 34444445 345666655 4433 577888999998875
Q ss_pred ccccccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHHHHhcccccE
Q 015216 175 LDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSF 254 (411)
Q Consensus 175 l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~i 254 (411)
+.... ..+..++++++++|
T Consensus 247 -----------------------e~~~~--------------------------------------~~~~~l~e~~~d~I 265 (442)
T TIGR02040 247 -----------------------GDELS--------------------------------------ENLARLYHEAPDAI 265 (442)
T ss_pred -----------------------hHHHH--------------------------------------HHHHHHHHhCCceE
Confidence 11000 12556678899999
Q ss_pred EEEcCCCCCCCEEEecHHHHHHhCCC-cccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEE
Q 015216 255 VLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLL 333 (411)
Q Consensus 255 ~~~d~~~~d~~i~~~N~~~~~l~G~~-~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~ 333 (411)
+++|. +|+|+++|++|++++||+ .++++|+++..+.++... .....+......+.....+..+.+++|+.+|+++
T Consensus 266 ~v~D~---~G~I~~~N~a~~~l~G~~~~~~l~G~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~ve~ 341 (442)
T TIGR02040 266 VFSDA---DGTIRGANEAFLELTDSSSLEAVRGRTLDRWLGRGGV-DLRVLLSNVRRTGQVRLYATTLTGEFGAQTEVEI 341 (442)
T ss_pred EEEcC---CCcEEehhHHHHHHhCCCChHHHcCCCHHHHhCCCcc-cHHHHHHHHhhcCceEEEEEEEEcCCCCEEEEEE
Confidence 99999 889999999999999997 578999997665543322 1222222233344445567778899999999999
Q ss_pred EeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHH
Q 015216 334 HISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDR 379 (411)
Q Consensus 334 ~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e 379 (411)
+++|+.+.++ ..++++++|||+||+.+
T Consensus 342 s~~~i~~~~~-------------------~~~~~v~rDITeR~~~~ 368 (442)
T TIGR02040 342 SAAWVDQGER-------------------PLIVLVIRDISRRLTMR 368 (442)
T ss_pred EEEEeccCCc-------------------eEEEEEEecchhhccCC
Confidence 9999986444 35788999999999874
No 6
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.91 E-value=1.4e-22 Score=215.15 Aligned_cols=245 Identities=18% Similarity=0.241 Sum_probs=195.6
Q ss_pred HHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCC----cc
Q 015216 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER----PI 92 (411)
Q Consensus 17 ~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~----~~ 92 (411)
...+..+++.++.+++++|.+ |+|+++|+++++++||++++++|+++..+.+++........+......+. .+
T Consensus 11 ~~~~~~~le~~~~~i~~~d~~---g~i~~~N~~~~~l~G~s~eeliG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (799)
T PRK11359 11 DGIFFPALEQNMMGAVLINEN---DEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNREGGKARVEGM 87 (799)
T ss_pred hhhHHHHHHhhcCcEEEEcCC---CeEEEEcHHHHHHhCCCHHHHcCCCHHHhcCccccccchHHHhhhhccCCcccccc
Confidence 345667899999999999997 99999999999999999999999998888877665544444444444432 23
Q ss_pred eeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhhhhhhhhh
Q 015216 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSL 172 (411)
Q Consensus 93 ~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 172 (411)
..+++..++||..+|+.++..|+.. +|.+ +++++.+|||++++.
T Consensus 88 ~~e~~~~~~dG~~~~v~~~~~~~~~--~g~~-~~~~~~~DiT~~~~~--------------------------------- 131 (799)
T PRK11359 88 SRELQLEKKDGSKIWTRFALSKVSA--EGKV-YYLALVRDASVEMAQ--------------------------------- 131 (799)
T ss_pred ceeeEEecCCcCEEEEEEEeeeecc--CCce-EEEEEEeeccchhhh---------------------------------
Confidence 4578889999999999999988744 5664 578899999998775
Q ss_pred hcccccccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHHHHhcccc
Q 015216 173 LDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQ 252 (411)
Q Consensus 173 ~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~ 252 (411)
....+ .+..+++.+++
T Consensus 132 -------------------------~~~~~---------------------------------------~~~~~~~~~~~ 147 (799)
T PRK11359 132 -------------------------KEQTR---------------------------------------QLIIAVDHLDR 147 (799)
T ss_pred -------------------------HHHHH---------------------------------------HHHHHHhcCCC
Confidence 11111 12234577889
Q ss_pred cEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccC-CCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEE
Q 015216 253 SFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG-VDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWN 331 (411)
Q Consensus 253 ~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 331 (411)
+++++|. +++++++|+++++++||+.++++|+++..+.+ +.+.......+...+..+..+..+++..+++|..+|+
T Consensus 148 ~i~~~d~---~g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 224 (799)
T PRK11359 148 PVIVLDP---ERRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWI 224 (799)
T ss_pred cEEEEcC---CCcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCcceeEEeCCCCCEEEE
Confidence 9999999 88999999999999999999999998766654 4444445555666666777777888889999999999
Q ss_pred EEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHH
Q 015216 332 LLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSL 384 (411)
Q Consensus 332 ~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~ 384 (411)
.++..|+.+.+|. +.+++++.+|||++|++++..+.
T Consensus 225 ~~~~~~v~d~~g~-----------------~~~~~~~~~DITerk~~e~~~~~ 260 (799)
T PRK11359 225 KASISPVYDVLAH-----------------LQNLVMTFSDITEERQIRQLEGN 260 (799)
T ss_pred EeeeeeeecCCCc-----------------eeEEEEEeehhhhHHHHHHHHHH
Confidence 9999999999999 89999999999999988765443
No 7
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=99.91 E-value=2.7e-23 Score=208.05 Aligned_cols=254 Identities=19% Similarity=0.265 Sum_probs=191.0
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEE
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (411)
++++.+++++|++++++|.+ |+++|+|+++++++||++++++|++...+.++.........+...+..+.++..++.
T Consensus 4 ~~~~~i~~~~~~~i~~~d~~---g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (494)
T TIGR02938 4 EAYRQTVDQAPLAISITDLK---ANILYANDAFTRITGYTKEEIIGKNESVLSNHTTPPEVYQALWGSLAEQKPWAGKLL 80 (494)
T ss_pred HHHHHHHHhCCceEEEECCC---CcEEEEchhheeecCCCHHHHhCCCchhhcCCCCCHHHHHHHHHHHHhCCcccceee
Confidence 57889999999999999998 999999999999999999999999877666666666666777777778888888888
Q ss_pred EEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhhhhhhhhhhcccc
Q 015216 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDR 177 (411)
Q Consensus 98 ~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~ 177 (411)
..+++|..+|+..+..|+.+ .+|.+.+++++++|||++|++
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~-~~g~~~~~~~~~~DIt~~k~~-------------------------------------- 121 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLN-EAGETTHFLGMHRDITELHRL-------------------------------------- 121 (494)
T ss_pred ccCCCccchhhheeeEEEEC-CCCCEEEEEEehhhhhHHHHH--------------------------------------
Confidence 88999999999999999999 899999999999999999986
Q ss_pred cccccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHHHHhcccccEEEE
Q 015216 178 VLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLI 257 (411)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~i~~~ 257 (411)
+..++.. ...+..++++++++++++
T Consensus 122 --------------------e~~l~~~-----------------------------------~~~~~~~~~~~~~~i~~~ 146 (494)
T TIGR02938 122 --------------------EQVVANQ-----------------------------------KLLIESVVDAAPVAFVLL 146 (494)
T ss_pred --------------------HHHHHHH-----------------------------------HHHHHHHHhcccceEEEE
Confidence 2111111 123556678899999999
Q ss_pred cCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCce-EEEEEEEecCCC-EEEEEEEe
Q 015216 258 DPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRILNYRKDKS-SFWNLLHI 335 (411)
Q Consensus 258 d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~~~dG~-~~~~~~~~ 335 (411)
|. ++.++++|++|++++|+...+..+..+..+.++..... +......+..+ ..+......+|. .+|+....
T Consensus 147 d~---~~~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (494)
T TIGR02938 147 DP---TGRVILDNQEYKKLATDLRVKEPAHTVLDLLREAWREA----LAENWPQQLAFSNREARFDRGGGRPARWLSCTG 219 (494)
T ss_pred cC---CCCEEEechhHHHhhchhhhhHHHHHHHHHhhHHhhhh----hhhcchhhhccccceeeeccCCCceeeEEEecC
Confidence 99 88999999999999999887776665544444332222 11111112222 223444455555 79999999
Q ss_pred eEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHH
Q 015216 336 SPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLS 383 (411)
Q Consensus 336 ~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~ 383 (411)
.|+.+..|.. .-.+++....+++++++|||++|++|++++
T Consensus 220 ~~~~~~~~~~--------~~~~~~~~~~~~~~~~~DITe~k~~ee~l~ 259 (494)
T TIGR02938 220 SVIGMESDCA--------DSFFCAAEQPYLLLTIADISNLREEQERAR 259 (494)
T ss_pred ceEEeecchh--------hheeccCCCchheehHHHHHHHHHHHHHHH
Confidence 9988777650 011122223456778899999999887765
No 8
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR. This model represents the transcriptional regulator PpsR which is strictly associated with photosynthetic proteobacteria and found in photosynthetic operons. PpsR has been reported to be a repressor. These proteins contain a Helix-Turn_Helix motif of the "fis" type (pfam02954).
Probab=99.89 E-value=4e-22 Score=197.16 Aligned_cols=250 Identities=17% Similarity=0.134 Sum_probs=181.9
Q ss_pred HHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCC-cceeeEEEEcc
Q 015216 23 ALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-PIEVNLLNYKK 101 (411)
Q Consensus 23 l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~~ 101 (411)
++++++++++++|.+ |+|+++|.++..++||+.++++|+++.++++|++.......+......+. .+..+.+..++
T Consensus 1 ~~~~~~d~~~~~d~~---g~i~~~n~~~~~~~g~~~~el~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 77 (442)
T TIGR02040 1 LLATAADVTLLLDAE---GVVREVAANPHHPSFEQLSEWEGRRWEEIVTAESVEKFELRLSEALRTGRGAVRVELNHIDP 77 (442)
T ss_pred CCcccCcEEEEECCC---CcEEEEEECCCcccccccccCCCCcHhHhhCcchHHHHHHHHHHHhccCCCcceEeeccCCC
Confidence 367899999999998 99999999999999999999999999999888776665555656666554 45556666677
Q ss_pred CCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhhhhhhhhhhcccccccc
Q 015216 102 DGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLAL 181 (411)
Q Consensus 102 dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~ 181 (411)
+|..+|+.++..|+.+ + .+++++.+|||+++..
T Consensus 78 ~g~~~~~~~~~~~~~~---~--~~~~~i~rDi~~~~~~------------------------------------------ 110 (442)
T TIGR02040 78 SSFELPMRFILVRLGA---D--RGVLALGRDLRAVAEL------------------------------------------ 110 (442)
T ss_pred CCCccCeEEEEEEeCC---C--CeEEEEecccHHHHHH------------------------------------------
Confidence 7778888877777644 2 2678899999998874
Q ss_pred cCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHHHHhcccccEEEEcCCC
Q 015216 182 DSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPHL 261 (411)
Q Consensus 182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~i~~~d~~~ 261 (411)
..++.......+.- ...++..++.+..+++.++++++++|..
T Consensus 111 ----------------~~~l~~~~~~~e~~---------------------~~~l~~~e~r~~~l~e~~~~~i~~~d~~- 152 (442)
T TIGR02040 111 ----------------QQQLVAAQQAMERD---------------------YWTLREMETRYRVVLEVSSDAVLLVDMS- 152 (442)
T ss_pred ----------------HHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHHhhCCceEEEEECC-
Confidence 11110011100000 0123345567888899999999999972
Q ss_pred CCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEcC
Q 015216 262 PDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNA 341 (411)
Q Consensus 262 ~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~~ 341 (411)
+|+++++|+++++++||++++++|+++..++++++.......+......+.....++. .++|...| .+..+++..
T Consensus 153 -~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~~--~~~~~~~~-~~~~~~~~~- 227 (442)
T TIGR02040 153 -TGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSAAPVRIL--LRRSQKRL-LVVVSVFRQ- 227 (442)
T ss_pred -CCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCCcceEEE--EcCCCeEE-EEEEEEEEe-
Confidence 5799999999999999999999999988888888777777777776666665544444 44555555 345666653
Q ss_pred CCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHH
Q 015216 342 SGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLS 383 (411)
Q Consensus 342 ~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~ 383 (411)
+|. ..+++.+.|||++++.+.+++
T Consensus 228 ~~~------------------~~~l~~~~dit~~~~~e~~~~ 251 (442)
T TIGR02040 228 DGE------------------SLFLCQLSPAGATQPVGDELS 251 (442)
T ss_pred CCc------------------eEEEEEEcccchhhhhhHHHH
Confidence 444 356778899999998877654
No 9
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=99.75 E-value=1.9e-17 Score=129.07 Aligned_cols=104 Identities=27% Similarity=0.431 Sum_probs=96.2
Q ss_pred CCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCCeEE
Q 015216 28 PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFW 107 (411)
Q Consensus 28 ~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 107 (411)
|++++++|.+ |+|+++|+++++++||++++++|+++.+++++.........+.+++.++..+..+..+.+++|..+|
T Consensus 1 p~~i~i~d~~---g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~~~~ 77 (104)
T PF13426_consen 1 PDGIFILDPD---GRILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIERALEEGGSWSGEVRLRRKDGETFW 77 (104)
T ss_dssp -SEEEEEETT---SBEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHHHHHHTSSEEEEEEEEETTSEEEE
T ss_pred CEEEEEECCc---CcEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHHHHhcCCceeEEEEEEcCCCCEEE
Confidence 7899999998 9999999999999999999999999999988888888889999999999999999999999999999
Q ss_pred EEEEEEEeeecCCCeEEEEEEEeecccc
Q 015216 108 MLFKMSLVFGKEDGRATHFVAVQVPIVS 135 (411)
Q Consensus 108 ~~~~~~pi~~~~~g~~~~~~~~~~DITe 135 (411)
+.++++|+.+ ++|++.+++++++|||+
T Consensus 78 ~~~~~~~i~~-~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 78 VEVSASPIRD-EDGEITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEEEEEE-TTSSEEEEEEEEEEEHH
T ss_pred EEEEEEEEEC-CCCCEEEEEEEEEECCC
Confidence 9999999999 89999999999999996
No 10
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=99.74 E-value=5.8e-17 Score=126.34 Aligned_cols=104 Identities=24% Similarity=0.431 Sum_probs=96.4
Q ss_pred cccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEE
Q 015216 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (411)
Q Consensus 251 ~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 330 (411)
|++++++|. +|.|+++|++|++++||++++++|+++..++++.........+.+.+..+..+..++.+++++|+.+|
T Consensus 1 p~~i~i~d~---~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~~~~ 77 (104)
T PF13426_consen 1 PDGIFILDP---DGRILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIERALEEGGSWSGEVRLRRKDGETFW 77 (104)
T ss_dssp -SEEEEEET---TSBEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHHHHHHTSSEEEEEEEEETTSEEEE
T ss_pred CEEEEEECC---cCcEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHHHHhcCCceeEEEEEEcCCCCEEE
Confidence 689999999 89999999999999999999999999999998888888889999999999999999999999999999
Q ss_pred EEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhh
Q 015216 331 NLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGC 374 (411)
Q Consensus 331 ~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~ 374 (411)
+.++++|+.+++|+ +.+++++++|||+
T Consensus 78 ~~~~~~~i~~~~g~-----------------~~~~i~~~~DiTe 104 (104)
T PF13426_consen 78 VEVSASPIRDEDGE-----------------ITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEEEEEETTSS-----------------EEEEEEEEEEEHH
T ss_pred EEEEEEEEECCCCC-----------------EEEEEEEEEECCC
Confidence 99999999999999 9999999999996
No 11
>PF08448 PAS_4: PAS fold; InterPro: IPR013656 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; PDB: 3K3D_A 3K3C_B 3KX0_X 3FC7_B 3LUQ_D 3MXQ_A 3BWL_C 3FG8_A.
Probab=99.69 E-value=2.4e-16 Score=124.28 Aligned_cols=110 Identities=26% Similarity=0.452 Sum_probs=100.1
Q ss_pred HhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCC
Q 015216 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDG 103 (411)
Q Consensus 24 ~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 103 (411)
|+++|++++++|.+ |+|+++|+++.+++|++.++++|+++.+++++.........+.+++.++.+...+..... +|
T Consensus 1 l~~~p~~i~v~D~~---~~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ 76 (110)
T PF08448_consen 1 LDSSPDGIFVIDPD---GRIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRRALAGGEPVFFEEILLR-DG 76 (110)
T ss_dssp HHHCSSEEEEEETT---SBEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHHHHHHTSEEEEEEEECT-TS
T ss_pred CCCCCceeEEECCC---CEEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHHhhccCceEEEEEEEee-cC
Confidence 68999999999998 999999999999999999999999999888888888888899999999888776665545 99
Q ss_pred CeEEEEEEEEEeeecCCCeEEEEEEEeeccccccc
Q 015216 104 TPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (411)
Q Consensus 104 ~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~ 138 (411)
..+|+.+++.|+++ .+|++.|++++++|||++|+
T Consensus 77 ~~~~~~~~~~Pi~~-~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 77 EERWFEVSISPIFD-EDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp CEEEEEEEEEEEEC-TTTCEEEEEEEEEEECCHHH
T ss_pred CcEEEEEEEEEeEc-CCCCEEEEEEEEEECchhhC
Confidence 99999999999999 89999999999999999985
No 12
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain []. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs []. In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand []. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=99.68 E-value=9.7e-16 Score=121.39 Aligned_cols=112 Identities=23% Similarity=0.366 Sum_probs=97.0
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcce-eeE
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE-VNL 96 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~e~ 96 (411)
++++.+++++|++++++|.+ |+|+|+|+++++++||+.++++|+++.++.++++.......+.+.+..+.... .+.
T Consensus 1 e~~~~i~~~~~~~i~~~d~~---g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (113)
T PF00989_consen 1 ERYRAILENSPDGIFVIDED---GRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESGESFEV 77 (113)
T ss_dssp HHHHHHHHCSSSEEEEEETT---SBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHECEEEE
T ss_pred CHHHHHHhcCCceEEEEeCc---CeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCceeEEE
Confidence 47899999999999999987 99999999999999999999999999999888776667777888887776543 444
Q ss_pred EEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecc
Q 015216 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (411)
Q Consensus 97 ~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DI 133 (411)
....++|..+|+.++.+|+.+ .+|++.|++++++||
T Consensus 78 ~~~~~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 78 RFRLRDGRPRWVEVRASPVRD-EDGQIIGILVIFRDI 113 (113)
T ss_dssp EEEETTSCEEEEEEEEEEEEE-TTEEEEEEEEEEEE-
T ss_pred EEEecCCcEEEEEEEEEEEEe-CCCCEEEEEEEEEeC
Confidence 445579999999999999999 899999999999997
No 13
>PF08448 PAS_4: PAS fold; InterPro: IPR013656 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; PDB: 3K3D_A 3K3C_B 3KX0_X 3FC7_B 3LUQ_D 3MXQ_A 3BWL_C 3FG8_A.
Probab=99.64 E-value=2.6e-15 Score=118.28 Aligned_cols=110 Identities=21% Similarity=0.302 Sum_probs=99.8
Q ss_pred HhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCC
Q 015216 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDK 326 (411)
Q Consensus 247 l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 326 (411)
|+++|++++++|. +++|+++|+++.+++|++.++++|+++.+++++...+.....+.+++.++.....+..... +|
T Consensus 1 l~~~p~~i~v~D~---~~~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ 76 (110)
T PF08448_consen 1 LDSSPDGIFVIDP---DGRIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRRALAGGEPVFFEEILLR-DG 76 (110)
T ss_dssp HHHCSSEEEEEET---TSBEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHHHHHHTSEEEEEEEECT-TS
T ss_pred CCCCCceeEEECC---CCEEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHHhhccCceEEEEEEEee-cC
Confidence 4679999999999 8999999999999999999999999999988888888888899999998888776666554 99
Q ss_pred CEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhH
Q 015216 327 SSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQ 377 (411)
Q Consensus 327 ~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~ 377 (411)
..+|+.++..|+++.+|+ +.+++++++|||++|+
T Consensus 77 ~~~~~~~~~~Pi~~~~g~-----------------~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 77 EERWFEVSISPIFDEDGE-----------------VVGVLVIIRDITERRR 110 (110)
T ss_dssp CEEEEEEEEEEEECTTTC-----------------EEEEEEEEEEECCHHH
T ss_pred CcEEEEEEEEEeEcCCCC-----------------EEEEEEEEEECchhhC
Confidence 999999999999999999 9999999999999985
No 14
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain []. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs []. In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand []. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=99.59 E-value=2e-14 Score=113.81 Aligned_cols=112 Identities=18% Similarity=0.309 Sum_probs=95.9
Q ss_pred hHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCce-EEEE
Q 015216 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRI 319 (411)
Q Consensus 241 ~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~ 319 (411)
+.++.++++++++++++|. +|.|+++|+++++++||++++++|+++..++++++.......+.+.+..+... ..+.
T Consensus 1 e~~~~i~~~~~~~i~~~d~---~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (113)
T PF00989_consen 1 ERYRAILENSPDGIFVIDE---DGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESGESFEV 77 (113)
T ss_dssp HHHHHHHHCSSSEEEEEET---TSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHECEEEE
T ss_pred CHHHHHHhcCCceEEEEeC---cCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCceeEEE
Confidence 3578899999999999998 89999999999999999999999999999988887666777777777766654 4455
Q ss_pred EEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeech
Q 015216 320 LNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEE 372 (411)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DI 372 (411)
....++|+.+|+.++.+|+.+.+|+ +.+++++++||
T Consensus 78 ~~~~~~g~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~DI 113 (113)
T PF00989_consen 78 RFRLRDGRPRWVEVRASPVRDEDGQ-----------------IIGILVIFRDI 113 (113)
T ss_dssp EEEETTSCEEEEEEEEEEEEETTEE-----------------EEEEEEEEEE-
T ss_pred EEEecCCcEEEEEEEEEEEEeCCCC-----------------EEEEEEEEEeC
Confidence 5555799999999999999999999 88999999997
No 15
>PRK13559 hypothetical protein; Provisional
Probab=99.56 E-value=9.8e-14 Score=133.66 Aligned_cols=131 Identities=37% Similarity=0.679 Sum_probs=113.1
Q ss_pred hhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEE
Q 015216 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (411)
Q Consensus 240 ~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (411)
...+..++++++++++++|..++++.++++|++|++++||+.++++|+++..+.++...+.....+...+..+..+..+.
T Consensus 42 ~~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 121 (361)
T PRK13559 42 GRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREIVVEL 121 (361)
T ss_pred hhHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCceEEEE
Confidence 34577789999999999998655778999999999999999999999998877777666666677777888888888888
Q ss_pred EEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHH
Q 015216 320 LNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMR 387 (411)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~ 387 (411)
..++++|..+|+.++..|+++.+|. +.+++++++|||++|++++.++...+
T Consensus 122 ~~~~~dG~~~~~~~~~~~i~d~~G~-----------------~~~~v~~~~DITerk~~e~~~~~~~~ 172 (361)
T PRK13559 122 LNYRKDGEPFWNALHLGPVYGEDGR-----------------LLYFFGSQWDVTDIRAVRALEAHERR 172 (361)
T ss_pred EEEcCCCCEEEEEEEEEEEEcCCCC-----------------EEEeeeeeeehhcchhhHHHHHHHHH
Confidence 8899999999999999999999999 89999999999999988766554433
No 16
>PRK13557 histidine kinase; Provisional
Probab=99.55 E-value=1.7e-13 Score=139.05 Aligned_cols=130 Identities=35% Similarity=0.733 Sum_probs=116.8
Q ss_pred hhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEE
Q 015216 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (411)
Q Consensus 240 ~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (411)
...|..+++.++++++++|..+.+++|+|+|++|++++||+.++++|+++..+.+|++.......+...+..+..+..++
T Consensus 29 ~~~~~~~~~~~~~~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~ 108 (540)
T PRK13557 29 SDIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVRDAIAERREIATEI 108 (540)
T ss_pred hHHHHHHHHhCcCcEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHHHHHHHcCCCceEEE
Confidence 45688889999999999997655889999999999999999999999999988888887777788888888888888888
Q ss_pred EEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHH
Q 015216 320 LNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEM 386 (411)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~ 386 (411)
+.++++|+.+|+.++..|+.+.+|. +.+++++.+|||+++++++++..+.
T Consensus 109 ~~~~~~G~~~~~~~~~~~i~~~~g~-----------------~~~~~~~~~dit~~~~~e~~l~~~~ 158 (540)
T PRK13557 109 LNYRKDGSSFWNALFVSPVYNDAGD-----------------LVYFFGSQLDVSRRRDAEDALRQAQ 158 (540)
T ss_pred EEEeCCCCEEEEEEEEEEeECCCCC-----------------EEEEEEEecChHHHHHHHHHHHHHH
Confidence 8899999999999999999999999 9999999999999999988876543
No 17
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.53 E-value=6.8e-14 Score=148.20 Aligned_cols=144 Identities=14% Similarity=0.034 Sum_probs=125.7
Q ss_pred ccCCcchhhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHH
Q 015216 230 RCSLPGMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESI 309 (411)
Q Consensus 230 ~~~~~~l~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~ 309 (411)
+..+..++..++.+..+++++|++++++|. +|+++++|+++++++||+.++++|+++.++++++............+
T Consensus 144 ~~~~~~l~~~~~~l~~il~~~~~~i~~~D~---~g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~~~~~ 220 (779)
T PRK11091 144 EETQIELEQQSSLLRSFLDASPDLVYYRNE---DGEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETDEKVF 220 (779)
T ss_pred HHHHHHHHHHHHHHHHHHhcCcceEEEECC---CCcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHHHHHH
Confidence 334456667778899999999999999999 88999999999999999999999999988888776666666667777
Q ss_pred hhcCceEEEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHH
Q 015216 310 QTEQACTVRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQL 389 (411)
Q Consensus 310 ~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l 389 (411)
..+..+..+....+++|..+|+.++..|+.+.+|. +.+++++++|||++|+++++++++.+..
T Consensus 221 ~~~~~~~~e~~~~~~~G~~~~~~~~~~pi~~~~g~-----------------~~g~v~~~~DITe~k~~e~~l~~a~~~~ 283 (779)
T PRK11091 221 RHNVSLTYEQWLDYPDGRKACFELRKVPFYDRVGK-----------------RHGLMGFGRDITERKRYQDALEKASRDK 283 (779)
T ss_pred hcCCCeEEEEEEEcCCCCEEEEEEEeeeEEcCCCC-----------------EEEEEEEEeehhHHHHHHHHHHHHHHHH
Confidence 78888888999999999999999999999999999 8999999999999999999998876655
Q ss_pred HHhh
Q 015216 390 SAIG 393 (411)
Q Consensus 390 ~~~~ 393 (411)
..+.
T Consensus 284 ~~~~ 287 (779)
T PRK11091 284 TTFI 287 (779)
T ss_pred HHHH
Confidence 4443
No 18
>PRK13559 hypothetical protein; Provisional
Probab=99.51 E-value=5.2e-13 Score=128.65 Aligned_cols=123 Identities=37% Similarity=0.676 Sum_probs=109.1
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceee
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVN 95 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 95 (411)
....+..++++++++++++|.+.++|.|+++|+++++++||+.++++|+++..+.++.........+...+..+..+..+
T Consensus 41 ~~~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 120 (361)
T PRK13559 41 SGRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREIVVE 120 (361)
T ss_pred hhhHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCceEEE
Confidence 45678889999999999999854458899999999999999999999999887776666666667777888888888888
Q ss_pred EEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 96 LLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 96 ~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
....++||..+|+.++..|+++ .+|.+.+++++++|||++|++
T Consensus 121 ~~~~~~dG~~~~~~~~~~~i~d-~~G~~~~~v~~~~DITerk~~ 163 (361)
T PRK13559 121 LLNYRKDGEPFWNALHLGPVYG-EDGRLLYFFGSQWDVTDIRAV 163 (361)
T ss_pred EEEEcCCCCEEEEEEEEEEEEc-CCCCEEEeeeeeeehhcchhh
Confidence 8889999999999999999999 899999999999999999986
No 19
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.51 E-value=2.5e-13 Score=143.99 Aligned_cols=122 Identities=15% Similarity=0.193 Sum_probs=110.9
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
+..++++.+++++|++|+++|.+ |+|+++|+++++++||+.++++|+++.++++++............+..+.++..
T Consensus 152 ~~~~~l~~il~~~~~~i~~~D~~---g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 228 (779)
T PRK11091 152 QQSSLLRSFLDASPDLVYYRNED---GEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETDEKVFRHNVSLTY 228 (779)
T ss_pred HHHHHHHHHHhcCcceEEEECCC---CcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHHHHHHhcCCCeEE
Confidence 45567899999999999999998 999999999999999999999999988888877666666677777888888889
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccch
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~ 140 (411)
+.....++|..+|+.++..|+++ .+|.+.|++++++|||++|+++
T Consensus 229 e~~~~~~~G~~~~~~~~~~pi~~-~~g~~~g~v~~~~DITe~k~~e 273 (779)
T PRK11091 229 EQWLDYPDGRKACFELRKVPFYD-RVGKRHGLMGFGRDITERKRYQ 273 (779)
T ss_pred EEEEEcCCCCEEEEEEEeeeEEc-CCCCEEEEEEEEeehhHHHHHH
Confidence 99999999999999999999999 8999999999999999999973
No 20
>PRK13557 histidine kinase; Provisional
Probab=99.46 E-value=6.6e-13 Score=134.70 Aligned_cols=126 Identities=37% Similarity=0.691 Sum_probs=113.5
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
....+|..++++++++|+++|.+..||+|+|+|++|++++||+.++++|+++..+.+|+........++..+..+..+..
T Consensus 27 ~~~~~~~~~~~~~~~~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 106 (540)
T PRK13557 27 HRSDIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVRDAIAERREIAT 106 (540)
T ss_pred hhhHHHHHHHHhCcCcEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHHHHHHHcCCCceE
Confidence 45678999999999999999975446999999999999999999999999998888887777777888888888888888
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchh
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRN 141 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~ 141 (411)
+++..+++|..+|+..+..|+.+ .+|.+.+++++.+|||+++++++
T Consensus 107 ~~~~~~~~G~~~~~~~~~~~i~~-~~g~~~~~~~~~~dit~~~~~e~ 152 (540)
T PRK13557 107 EILNYRKDGSSFWNALFVSPVYN-DAGDLVYFFGSQLDVSRRRDAED 152 (540)
T ss_pred EEEEEeCCCCEEEEEEEEEEeEC-CCCCEEEEEEEecChHHHHHHHH
Confidence 88888999999999999999999 89999999999999999998744
No 21
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.46 E-value=1.9e-12 Score=134.75 Aligned_cols=133 Identities=36% Similarity=0.691 Sum_probs=117.8
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEE
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (411)
+..+++.++.++++.|...+++.++|+|+++++++||++++++|+++..+.++.........+...+..+..+..+++.+
T Consensus 150 ~~~~~~~~~~gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 229 (665)
T PRK13558 150 KERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERPTSVELRNY 229 (665)
T ss_pred HHHHHhcCCccEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHHHHHHHHhcCCCeEEEEEEE
Confidence 35678899999999986544789999999999999999999999998888877777666677777788888889999999
Q ss_pred ecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHh
Q 015216 323 RKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 392 (411)
Q Consensus 323 ~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 392 (411)
+++|..+|+.++..|+.+.+|. +.+++++.+|||++|+.|++|+..++.++.+
T Consensus 230 ~~dG~~~~~~~~~~pi~d~~G~-----------------~~~~vgi~~DITerk~~E~~L~~~~~~L~~l 282 (665)
T PRK13558 230 RKDGSTFWNQVDIAPIRDEDGT-----------------VTHYVGFQTDVTERKEAELALQRERRKLQRL 282 (665)
T ss_pred CCCCCEEEEEEEEEEEECCCCC-----------------EEEEEEEEEeCcHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999 9999999999999999999999887777654
No 22
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=99.43 E-value=7.8e-13 Score=132.39 Aligned_cols=133 Identities=20% Similarity=0.353 Sum_probs=116.9
Q ss_pred hHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEE
Q 015216 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (411)
Q Consensus 241 ~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (411)
+.++.+++.+++++++.|. +++++++|+++++++||++++++|++...+.++.........+.+.+..+.++..++.
T Consensus 4 ~~~~~i~~~~~~~i~~~d~---~g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (494)
T TIGR02938 4 EAYRQTVDQAPLAISITDL---KANILYANDAFTRITGYTKEEIIGKNESVLSNHTTPPEVYQALWGSLAEQKPWAGKLL 80 (494)
T ss_pred HHHHHHHHhCCceEEEECC---CCcEEEEchhheeecCCCHHHHhCCCchhhcCCCCCHHHHHHHHHHHHhCCcccceee
Confidence 4578889999999999999 8899999999999999999999999877666666666666667777777888888888
Q ss_pred EEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHhh
Q 015216 321 NYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIG 393 (411)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~ 393 (411)
.++++|..+|+.....|+.+.+|. +.+++++++|||++|+++++|+.+...++.+.
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~~~g~-----------------~~~~~~~~~DIt~~k~~e~~l~~~~~~~~~~~ 136 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLNEAGE-----------------TTHFLGMHRDITELHRLEQVVANQKLLIESVV 136 (494)
T ss_pred ccCCCccchhhheeeEEEECCCCC-----------------EEEEEEehhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 889999999999999999999999 89999999999999999999998877777654
No 23
>PRK10060 RNase II stability modulator; Provisional
Probab=99.40 E-value=5.1e-12 Score=130.98 Aligned_cols=122 Identities=13% Similarity=0.133 Sum_probs=97.7
Q ss_pred HHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCcccccc-CCCCchHHHHHHHHHHhhcCceEEEEEEE
Q 015216 244 YISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN-GVDTDTTVLYQIKESIQTEQACTVRILNY 322 (411)
Q Consensus 244 ~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (411)
..+++.++++|+++|. +|+|+++|+++++++||+.++++|+++..++ ++.+.......+...+..+..+.++.+..
T Consensus 114 ~~v~~~~~~gI~i~D~---~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 190 (663)
T PRK10060 114 EQVVSEANSVIVILDS---RGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYEVERWIK 190 (663)
T ss_pred HHHHhhCCceEEEEeC---CCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceEEEEEEE
Confidence 3456788999999999 8899999999999999999999999976554 45544455556667777888899999999
Q ss_pred ecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHH
Q 015216 323 RKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLE 385 (411)
Q Consensus 323 ~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~ 385 (411)
+++|..+|+.... ++.+..|.. ..+++++.+|||++|+.+++|+..
T Consensus 191 ~~~G~~~~~~~~~-~~~~~~g~~----------------~~~~i~~~~DITe~k~~e~~l~~~ 236 (663)
T PRK10060 191 TRKGQRLFLFRNK-FVHSGSGKN----------------EIFLICSGTDITEERRAQERLRIL 236 (663)
T ss_pred eCCCCEEEEEeee-EEEcCCCCc----------------eEEEEEEEEechHHHHHHHHHHHH
Confidence 9999999986554 445545540 356888999999999999988763
No 24
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.37 E-value=1.2e-11 Score=128.72 Aligned_cols=120 Identities=40% Similarity=0.743 Sum_probs=107.5
Q ss_pred HHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEE
Q 015216 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (411)
Q Consensus 19 ~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 98 (411)
.++.+++.+|.++++.|...++|.++|+|+++.+++||++++++|+++..+.++.........+...+..+.++..+++.
T Consensus 149 ~~~~~~~~~~~gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 228 (665)
T PRK13558 149 LKERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERPTSVELRN 228 (665)
T ss_pred HHHHHHhcCCccEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHHHHHHHHhcCCCeEEEEEE
Confidence 45779999999999998643459999999999999999999999999888877776666667777888888888999999
Q ss_pred EccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 99 ~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
++++|..+|+.++..|+.+ .+|.+.+++++.+|||++|++
T Consensus 229 ~~~dG~~~~~~~~~~pi~d-~~G~~~~~vgi~~DITerk~~ 268 (665)
T PRK13558 229 YRKDGSTFWNQVDIAPIRD-EDGTVTHYVGFQTDVTERKEA 268 (665)
T ss_pred ECCCCCEEEEEEEEEEEEC-CCCCEEEEEEEEEeCcHHHHH
Confidence 9999999999999999999 899999999999999999997
No 25
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=99.35 E-value=6.7e-12 Score=95.41 Aligned_cols=86 Identities=24% Similarity=0.325 Sum_probs=74.1
Q ss_pred EEEecHHHHHHhCCCcccccCCc----cccccCCCCchHHHHHHHH-HHhhcCceEEEEEEEecCCCEEEEEEEeeEEEc
Q 015216 266 MVYASDAFLKLTGYDRNEVVGQN----CRFLNGVDTDTTVLYQIKE-SIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (411)
Q Consensus 266 i~~~N~~~~~l~G~~~~e~~g~~----~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~ 340 (411)
|+|+|+.+++++||+++++ +.. +..++||++...+...+.. ....+..+..++++++++|+++|+...+.+++|
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~~G~~~wi~~~~~~~~d 79 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIRRKDGEYRWIEVRGRPIFD 79 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEEGTTSTEEEEEEEEEEEET
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEECCCCCEEEEEEEEEEEEC
Confidence 5899999999999999999 766 7888999999999999999 677888999999999999999999999999999
Q ss_pred CCCCcccccccCccccccccceeEEEEEe
Q 015216 341 ASGKQLASTFNSTSFTICPVEIAYFAAVH 369 (411)
Q Consensus 341 ~~g~~~~~~~~~~~~~~~~~~i~~~~~~~ 369 (411)
++|+ +..++|++
T Consensus 80 ~~g~-----------------~~~~~Gv~ 91 (91)
T PF08447_consen 80 ENGK-----------------PIRIIGVI 91 (91)
T ss_dssp TTS------------------EEEEEEEE
T ss_pred CCCC-----------------EEEEEEEC
Confidence 9999 88888874
No 26
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=99.30 E-value=1.2e-11 Score=94.05 Aligned_cols=86 Identities=26% Similarity=0.464 Sum_probs=73.8
Q ss_pred EEEecHHHHHHhCCchhhhccCC----CCCCCCCccchhHHHHHHH-HHHhCCcceeeEEEEccCCCeEEEEEEEEEeee
Q 015216 43 IVFASRGFLKMSGFSRAEIIGRN----GRMFQGPRTNRRTIMEIRE-AIREERPIEVNLLNYKKDGTPFWMLFKMSLVFG 117 (411)
Q Consensus 43 i~~~N~~~~~l~G~~~eeliG~~----~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~ 117 (411)
|+|+|+.+.+++||+++++ +.. +..+.+|++...+...+.. ....+.++..+++++++||..+|++.++.++++
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~~G~~~wi~~~~~~~~d 79 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIRRKDGEYRWIEVRGRPIFD 79 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEEGTTSTEEEEEEEEEEEET
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEECCCCCEEEEEEEEEEEEC
Confidence 6899999999999999999 666 6778899999999999999 777888999999999999999999999999999
Q ss_pred cCCCeEEEEEEEe
Q 015216 118 KEDGRATHFVAVQ 130 (411)
Q Consensus 118 ~~~g~~~~~~~~~ 130 (411)
++|.+.+++|+.
T Consensus 80 -~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 80 -ENGKPIRIIGVI 91 (91)
T ss_dssp -TTS-EEEEEEEE
T ss_pred -CCCCEEEEEEEC
Confidence 899999999874
No 27
>TIGR00229 sensory_box PAS domain S-box. The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator.
Probab=99.29 E-value=5.7e-11 Score=91.94 Aligned_cols=120 Identities=22% Similarity=0.318 Sum_probs=96.7
Q ss_pred hHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhc-CceEEEE
Q 015216 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE-QACTVRI 319 (411)
Q Consensus 241 ~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~e~ 319 (411)
..+..+++.++.+++++|. ++.++++|+++.+++|++..+++|.++..+.++.........+...+..+ .....+.
T Consensus 3 ~~~~~~~~~~~~~~~~~d~---~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDL---EGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCceEEEEcC---CCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 3466778899999999999 88999999999999999999999998877777666655555555555533 2334455
Q ss_pred EEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHH
Q 015216 320 LNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHG 381 (411)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~ 381 (411)
.+..++|..+|+.....|+. .+|. ..+++++..|||++++.+++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~-~~~~-----------------~~~~~~~~~dit~~~~~~~~ 123 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIR-TNGG-----------------ELGVVGIVRDITERKQAEEA 123 (124)
T ss_pred eeEcCCCCEEEEEEEEeehh-hCCC-----------------eeEEEEEeeehhHHHHHHhc
Confidence 55688999999999999998 7788 78999999999999887654
No 28
>TIGR00229 sensory_box PAS domain S-box. The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator.
Probab=99.26 E-value=9.2e-11 Score=90.75 Aligned_cols=117 Identities=21% Similarity=0.349 Sum_probs=95.3
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhC-CcceeeE
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIEVNL 96 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~e~ 96 (411)
+.++.+++.++.+++++|.+ +.++++|+++.+++|++..+++|+++..+.++.........+...+..+ .....+.
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~---~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLE---GNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCceEEEEcCC---CcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 46778999999999999998 9999999999999999999999998877777666555555555655533 2344455
Q ss_pred EEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 97 ~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
.+..++|..+|+.....|+.. +|...+++++..|||+++++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~dit~~~~~ 120 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIRT--NGGELGVVGIVRDITERKQA 120 (124)
T ss_pred eeEcCCCCEEEEEEEEeehhh--CCCeeEEEEEeeehhHHHHH
Confidence 556889999999999998863 67888999999999999876
No 29
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=99.26 E-value=1e-10 Score=113.76 Aligned_cols=105 Identities=19% Similarity=0.211 Sum_probs=89.1
Q ss_pred EEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEE
Q 015216 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLL 333 (411)
Q Consensus 254 i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~ 333 (411)
++++.-.. |++|+||.+.+.+++||.++|++|+.+++++|+.|...+.......+..|...++.+|+..|+|.+.|+..
T Consensus 275 ~FvtRhs~-DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~lak~GGyvWlQT 353 (768)
T KOG3558|consen 275 MFVTRHSL-DMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVVTGYYRLLAKNGGYVWLQT 353 (768)
T ss_pred eeEEeeec-ceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhcCccchhHHHHHHhcCCeEEEEe
Confidence 44444333 88999999999999999999999999999999999999988899999999999999999999999999999
Q ss_pred EeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhh
Q 015216 334 HISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCR 375 (411)
Q Consensus 334 ~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~ 375 (411)
.++.|.+..+-| -..+++|..=|+..
T Consensus 354 qATVi~~tkn~q----------------~q~IicVnYVlS~~ 379 (768)
T KOG3558|consen 354 QATVIYNTKNPQ----------------EQNIICVNYVLSNI 379 (768)
T ss_pred eeEEEecCCCCC----------------cceEEEEEeeeccc
Confidence 999998754331 45667766656554
No 30
>PRK10060 RNase II stability modulator; Provisional
Probab=99.25 E-value=1.2e-10 Score=120.90 Aligned_cols=119 Identities=15% Similarity=0.216 Sum_probs=96.8
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCC-CCccchhHHHHHHHHHHhCCccee
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQ-GPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
...+++.+++.++++|+++|.+ |+|+++|+++++++||+.++++|+++..++ ++.+.......+...+..+..+..
T Consensus 109 ~~~~~~~v~~~~~~gI~i~D~~---g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (663)
T PRK10060 109 GLSFAEQVVSEANSVIVILDSR---GNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYEV 185 (663)
T ss_pred HHHHHHHHHhhCCceEEEEeCC---CCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceEE
Confidence 4457788999999999999998 999999999999999999999999976554 444445555667777888888999
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCe-EEEEEEEeecccccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGR-ATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~-~~~~~~~~~DITe~k~~ 139 (411)
+.+..+++|..+|+... .++.+ .+|. ..+++++.+|||++|++
T Consensus 186 e~~~~~~~G~~~~~~~~-~~~~~-~~g~~~~~~i~~~~DITe~k~~ 229 (663)
T PRK10060 186 ERWIKTRKGQRLFLFRN-KFVHS-GSGKNEIFLICSGTDITEERRA 229 (663)
T ss_pred EEEEEeCCCCEEEEEee-eEEEc-CCCCceEEEEEEEEechHHHHH
Confidence 99999999999887654 44444 3554 45688899999999986
No 31
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=99.23 E-value=2.3e-10 Score=110.07 Aligned_cols=234 Identities=18% Similarity=0.193 Sum_probs=165.4
Q ss_pred HHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEc
Q 015216 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYK 100 (411)
Q Consensus 21 ~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 100 (411)
..+++.+++++++++.. ..|.++|..+..+++-....++|++...+.++...+... . ++..........
T Consensus 4 ~~~l~~~~~~~~vi~~~---~~~~~~~~~a~~~~~~~~~~~i~~~~~~i~~~~~~~~v~-------~-~~~~~~~~~~~~ 72 (560)
T COG3829 4 EGILKSILDGPVVIDKN---TGIDVANALALAKRQKNAEAVIGRPLREILETLGMERVE-------Q-SRDKELTERLKL 72 (560)
T ss_pred hhhhhhcccceEEEEcC---CceeeechHHHHhhhcceEEEecccceeeccccCcceee-------c-cCccceeeeeec
Confidence 34889999999999987 899999999999999999999999888776655443322 2 222222222223
Q ss_pred cCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchhcCCccccCCCCcchhHhhhhhhhhhhhhhhhhccccccc
Q 015216 101 KDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLA 180 (411)
Q Consensus 101 ~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~ 180 (411)
+ + ..-+.+...|+.+ .|+++|+++++.|+++....
T Consensus 73 ~-~-~~~~~~~~~~~~~--~~~~~g~~~~~~~~~e~~~~----------------------------------------- 107 (560)
T COG3829 73 K-V-KRIVVVGKTPVDE--QGRVVGVLEVFLDISEALEL----------------------------------------- 107 (560)
T ss_pred c-c-eeEEEcCCceeec--CCceeeeehhhhhhHHHHHH-----------------------------------------
Confidence 3 3 3444455566654 89999999999999985543
Q ss_pred ccCCCCCCCccccchhcHHHHHHHHHhhhhhhhhhhhccccCCceeeeeccCCcchhhhhhHHHHHHhcccccEEEEcCC
Q 015216 181 LDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPH 260 (411)
Q Consensus 181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~l~~~~~~i~~~d~~ 260 (411)
-.+. ++.....|..+++.+.++++++|.
T Consensus 108 -----------------~~~~----------------------------------l~~~~~~l~~il~~~~~~l~vvD~- 135 (560)
T COG3829 108 -----------------IEEN----------------------------------LRQLRQRLEAILDSIDDGLLVVDE- 135 (560)
T ss_pred -----------------HHHH----------------------------------HHHHHHHHHHHHhhccCceEEEcC-
Confidence 0000 011223466778889999999999
Q ss_pred CCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEc
Q 015216 261 LPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (411)
Q Consensus 261 ~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~ 340 (411)
+|.++++|+++.+++|++.++++|+++.++.....+ ....+.+..+++.......+...+. ..+..|++
T Consensus 136 --~G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~~----s~~l~vl~~~kp~~~~~~~~~~~~~----i~~~~pv~- 204 (560)
T COG3829 136 --DGIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGED----STLLEVLRTGKPIRDVVQTYNGNKI----IVNVAPVY- 204 (560)
T ss_pred --CCcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccCC----ceehhhhhcCCcceeeeeeecCCce----eEeeccEe-
Confidence 889999999999999999999999998776511111 1234556677776554443333322 34555665
Q ss_pred CCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHH
Q 015216 341 ASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLS 390 (411)
Q Consensus 341 ~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~ 390 (411)
.+|. +.+.+++..|+++.+....++..++..+.
T Consensus 205 ~~g~-----------------l~G~v~~~~~~~~l~~l~~~~~~~~~~~~ 237 (560)
T COG3829 205 ADGQ-----------------LIGVVGISKDVSELERLTRELEESEGLLR 237 (560)
T ss_pred cCCc-----------------EEEEEEeecchHHHHHHHHHHHHHhhhhc
Confidence 4778 99999999999999999998887766665
No 32
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.13 E-value=3.4e-10 Score=120.51 Aligned_cols=122 Identities=19% Similarity=0.299 Sum_probs=104.0
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCC-CccchhHHHHHHHHHHhCCccee
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQG-PRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
....+..++++++.+++++|.+ |+++++|+++++++||+.++++|+++..+.+ +.........+...+..+..+..
T Consensus 134 ~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 (799)
T PRK11359 134 QTRQLIIAVDHLDRPVIVLDPE---RRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQD 210 (799)
T ss_pred HHHHHHHHHhcCCCcEEEEcCC---CcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCcc
Confidence 3455667899999999999998 9999999999999999999999998766544 44444455566667777777788
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchh
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRN 141 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~ 141 (411)
+++..+++|..+|+.++..|+.+ .+|.+.+++++.+|||++|++++
T Consensus 211 e~~~~~~dG~~~~~~~~~~~v~d-~~g~~~~~~~~~~DITerk~~e~ 256 (799)
T PRK11359 211 EFLLLTRTGEKIWIKASISPVYD-VLAHLQNLVMTFSDITEERQIRQ 256 (799)
T ss_pred eeEEeCCCCCEEEEEeeeeeeec-CCCceeEEEEEeehhhhHHHHHH
Confidence 88889999999999999999999 89999999999999999998743
No 33
>cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.
Probab=99.09 E-value=3.6e-09 Score=77.82 Aligned_cols=103 Identities=21% Similarity=0.404 Sum_probs=87.5
Q ss_pred CCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCCeE
Q 015216 27 LPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPF 106 (411)
Q Consensus 27 ~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~ 106 (411)
++.+++++|.+ +.++++|+++.+++|++..+++|+.+..+.++.+.......+......+.....+..+..++|..+
T Consensus 1 ~~~~i~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (103)
T cd00130 1 LPDGVIVLDLD---GRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVI 77 (103)
T ss_pred CCceEEEECCC---CcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEE
Confidence 46789999998 999999999999999999999999887777777666666666666666666777888888899999
Q ss_pred EEEEEEEEeeecCCCeEEEEEEEeecc
Q 015216 107 WMLFKMSLVFGKEDGRATHFVAVQVPI 133 (411)
Q Consensus 107 ~~~~~~~pi~~~~~g~~~~~~~~~~DI 133 (411)
|+.....|+.+ ..|...+++++..||
T Consensus 78 ~~~~~~~~~~~-~~~~~~~~~~~~~di 103 (103)
T cd00130 78 WVLVSLTPIRD-EGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEEec-CCCCEEEEEEEEecC
Confidence 99999999988 788999999998886
No 34
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=99.06 E-value=1.8e-09 Score=84.57 Aligned_cols=106 Identities=21% Similarity=0.252 Sum_probs=74.6
Q ss_pred HHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEE
Q 015216 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (411)
Q Consensus 20 l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (411)
+..+++++|.+++++|.+ ++|.|+|+++.++++..+. .+|+++..+.++...+.....+ +.+..|+....+...
T Consensus 1 L~~il~s~~~~i~~vD~~---~~I~~~n~~a~~~f~~~~~-~iGr~l~~~~~~~~~~~l~~~i-~~~~~~~~~~~~~~~- 74 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDRN---LRIRYFNPAAARLFNLSPS-DIGRPLFDIHPPLSYPNLKKII-EQVRSGKEEEFEIVI- 74 (106)
T ss_dssp HHHHHHHSSSEEEEEETT---SBEEEE-SCGC-SS---GG-GTTSBCCCSS-HHHHHHHHHHH-HHHHTTSBSEEEEEE-
T ss_pred ChHHHhcCCCCEEEEcCC---CeEEEeChhHhhhcCCChH-HCCCCHHHcCCccchHHHHHHH-HHHHcCCCceEEEEe-
Confidence 467999999999999998 9999999999999998754 4799999998775555544444 445555544343333
Q ss_pred ccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccc
Q 015216 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (411)
Q Consensus 100 ~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DIT 134 (411)
..+| +|+..++.|+++ .+|+..|++.++.|||
T Consensus 75 ~~~~--~~~~~~~~P~~~-~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 75 PNGG--RWYLVRYRPYRD-EDGEYAGAVITFQDIT 106 (106)
T ss_dssp EETT--EEEEEEEEEEE--TTS-EEEEEEEEEE-G
T ss_pred cCCC--EEEEEEEEEEEC-CCCCEEEEEEEEEecC
Confidence 2444 466678999999 8999999999999998
No 35
>cd00130 PAS PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.
Probab=99.02 E-value=9.5e-09 Score=75.51 Aligned_cols=102 Identities=23% Similarity=0.393 Sum_probs=86.6
Q ss_pred cccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEE
Q 015216 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (411)
Q Consensus 251 ~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 330 (411)
+++++++|. ++.++++|+++++++|++..+++|.++..++++.+.......+......+.....++.+...+|..+|
T Consensus 2 ~~~i~~~d~---~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (103)
T cd00130 2 PDGVIVLDL---DGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIW 78 (103)
T ss_pred CceEEEECC---CCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEEE
Confidence 568899998 88999999999999999999999999888887777766666666666656667778888888999999
Q ss_pred EEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeech
Q 015216 331 NLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEE 372 (411)
Q Consensus 331 ~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DI 372 (411)
+.+...|+.+..|. ..+++++..||
T Consensus 79 ~~~~~~~~~~~~~~-----------------~~~~~~~~~di 103 (103)
T cd00130 79 VLVSLTPIRDEGGE-----------------VIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEecCCCC-----------------EEEEEEEEecC
Confidence 99999999988888 78888888886
No 36
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.99 E-value=1.4e-08 Score=104.25 Aligned_cols=126 Identities=17% Similarity=0.161 Sum_probs=101.7
Q ss_pred hhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCc-eEE
Q 015216 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA-CTV 317 (411)
Q Consensus 239 ~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~ 317 (411)
....+..++++++++++++|. ++.++++|+++++++||++++++|+++..++++.. .....+.+.+..+.. ...
T Consensus 260 ~~~~~~~i~~~~~~~i~~~d~---~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 334 (607)
T PRK11360 260 TRSLNELILESIADGVIAIDR---QGKITTMNPAAEVITGLQRHELVGKPYSELFPPNT--PFASPLLDTLEHGTEHVDL 334 (607)
T ss_pred HHHHHHHHHHhccCeEEEEcC---CCCEEEECHHHHHHhCCChHHhcCCcHHHHcCCch--hHHHHHHHHHhcCCCccce
Confidence 344567788999999999999 88999999999999999999999999888776542 223344455554444 344
Q ss_pred EEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHH
Q 015216 318 RILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMR 387 (411)
Q Consensus 318 e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~ 387 (411)
++....++|... +.++..|+.+.+|+ +.+++++++|||++|++|++++++.+
T Consensus 335 ~~~~~~~~~~~~-~~~~~~~i~~~~g~-----------------~~~~i~~~~Dite~~~~e~~l~~~~~ 386 (607)
T PRK11360 335 EISFPGRDRTIE-LSVSTSLLHNTHGE-----------------MIGALVIFSDLTERKRLQRRVARQER 386 (607)
T ss_pred EEEEEcCCCcEE-EEEEEeeEEcCCCC-----------------EEEEEEEEeechHHHHHHHHHHHHHH
Confidence 666777888776 88999999999999 99999999999999999998886543
No 37
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=98.95 E-value=1.7e-08 Score=79.38 Aligned_cols=102 Identities=17% Similarity=0.261 Sum_probs=86.9
Q ss_pred EEEcCCCCCccEEEecHH-HHHHhCCchhhhccCCCCCCCCCccchh-HHHHHHHHHHhCCcceeeEEEEccCCCeEEEE
Q 015216 32 TITDPSISGHPIVFASRG-FLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAIREERPIEVNLLNYKKDGTPFWML 109 (411)
Q Consensus 32 ~i~d~~~~dg~i~~~N~~-~~~l~G~~~eeliG~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 109 (411)
...+.+ |+|+++.+. ...++||.++|++|+.+.++++|+|... ......+.+..|.....-+|++.++|..+|++
T Consensus 6 trhs~d---gki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~g~~vwvq 82 (111)
T PF14598_consen 6 TRHSLD---GKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKNGGYVWVQ 82 (111)
T ss_dssp EEEETT---SBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TTSSEEEEE
T ss_pred EEECCC---cEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecCCcEEEEE
Confidence 345555 999999999 6999999999999999999999999987 77788889999998777899999999999999
Q ss_pred EEEEEeeecCCCeEEEEEEEeeccccc
Q 015216 110 FKMSLVFGKEDGRATHFVAVQVPIVSR 136 (411)
Q Consensus 110 ~~~~pi~~~~~g~~~~~~~~~~DITe~ 136 (411)
....++.++..+++..++++..=|++.
T Consensus 83 t~~~~~~n~~~~~~~~Iv~~n~vlse~ 109 (111)
T PF14598_consen 83 TKATLFYNPWTSKPEFIVCTNTVLSEE 109 (111)
T ss_dssp EEEEEEEETTTTCEEEEEEEEEEESCE
T ss_pred EEEEEEECCCCCCccEEEEEEEEeccC
Confidence 999999886678888888887766654
No 38
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.94 E-value=1.6e-08 Score=96.75 Aligned_cols=118 Identities=17% Similarity=0.104 Sum_probs=90.7
Q ss_pred hHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEE
Q 015216 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (411)
Q Consensus 241 ~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (411)
..+..+++++++|++++|. +++|+++|+++++++||+.++++|+++.++.++... ....+...+..+..+.....
T Consensus 7 ~~~~~il~~~~~gi~~~d~---~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 81 (348)
T PRK11073 7 PDAGQILNSLINSILLLDD---DLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSL--NIELMRESLQAGQGFTDNEV 81 (348)
T ss_pred chHHHHHhcCcCeEEEECC---CCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcchh--hHHHHHHHHHcCCcccccce
Confidence 3567889999999999999 889999999999999999999999998877654321 22334455555555444444
Q ss_pred EEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHH
Q 015216 321 NYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLE 385 (411)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~ 385 (411)
...++|..+|+.++..|+. .+ +++..++|||++++.++++.+.
T Consensus 82 ~~~~~g~~~~~~~~~~~~~--~~--------------------~~~~~~~dit~~~~~~~~~~~~ 124 (348)
T PRK11073 82 TLVIDGRSHILSLTAQRLP--EG--------------------MILLEMAPMDNQRRLSQEQLQH 124 (348)
T ss_pred EEEECCceEEEEEEEEEcc--Cc--------------------eeEEEEechhHHHHHHHHHHHH
Confidence 4567999999999999986 22 3567789999999887776544
No 39
>PF12860 PAS_7: PAS fold
Probab=98.90 E-value=6.2e-09 Score=82.81 Aligned_cols=103 Identities=20% Similarity=0.344 Sum_probs=72.2
Q ss_pred HhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhh-ccCCCCCCC---------CCccchhHHHHHHHHHHhCCcce
Q 015216 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEI-IGRNGRMFQ---------GPRTNRRTIMEIREAIREERPIE 93 (411)
Q Consensus 24 ~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eel-iG~~~~~l~---------~~~~~~~~~~~~~~~~~~~~~~~ 93 (411)
++++|.||+++|.+ ++++++|++|.+++|++.+.+ .|.++..+. .+.....................
T Consensus 1 Ld~l~~Gv~v~D~~---~rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (115)
T PF12860_consen 1 LDSLPQGVAVFDSD---GRLVFWNQRFRELFGLPPEMLRPGASFRDLLRRLAERGEFPPGDPEAWVRQRLARLRRRQPRS 77 (115)
T ss_pred CCCcCceEEEEcCC---CeEEeEcHHHHHHhCCCHHHhcCCCCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhcCCCce
Confidence 47899999999998 999999999999999999988 687754332 12222222333333333333333
Q ss_pred eeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 94 ~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
.+ ...+||. |++++..|+.+ | |++.++.|||+++++
T Consensus 78 ~~--~~~~dgr--~l~~~~~~~~~---G---g~v~~~~DVT~~~~~ 113 (115)
T PF12860_consen 78 FE--LRLPDGR--WLEVRAQPLPD---G---GFVLTFTDVTERRRA 113 (115)
T ss_pred eE--EECCCCE--EEEEEeEECCC---C---CEEEEEEeCCHHHHh
Confidence 33 3467775 66777888844 5 678899999999986
No 40
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=98.88 E-value=4.5e-08 Score=77.02 Aligned_cols=96 Identities=17% Similarity=0.151 Sum_probs=81.6
Q ss_pred CCCEEEecHH-HHHHhCCCcccccCCccccccCCCCchH-HHHHHHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEc
Q 015216 263 DMPMVYASDA-FLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (411)
Q Consensus 263 d~~i~~~N~~-~~~l~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~ 340 (411)
||.|+++.+. ...++||.++|++|+.+..++||+|... ......+.+..|.....-+|++.++|.++|+.....++.+
T Consensus 11 dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~g~~vwvqt~~~~~~n 90 (111)
T PF14598_consen 11 DGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKNGGYVWVQTKATLFYN 90 (111)
T ss_dssp TSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TTSSEEEEEEEEEEEEE
T ss_pred CcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecCCcEEEEEEEEEEEEC
Confidence 8999999999 6999999999999999999999999996 7778888889999888889999999999999999999997
Q ss_pred CCCCcccccccCccccccccceeEEEEEeechhh
Q 015216 341 ASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGC 374 (411)
Q Consensus 341 ~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~ 374 (411)
....+ +.+++++.+=|++
T Consensus 91 ~~~~~----------------~~~Iv~~n~vlse 108 (111)
T PF14598_consen 91 PWTSK----------------PEFIVCTNTVLSE 108 (111)
T ss_dssp TTTTC----------------EEEEEEEEEEESC
T ss_pred CCCCC----------------ccEEEEEEEEecc
Confidence 54431 6777777665554
No 41
>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=98.88 E-value=1.1e-08 Score=96.85 Aligned_cols=108 Identities=13% Similarity=0.085 Sum_probs=85.6
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
+..++++.+++++|++++++|.+ |+|+++|+++++++||++++++|+++..+..+. .+...+..+.. ..
T Consensus 3 ~~~~~l~~~~~~~~~~i~~~d~~---g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~-------~~~~~l~~~~~-~~ 71 (333)
T TIGR02966 3 ALLSRFRAAAQALPDAVVVLDEE---GQIEWCNPAAERLLGLRWPDDLGQRITNLIRHP-------EFVEYLAAGRF-SE 71 (333)
T ss_pred hHHHHHHHHHHhCcCcEEEECCC---CcEEEEcHHHHHHhCCChHHHcCCcHHHHccCH-------HHHHHHHhccc-CC
Confidence 55678999999999999999998 999999999999999999999999877765543 23333333332 23
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
......++|..+|+.++..|+.+ . + ++++++|||+++++
T Consensus 72 ~~~~~~~~~~~~~~~~~~~p~~~-~-~----~~~~~~dit~~~~~ 110 (333)
T TIGR02966 72 PLELPSPINSERVLEIRIAPYGE-E-Q----KLLVARDVTRLRRL 110 (333)
T ss_pred CeEeecCCCCceEEEEEEEEcCC-C-c----eEEEEeCchHHHHH
Confidence 34555688999999999999876 3 2 67888999999886
No 42
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.87 E-value=1.7e-07 Score=97.03 Aligned_cols=107 Identities=12% Similarity=0.146 Sum_probs=76.7
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEE
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (411)
+..+++.++++++++|. +|+|+++|+++++++|++.++++|+++..+++.. ..+.+.+..+..+.......
T Consensus 205 ~~~il~~~~~gVl~vD~---~G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~~~------~~l~~vl~~~~~~~~~~~~l 275 (638)
T PRK11388 205 LNALLESMDDGVIAWDE---QGNLQFLNAQAARLLRLDATASQGRAITELLTLP------AVLQQAIKQAHPLKHVEVTF 275 (638)
T ss_pred HHHHHhccCCcEEEECC---CCeEehhhHHHHHHhCcCHHHHCCCcHHHHhccc------hHHHHHHhcCCceeeEEEEE
Confidence 44577888999999999 8899999999999999999999999987766321 12334455555543322223
Q ss_pred ecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhH
Q 015216 323 RKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQ 377 (411)
Q Consensus 323 ~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~ 377 (411)
..+|..+++.++..|+.+..|. +++.+..|++..+.
T Consensus 276 ~~~g~~~~~~v~~~Pi~~~~g~-------------------~~v~~l~~~~~~~~ 311 (638)
T PRK11388 276 ESQGQFIDAVITLKPIIEGQGT-------------------SFILLLHPVEQMRQ 311 (638)
T ss_pred ecCCceEEEEEEEEeecccCce-------------------EEEEEehhhHHHHH
Confidence 4467777889999999754443 35666678876544
No 43
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.86 E-value=7.7e-09 Score=98.99 Aligned_cols=109 Identities=32% Similarity=0.664 Sum_probs=95.9
Q ss_pred ccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCcc--ccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEE
Q 015216 252 QSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNC--RFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSF 329 (411)
Q Consensus 252 ~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~ 329 (411)
..+++.+++..|..|+|+|+.||++.||.+.|++.+++ .+....-.+......+.+.+..-+.-+.|+.++.|+..+.
T Consensus 28 tsFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~~~qfEillyKKN~TPv 107 (971)
T KOG0501|consen 28 TSFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYETNQFEILLYKKNRTPV 107 (971)
T ss_pred cceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhhhcceeeEeeecCCCce
Confidence 45677777666889999999999999999999999874 5555555666777888888888888889999999999999
Q ss_pred EEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhH
Q 015216 330 WNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQ 377 (411)
Q Consensus 330 ~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~ 377 (411)
|+.+.+.||+++..+ ++.+++.++|||..||
T Consensus 108 W~~vqiAPIrNe~d~-----------------VVLfLctFkDIT~~KQ 138 (971)
T KOG0501|consen 108 WLLVQIAPIRNEKDK-----------------VVLFLCTFKDITALKQ 138 (971)
T ss_pred EEEEEeecccCCCce-----------------EEEEEeecccchhhcC
Confidence 999999999999999 9999999999999998
No 44
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.86 E-value=2e-08 Score=103.10 Aligned_cols=119 Identities=14% Similarity=0.194 Sum_probs=97.2
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCc-cee
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP-IEV 94 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~ 94 (411)
....++.++++++++++++|.+ |+++++|+++.+++||++++++|+++..++++.. .....+...+..+.. ...
T Consensus 260 ~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 334 (607)
T PRK11360 260 TRSLNELILESIADGVIAIDRQ---GKITTMNPAAEVITGLQRHELVGKPYSELFPPNT--PFASPLLDTLEHGTEHVDL 334 (607)
T ss_pred HHHHHHHHHHhccCeEEEEcCC---CCEEEECHHHHHHhCCChHHhcCCcHHHHcCCch--hHHHHHHHHHhcCCCccce
Confidence 4456788999999999999997 9999999999999999999999999887776542 223444555555544 345
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccchh
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRN 141 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~~ 141 (411)
++.+..++|... +.++..|+.+ .+|++.|++++++|||+++++++
T Consensus 335 ~~~~~~~~~~~~-~~~~~~~i~~-~~g~~~~~i~~~~Dite~~~~e~ 379 (607)
T PRK11360 335 EISFPGRDRTIE-LSVSTSLLHN-THGEMIGALVIFSDLTERKRLQR 379 (607)
T ss_pred EEEEEcCCCcEE-EEEEEeeEEc-CCCCEEEEEEEEeechHHHHHHH
Confidence 666777888776 8899999999 89999999999999999998744
No 45
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.83 E-value=3.3e-08 Score=94.67 Aligned_cols=111 Identities=14% Similarity=0.133 Sum_probs=87.1
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEE
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (411)
..+..+++++|++++++|.+ |+|+++|+++++++||+.++++|+++.++.++... ....+...+..+..+..+..
T Consensus 7 ~~~~~il~~~~~gi~~~d~~---~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 81 (348)
T PRK11073 7 PDAGQILNSLINSILLLDDD---LAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSL--NIELMRESLQAGQGFTDNEV 81 (348)
T ss_pred chHHHHHhcCcCeEEEECCC---CeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcchh--hHHHHHHHHHcCCcccccce
Confidence 35688999999999999998 99999999999999999999999998877654321 22344556666655444444
Q ss_pred EEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 98 ~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
...++|..+|+.++.+|+.. .+++..++|||++++.
T Consensus 82 ~~~~~g~~~~~~~~~~~~~~------~~~~~~~~dit~~~~~ 117 (348)
T PRK11073 82 TLVIDGRSHILSLTAQRLPE------GMILLEMAPMDNQRRL 117 (348)
T ss_pred EEEECCceEEEEEEEEEccC------ceeEEEEechhHHHHH
Confidence 45679999999999999854 3467778999998875
No 46
>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=98.82 E-value=4.3e-08 Score=92.75 Aligned_cols=113 Identities=12% Similarity=0.042 Sum_probs=86.3
Q ss_pred hhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEE
Q 015216 238 FISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTV 317 (411)
Q Consensus 238 ~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 317 (411)
...+.+..+++.++++++++|. +|.++++|++|++++|+++++++|+++..+.++.+ +...+..+.. ..
T Consensus 3 ~~~~~l~~~~~~~~~~i~~~d~---~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~-------~~~~l~~~~~-~~ 71 (333)
T TIGR02966 3 ALLSRFRAAAQALPDAVVVLDE---EGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHPE-------FVEYLAAGRF-SE 71 (333)
T ss_pred hHHHHHHHHHHhCcCcEEEECC---CCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCHH-------HHHHHHhccc-CC
Confidence 3456788899999999999999 88999999999999999999999999877765431 2223333222 22
Q ss_pred EEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHH
Q 015216 318 RILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLS 383 (411)
Q Consensus 318 e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~ 383 (411)
.+....++|..+|+.+...|+.+ +. ++++++|||++++.++...
T Consensus 72 ~~~~~~~~~~~~~~~~~~~p~~~--~~--------------------~~~~~~dit~~~~~~~~~~ 115 (333)
T TIGR02966 72 PLELPSPINSERVLEIRIAPYGE--EQ--------------------KLLVARDVTRLRRLEQMRR 115 (333)
T ss_pred CeEeecCCCCceEEEEEEEEcCC--Cc--------------------eEEEEeCchHHHHHHHHHH
Confidence 34555688999999999999864 22 5678899999988776543
No 47
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.81 E-value=2.3e-08 Score=78.31 Aligned_cols=106 Identities=15% Similarity=0.202 Sum_probs=72.9
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEE
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (411)
|..++++++.+++++|. +++|.+.|+++.++++..+ ..+|+++..+.++...+.....+ +.+..++....+...
T Consensus 1 L~~il~s~~~~i~~vD~---~~~I~~~n~~a~~~f~~~~-~~iGr~l~~~~~~~~~~~l~~~i-~~~~~~~~~~~~~~~- 74 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDR---NLRIRYFNPAAARLFNLSP-SDIGRPLFDIHPPLSYPNLKKII-EQVRSGKEEEFEIVI- 74 (106)
T ss_dssp HHHHHHHSSSEEEEEET---TSBEEEE-SCGC-SS---G-GGTTSBCCCSS-HHHHHHHHHHH-HHHHTTSBSEEEEEE-
T ss_pred ChHHHhcCCCCEEEEcC---CCeEEEeChhHhhhcCCCh-HHCCCCHHHcCCccchHHHHHHH-HHHHcCCCceEEEEe-
Confidence 45678999999999999 8899999999999999775 45799998887664444444444 444555543333333
Q ss_pred ecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechh
Q 015216 323 RKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEG 373 (411)
Q Consensus 323 ~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT 373 (411)
..+| +|+.+...|+++++|+ ..|++.++.|||
T Consensus 75 ~~~~--~~~~~~~~P~~~~~g~-----------------~~G~v~~~~DIT 106 (106)
T PF13596_consen 75 PNGG--RWYLVRYRPYRDEDGE-----------------YAGAVITFQDIT 106 (106)
T ss_dssp EETT--EEEEEEEEEEE-TTS------------------EEEEEEEEEE-G
T ss_pred cCCC--EEEEEEEEEEECCCCC-----------------EEEEEEEEEecC
Confidence 2344 4667899999999999 999999999998
No 48
>PF12860 PAS_7: PAS fold
Probab=98.76 E-value=4.9e-08 Score=77.61 Aligned_cols=105 Identities=19% Similarity=0.251 Sum_probs=72.1
Q ss_pred HhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccc-cCCcccccc---------CCCCchHHHHHHHHHHhhcCceE
Q 015216 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEV-VGQNCRFLN---------GVDTDTTVLYQIKESIQTEQACT 316 (411)
Q Consensus 247 l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~-~g~~~~~l~---------~~~~~~~~~~~~~~~~~~~~~~~ 316 (411)
|++++.||++.|. +++++++|++|.+++|++.+.+ .|.++..+. .+.+...................
T Consensus 1 Ld~l~~Gv~v~D~---~~rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (115)
T PF12860_consen 1 LDSLPQGVAVFDS---DGRLVFWNQRFRELFGLPPEMLRPGASFRDLLRRLAERGEFPPGDPEAWVRQRLARLRRRQPRS 77 (115)
T ss_pred CCCcCceEEEEcC---CCeEEeEcHHHHHHhCCCHHHhcCCCCHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhcCCCce
Confidence 4678999999999 8899999999999999999887 788764432 12222233333333333333333
Q ss_pred EEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHH
Q 015216 317 VRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRH 380 (411)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~ 380 (411)
.+ ....||. |+.++.+|.. +|. ++.++.|||++|++|+
T Consensus 78 ~~--~~~~dgr--~l~~~~~~~~--~Gg--------------------~v~~~~DVT~~~~~E~ 115 (115)
T PF12860_consen 78 FE--LRLPDGR--WLEVRAQPLP--DGG--------------------FVLTFTDVTERRRAEE 115 (115)
T ss_pred eE--EECCCCE--EEEEEeEECC--CCC--------------------EEEEEEeCCHHHHhcC
Confidence 33 3456775 6677778774 454 6899999999998864
No 49
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.70 E-value=1.4e-07 Score=85.65 Aligned_cols=143 Identities=15% Similarity=0.185 Sum_probs=111.5
Q ss_pred hhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEE
Q 015216 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (411)
Q Consensus 239 ~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (411)
....|.+.+..+.||++-+|. .|.|+.+|..+.+++|.+.++++|+++.++..-++.-.+ .+.+........+
T Consensus 109 Er~kL~SvlayMtDGViATdR---rG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~~----~dL~e~~~s~lld 181 (459)
T COG5002 109 ERRKLDSVLAYMTDGVIATDR---RGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTF----EDLVEKNDSLLLD 181 (459)
T ss_pred HHHHHHHHHHHHcCceEeecC---CCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccceeH----HHHHhcCCcEEEe
Confidence 344688889999999999999 779999999999999999999999998777765554333 3333334433333
Q ss_pred EEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHH-----Hhh
Q 015216 319 ILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLS-----AIG 393 (411)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~-----~~~ 393 (411)
. +..++..-+.+..+.+.-+.|. +.|++++..|+|++.+.|++.++.-...+ =+.
T Consensus 182 ~---~~~~E~~~lrv~Fs~i~rEsGf-----------------isGlIaVlhDvTEqek~e~ErRefvanvSHElRTPlt 241 (459)
T COG5002 182 S---SDEEEGYVLRVNFSVIQRESGF-----------------ISGLIAVLHDVTEQEKVERERREFVANVSHELRTPLT 241 (459)
T ss_pred e---cCCCccEEEEEEEEEEeecccc-----------------cceeEEEEecccHHHHHHHHHHHHHHhcchhhcCchH
Confidence 2 2267888889999999999999 99999999999999999988886433222 267
Q ss_pred hHHHHHhhhcccCCC
Q 015216 394 AIKVAVRSLSMGAGP 408 (411)
Q Consensus 394 ~~~~~~~~~~~~~~~ 408 (411)
+++|-..++++||-.
T Consensus 242 smksyLEALe~ga~~ 256 (459)
T COG5002 242 SMKSYLEALEEGAWE 256 (459)
T ss_pred HHHHHHHHHhcCCcc
Confidence 788888888888754
No 50
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.70 E-value=7.7e-08 Score=92.31 Aligned_cols=123 Identities=24% Similarity=0.488 Sum_probs=102.9
Q ss_pred HHHHHHHHHhhCC--CeEE-EEcCCCCCccEEEecHHHHHHhCCchhhhccCC--CCCCCCCccchhHHHHHHHHHHhCC
Q 015216 16 YTLWVHEALDELP--DSFT-ITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTIMEIREAIREER 90 (411)
Q Consensus 16 ~~~~l~~l~e~~~--~~i~-i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~--~~~l~~~~~~~~~~~~~~~~~~~~~ 90 (411)
.+.+++.++..+. +.-+ +.+...-|..|+|+|+.|+++.||.+.|++-++ +.+.++...+....+.+.+.+.+.+
T Consensus 12 QNTFLENiiRRsn~~dtsFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~ 91 (971)
T KOG0501|consen 12 QNTFLENIIRRSNNADTSFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYE 91 (971)
T ss_pred chhHHHHHHhhccCCCcceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhh
Confidence 3456666766554 4333 334444468899999999999999999999886 5666677777788899999999988
Q ss_pred cceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 91 PIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 91 ~~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
.-.+|+..+.|+.++.|+.+.+.||++ +...++-+++.+.|||..|+-
T Consensus 92 ~~qfEillyKKN~TPvW~~vqiAPIrN-e~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 92 TNQFEILLYKKNRTPVWLLVQIAPIRN-EKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred hcceeeEeeecCCCceEEEEEeecccC-CCceEEEEEeecccchhhcCC
Confidence 888999999999999999999999999 899999999999999999885
No 51
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.60 E-value=7e-06 Score=69.65 Aligned_cols=115 Identities=23% Similarity=0.290 Sum_probs=83.9
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchH-HHHHHHH-HHhhcCceEEEEE
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQIKE-SIQTEQACTVRIL 320 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~-~~~~~~~~~~e~~ 320 (411)
+..+++..+++++++|. ++.+.++|+++.+++|++..+..+.....+........ ....... ..........+..
T Consensus 114 ~~~~~~~~~~~~~~~d~---~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (232)
T COG2202 114 LRALLEASPDGIWVLDE---DGRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLEIEYR 190 (232)
T ss_pred HHHHHhhCCceEEEEeC---CCCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCcceEEE
Confidence 45567788899999999 88999999999999999988777777554443332221 1111112 2223344677888
Q ss_pred EEecCCCE-EEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHH
Q 015216 321 NYRKDKSS-FWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQD 378 (411)
Q Consensus 321 ~~~~dG~~-~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~ 378 (411)
...++|.. .|......+... .|. +..+.....|++++++.
T Consensus 191 ~~~~~g~~~~~~~~~~~~~~~-~~~-----------------~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 191 VRRKDGERVRWILSRISPVRD-DGE-----------------IVGVVGIARDITERKQA 231 (232)
T ss_pred EEecCCCEEEEEEeeeeEecC-CCc-----------------eEEEEEEEechHHHhhc
Confidence 89999996 888888877765 677 78889999999998764
No 52
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.59 E-value=1.8e-06 Score=87.72 Aligned_cols=124 Identities=17% Similarity=0.171 Sum_probs=87.6
Q ss_pred hhhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCc---ccccCCccccccCCCCchHHHHHHHHHHhhc
Q 015216 236 MGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR---NEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (411)
Q Consensus 236 l~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~---~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~ 312 (411)
+....+.++.++++++++++++|. +|+|+++|+++++++|++. .+.+|..+..+.++. .+.+.+..+
T Consensus 216 i~~l~~~~~~il~~~~~gIi~~D~---~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~ 285 (542)
T PRK11086 216 ISTLFEQRQAMLQSIKEGVIAVDD---RGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPVS-------RLKEVLRTG 285 (542)
T ss_pred HHHHHHHHHHHHHHhcCcEEEECC---CCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCch-------hHHHHHhcC
Confidence 344556678899999999999999 8899999999999998753 456677665544322 233445555
Q ss_pred CceEEEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHH
Q 015216 313 QACTVRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSA 391 (411)
Q Consensus 313 ~~~~~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~ 391 (411)
.+..... ...+|. ++.+...|+.+ +|. +.+++.+++|+|+.++.++++.......+.
T Consensus 286 ~~~~~~~--~~~~g~--~~~~~~~pi~~-~g~-----------------~~g~v~~~rDite~~~l~~~l~~~~~~~~~ 342 (542)
T PRK11086 286 TPRRDEE--ININGR--LLLTNTVPVRV-NGE-----------------IIGAIATFRDKTEVRQLAQRLDGMVNYADA 342 (542)
T ss_pred CCccceE--EEECCE--EEEEEEEEEeE-CCE-----------------EEEEEEEEEEchHHHHHHHHHHHHHHHHHH
Confidence 4432211 122443 44567789988 888 899999999999999988887765544443
No 53
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=98.55 E-value=2.3e-05 Score=79.89 Aligned_cols=122 Identities=10% Similarity=0.050 Sum_probs=84.3
Q ss_pred hhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCc--ccccCCccccccCCCCchHHHHHHHHHHhhcCceE
Q 015216 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR--NEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (411)
Q Consensus 239 ~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~--~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 316 (411)
....+..+++.+++|++++|. +|+|+++|+++++++|++. ++++|+++..+.++.... ..... .....
T Consensus 220 ~~~~~~~il~~~~egii~~D~---~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~~------~~~~~-~~~~~ 289 (545)
T PRK15053 220 VVRQQEALFSSVYEGLIAVDP---HGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADFF------TEQID-EKRQD 289 (545)
T ss_pred HHHHHHHHHHHhCceEEEECC---CCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchhh------hhhcC-Ccccc
Confidence 334567788999999999999 8899999999999999975 468999887766443111 11111 11111
Q ss_pred EEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHhh
Q 015216 317 VRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIG 393 (411)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~ 393 (411)
.. ...+| ..+.+...|+.. +|. +.+++.+++|+|+.+..+.++...+..++.+.
T Consensus 290 ~~---~~~~~--~~~~~~~~~i~~-~~~-----------------~~G~v~~~~d~te~~~l~~~l~~~~~~~e~l~ 343 (545)
T PRK15053 290 VV---ANFNG--LSVIANREAIRS-GDD-----------------LLGAIISFRSKDEISTLNAQLTQIKQYVESLR 343 (545)
T ss_pred eE---EEECC--EEEEEEeeeEEE-CCe-----------------EEEEEEEEEchHHHHHHHHHHHHHHHHHHHHH
Confidence 11 12234 334467788875 556 78999999999999998888877666555544
No 54
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.55 E-value=1.3e-06 Score=84.75 Aligned_cols=112 Identities=17% Similarity=0.349 Sum_probs=87.2
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
+..+.|+.+++.+.++++++|.. |.++++|.++..++|++.++++|+++.++..... .....+++..+++...
T Consensus 114 ~~~~~l~~il~~~~~~l~vvD~~---G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~----~s~~l~vl~~~kp~~~ 186 (560)
T COG3829 114 QLRQRLEAILDSIDDGLLVVDED---GIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGE----DSTLLEVLRTGKPIRD 186 (560)
T ss_pred HHHHHHHHHHhhccCceEEEcCC---CcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccC----CceehhhhhcCCccee
Confidence 56788999999999999999998 9999999999999999999999998776651111 1234567788888766
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
....+..++. ..+..|++. +|.+.|.+++..|+++.+..
T Consensus 187 ~~~~~~~~~~----i~~~~pv~~--~g~l~G~v~~~~~~~~l~~l 225 (560)
T COG3829 187 VVQTYNGNKI----IVNVAPVYA--DGQLIGVVGISKDVSELERL 225 (560)
T ss_pred eeeeecCCce----eEeeccEec--CCcEEEEEEeecchHHHHHH
Confidence 5443333332 355667776 78999999999999988775
No 55
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.53 E-value=1.5e-06 Score=79.11 Aligned_cols=114 Identities=15% Similarity=0.242 Sum_probs=91.3
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
....+|..++..+.+||+..|.. |+|+.+|..+.+++|.+.++++|+++.++..-.+.-. +.+.+........
T Consensus 108 ~Er~kL~SvlayMtDGViATdRr---G~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~----~~dL~e~~~s~ll 180 (459)
T COG5002 108 QERRKLDSVLAYMTDGVIATDRR---GKIILINKPALKMLGVSKEDALGRSILELLKIEDTYT----FEDLVEKNDSLLL 180 (459)
T ss_pred HHHHHHHHHHHHHcCceEeecCC---CcEEEeccHHHHHhCcCHHHHhcccHHHHhCCcccee----HHHHHhcCCcEEE
Confidence 34568899999999999999998 9999999999999999999999999777665544333 2333333333333
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
+. ..+++...++++.+.+.- +.|-+.|++++..|+||+.+.
T Consensus 181 d~---~~~~E~~~lrv~Fs~i~r-EsGfisGlIaVlhDvTEqek~ 221 (459)
T COG5002 181 DS---SDEEEGYVLRVNFSVIQR-ESGFISGLIAVLHDVTEQEKV 221 (459)
T ss_pred ee---cCCCccEEEEEEEEEEee-cccccceeEEEEecccHHHHH
Confidence 22 237788888899999998 899999999999999999886
No 56
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.48 E-value=6.5e-07 Score=90.00 Aligned_cols=109 Identities=14% Similarity=0.138 Sum_probs=81.4
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
+.+..+.++++++++||+++|.+ |+|+++|+++.+++|++.++++|+++..+.+... +.+.+..+.+...
T Consensus 77 ~e~~~L~aIL~sm~eGVi~vD~~---G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~-------l~~~le~~~~~~~ 146 (520)
T PRK10820 77 REHRALSALLEALPEPVLSIDMK---GKVELANPASCQLFGQSEEKLRNHTAAQLINGFN-------FLRWLESEPQDSH 146 (520)
T ss_pred HHHHHHHHHHHhCCCcEEEECCC---CeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcch-------HHHHHHcCCCccc
Confidence 45678999999999999999998 9999999999999999999999999887765432 2334555544211
Q ss_pred eEEEEccCCCeEEEEEEEEEee--ecCCCeE--EEEEEEeecccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVF--GKEDGRA--THFVAVQVPIVSRK 137 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~--~~~~g~~--~~~~~~~~DITe~k 137 (411)
. .....+|..++ +...|+. + ++|.. .|++.+++|+++..
T Consensus 147 ~-~~v~~~g~~~~--v~~~PI~~~d-~~g~~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 147 N-EHVVINGQDFL--MEITPVYLQD-ENDQHVLVGAVVMLRSTARMG 189 (520)
T ss_pred e-EEEEECCEEEE--EEEEeeeecC-CCCceeEEEEEEEeccHHHHH
Confidence 1 12344676555 4567876 5 45554 89999999999754
No 57
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=98.40 E-value=3.5e-06 Score=77.52 Aligned_cols=80 Identities=13% Similarity=0.122 Sum_probs=64.8
Q ss_pred CCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEcCC
Q 015216 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNAS 342 (411)
Q Consensus 263 d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~~~ 342 (411)
|..++|......+++||.+.+++++++..++|..|.......-...+..|...+--+|+..+.|.+.|+....+.+.+..
T Consensus 234 DlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwvqsyat~vHnSr 313 (598)
T KOG3559|consen 234 DLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWVQSYATFVHNSR 313 (598)
T ss_pred ceEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceEEEEEeeEEEeccc
Confidence 88999999999999999999999999988888877665555545555666666666788889999999988877776543
No 58
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.39 E-value=6.6e-07 Score=88.35 Aligned_cols=112 Identities=13% Similarity=0.162 Sum_probs=77.4
Q ss_pred HHhhhhHHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHh
Q 015216 9 EQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIRE 88 (411)
Q Consensus 9 e~~~~~~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~ 88 (411)
++++. ...++++.+++++|++++++|.+ |+|+++|+++++++||+.+++.|+++..+..+.+. ...+..
T Consensus 90 ~~~l~-~~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~~-------~~~~~~ 158 (430)
T PRK11006 90 RRELG-NLIKRFRSGAESLPDAVVLTTEE---GNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPEF-------TQYLKT 158 (430)
T ss_pred HHHHH-HHHHHHHHHHHhCCCeEEEEcCC---CceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHHH-------HHHHHh
Confidence 33443 45678999999999999999998 99999999999999999999999987665543221 112222
Q ss_pred CCcceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccch
Q 015216 89 ERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (411)
Q Consensus 89 ~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~ 140 (411)
.. ..........+|. ++.++..|..+ + +++.+++|||++++++
T Consensus 159 ~~-~~~~~~~~~~~~~--~~~~~~~~~~~---~---~~~~~~~dit~~~~~e 201 (430)
T PRK11006 159 RD-FSRPLTLVLNNGR--HLEIRVMPYTE---G---QLLMVARDVTQMHQLE 201 (430)
T ss_pred cc-cCCCeEEEcCCCC--EEEEEEEEcCC---C---cEEEEEehhhHHHHHH
Confidence 11 1122233344554 45566667644 3 3567889999998874
No 59
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.29 E-value=1.9e-05 Score=66.92 Aligned_cols=119 Identities=24% Similarity=0.365 Sum_probs=88.4
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchh-HHHHHHHHH-HhCCcce
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAI-REERPIE 93 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~-~~~~~~~~~-~~~~~~~ 93 (411)
...++..+++..+++++++|.+ +.++++|+++.+++|++..+..++....+........ ......... .......
T Consensus 110 ~~~~~~~~~~~~~~~~~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 (232)
T COG2202 110 SEERLRALLEASPDGIWVLDED---GRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLE 186 (232)
T ss_pred HHHHHHHHHhhCCceEEEEeCC---CCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCcc
Confidence 3445889999999999999997 9999999999999999988887777555443332221 122222222 2334567
Q ss_pred eeEEEEccCCCe-EEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 94 VNLLNYKKDGTP-FWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 94 ~e~~~~~~dG~~-~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
.+.....++|.. .|+.....+... .|.+.+++....|+++++..
T Consensus 187 ~~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 187 IEYRVRRKDGERVRWILSRISPVRD--DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred eEEEEEecCCCEEEEEEeeeeEecC--CCceEEEEEEEechHHHhhc
Confidence 788889999996 888777777654 68999999999999998764
No 60
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.26 E-value=3.1e-06 Score=83.62 Aligned_cols=112 Identities=13% Similarity=0.106 Sum_probs=76.5
Q ss_pred hhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceE
Q 015216 237 GFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (411)
Q Consensus 237 ~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 316 (411)
......++.+++++|++++++|. +|+|+++|+++++++||+.++++|+++..+..+.+ ... .+... ...
T Consensus 94 ~~~~~~~~~~~~~~~~~i~~~d~---~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~---~~~----~~~~~-~~~ 162 (430)
T PRK11006 94 GNLIKRFRSGAESLPDAVVLTTE---EGNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPE---FTQ----YLKTR-DFS 162 (430)
T ss_pred HHHHHHHHHHHHhCCCeEEEEcC---CCceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHH---HHH----HHHhc-ccC
Confidence 34456688899999999999999 88999999999999999999999999876654322 111 11111 111
Q ss_pred EEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHH
Q 015216 317 VRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLS 383 (411)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~ 383 (411)
........+|. ++.+...|.. ++. ++.+.+|||++++.++..+
T Consensus 163 ~~~~~~~~~~~--~~~~~~~~~~--~~~--------------------~~~~~~dit~~~~~e~~~~ 205 (430)
T PRK11006 163 RPLTLVLNNGR--HLEIRVMPYT--EGQ--------------------LLMVARDVTQMHQLEGARR 205 (430)
T ss_pred CCeEEEcCCCC--EEEEEEEEcC--CCc--------------------EEEEEehhhHHHHHHHHHH
Confidence 22233345554 4455555553 222 4678899999998876554
No 61
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins.
Probab=98.25 E-value=2.9e-05 Score=63.39 Aligned_cols=112 Identities=11% Similarity=0.105 Sum_probs=90.9
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEE
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (411)
..++.++. .|.+|+-.+.. +|-.++|.|.++.+|++++-+++++.+.+.-..+.........+.++.+.|-...+.-.
T Consensus 32 ~~~~~L~~-ap~ailsh~~~-~dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG~~~~y~Gi 109 (148)
T PF08670_consen 32 ELAKALWH-APFAILSHGTK-ADPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQGYIDNYSGI 109 (148)
T ss_pred HHHHHHHc-CCCEEEEcCCC-CCCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhCCccCCCeE
Confidence 45556666 99999998876 56899999999999999999999999988777676777777788888888877777767
Q ss_pred EEccCCCeEEEE-EEEEEeeecCCCeEEEEEEEeec
Q 015216 98 NYKKDGTPFWML-FKMSLVFGKEDGRATHFVAVQVP 132 (411)
Q Consensus 98 ~~~~dG~~~~~~-~~~~pi~~~~~g~~~~~~~~~~D 132 (411)
.+.+.|..++++ ..+--+.| ++|...|.-.++.+
T Consensus 110 Riss~Grrf~ie~a~vW~l~D-~~g~~~GqAa~F~~ 144 (148)
T PF08670_consen 110 RISSTGRRFRIERATVWNLID-EDGNYCGQAAMFSN 144 (148)
T ss_pred EEcCCCCeEEEeceEEEEEEc-CCCCEEEEEEEEee
Confidence 789999999886 45556778 78988887666654
No 62
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.24 E-value=7.7e-06 Score=82.28 Aligned_cols=108 Identities=12% Similarity=0.081 Sum_probs=78.9
Q ss_pred hhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEE
Q 015216 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (411)
Q Consensus 239 ~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (411)
....+..+++++++||+++|. +|+|+++|+++++++|++.++++|+++..+++... +.+.+..+......
T Consensus 78 e~~~L~aIL~sm~eGVi~vD~---~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~-------l~~~le~~~~~~~~ 147 (520)
T PRK10820 78 EHRALSALLEALPEPVLSIDM---KGKVELANPASCQLFGQSEEKLRNHTAAQLINGFN-------FLRWLESEPQDSHN 147 (520)
T ss_pred HHHHHHHHHHhCCCcEEEECC---CCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcch-------HHHHHHcCCCccce
Confidence 344578889999999999999 88999999999999999999999999988876432 22334444431111
Q ss_pred EEEEecCCCEEEEEEEeeEEE--cCCCCcccccccCccccccccce--eEEEEEeechhhhh
Q 015216 319 ILNYRKDKSSFWNLLHISPIR--NASGKQLASTFNSTSFTICPVEI--AYFAAVHTEEGCRN 376 (411)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~--~~~g~~~~~~~~~~~~~~~~~~i--~~~~~~~~DIT~~k 376 (411)
.....+|..++ +...|+. +++|. . .|.+.+++|+++..
T Consensus 148 -~~v~~~g~~~~--v~~~PI~~~d~~g~-----------------~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 148 -EHVVINGQDFL--MEITPVYLQDENDQ-----------------HVLVGAVVMLRSTARMG 189 (520)
T ss_pred -EEEEECCEEEE--EEEEeeeecCCCCc-----------------eeEEEEEEEeccHHHHH
Confidence 12344576555 5667776 66665 4 78999999998754
No 63
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.22 E-value=2.2e-06 Score=60.19 Aligned_cols=43 Identities=23% Similarity=0.421 Sum_probs=36.0
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCC
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGR 67 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~ 67 (411)
++++.+++++|.||+++| . ++|+++|+++.+++||+ ..|+.+.
T Consensus 1 e~~~~l~~~~~~~i~i~d-~---~~i~~~N~~~~~l~g~~---~~~~~~~ 43 (64)
T PF13188_consen 1 ERYRSLFDNSPDGILIID-G---GRIIYVNPAFEELFGYS---LEGEDIG 43 (64)
T ss_dssp HHHHHHHCCSSSEEEEEE-T---SBEEEE-HHHHHHHCS----HTCCCHH
T ss_pred CHHHHHHHcCccceEEEE-C---CChHHhhHHHHHHhCCC---CCCCCHH
Confidence 478999999999999999 8 89999999999999998 5566543
No 64
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.14 E-value=3.1e-05 Score=78.74 Aligned_cols=109 Identities=10% Similarity=0.135 Sum_probs=78.6
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCch---hhhccCCCCCCCCCccchhHHHHHHHHHHhCCc
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR---AEIIGRNGRMFQGPRTNRRTIMEIREAIREERP 91 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~---eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 91 (411)
+..+.++.++++++++|+++|.+ |+|+++|+++++++|++. .+.+|+.+..+.++ ..+...+..+.+
T Consensus 218 ~l~~~~~~il~~~~~gIi~~D~~---g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~ 287 (542)
T PRK11086 218 TLFEQRQAMLQSIKEGVIAVDDR---GEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPV-------SRLKEVLRTGTP 287 (542)
T ss_pred HHHHHHHHHHHHhcCcEEEECCC---CeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCc-------hhHHHHHhcCCC
Confidence 34566789999999999999998 999999999999998753 35556554444332 223445566655
Q ss_pred ceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 92 IEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 92 ~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
..... ...+|.. +.+...|+.+ +|.+.|++.+++|+|+.+++
T Consensus 288 ~~~~~--~~~~g~~--~~~~~~pi~~--~g~~~g~v~~~rDite~~~l 329 (542)
T PRK11086 288 RRDEE--ININGRL--LLTNTVPVRV--NGEIIGAIATFRDKTEVRQL 329 (542)
T ss_pred ccceE--EEECCEE--EEEEEEEEeE--CCEEEEEEEEEEEchHHHHH
Confidence 43221 2234543 4456789988 89999999999999998876
No 65
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=98.07 E-value=6.4e-05 Score=73.11 Aligned_cols=124 Identities=17% Similarity=0.138 Sum_probs=89.2
Q ss_pred hhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcc--cccCCccccccCCCCchHHHHHHHHHHhhcCc
Q 015216 237 GFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRN--EVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA 314 (411)
Q Consensus 237 ~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~--e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 314 (411)
..+-+...++++++..|++.+|. .|.++.+|.++++++|+... +.+|++...+++|+.+- .+.++.+.+
T Consensus 211 a~l~~er~A~l~si~EGviAvd~---~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~l------~~vl~~~~~ 281 (537)
T COG3290 211 ATLLEERQAMLQSIKEGVIAVDK---KGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSDL------PEVLETGKP 281 (537)
T ss_pred HHHHHHHHHHHHHhhceEEEECC---CCeEeehhHHHHHHhcccCcCcccccccceEeeccccCc------HHHHhcCCc
Confidence 34444567788999999999999 77999999999999999865 68899988888763221 122344444
Q ss_pred eEE-EEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHh
Q 015216 315 CTV-RILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 392 (411)
Q Consensus 315 ~~~-e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 392 (411)
... +++ -+| .++.+...|+.- +|+ +.|++.+++|=|+-++.-++|.....-.+++
T Consensus 282 ~~~~e~~---~ng--~~~i~nr~pI~~-~~~-----------------~~GaI~tFRdktei~~L~eqLt~vr~ya~aL 337 (537)
T COG3290 282 QHDEEIR---ING--RLLVANRVPIRS-GGQ-----------------IVGAIITFRDKTEIKKLTEQLTGVRQYAEAL 337 (537)
T ss_pred ccchhhh---cCC--eEEEEEeccEEE-CCE-----------------EeEEEEEEecHHHHHHHHHHHHHHHHHHHHH
Confidence 322 222 223 356678889874 677 8999999999999998888877554444444
No 66
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=98.07 E-value=4.2e-05 Score=73.20 Aligned_cols=94 Identities=18% Similarity=0.141 Sum_probs=79.4
Q ss_pred CCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEcCC
Q 015216 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNAS 342 (411)
Q Consensus 263 d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~~~ 342 (411)
|+..+.+......++||...|+.|.+-..++|.+|..-....-.+.+++|+.--..+|..+|+|++.||..+...++ .+
T Consensus 292 Dfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~qtk~grw~wvqssarlly-kn 370 (712)
T KOG3560|consen 292 DFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQTKAGRWAWVQSSARLLY-KN 370 (712)
T ss_pred ccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCCcceEEEEEeecCCcEEEeeccceeee-ec
Confidence 77888888888999999999999999999999988776667778888999888788889999999999998887765 58
Q ss_pred CCcccccccCccccccccceeEEEEEeechhh
Q 015216 343 GKQLASTFNSTSFTICPVEIAYFAAVHTEEGC 374 (411)
Q Consensus 343 g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~ 374 (411)
|+ +-.++.+.+-.++
T Consensus 371 gk-----------------PD~vi~thr~l~D 385 (712)
T KOG3560|consen 371 GK-----------------PDLVIDTHRGLGD 385 (712)
T ss_pred CC-----------------CCEEEecCCCccc
Confidence 88 6666777666665
No 67
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=98.04 E-value=2.3e-06 Score=79.80 Aligned_cols=102 Identities=22% Similarity=0.324 Sum_probs=88.3
Q ss_pred hhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCC-CchHHHHHHHHHHhhcCceEEE
Q 015216 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVD-TDTTVLYQIKESIQTEQACTVR 318 (411)
Q Consensus 240 ~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~-~~~~~~~~~~~~~~~~~~~~~e 318 (411)
...+...|+....+|-++|. +..|.|||++|+.++||-+.|++|++..++...+ .+..+.+.+...+..|..++++
T Consensus 156 cnalFaaLD~c~eAiEI~~d---dhViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~ 232 (775)
T KOG1229|consen 156 CNALFAALDECDEAIEICDD---DHVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGE 232 (775)
T ss_pred hHHHHHHHhhhhhhheeccc---hhHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccch
Confidence 34566778888899999998 8899999999999999999999999988776443 4567788888889999999999
Q ss_pred EEEEecCCCEEEEEEEeeEEEcCCCC
Q 015216 319 ILNYRKDKSSFWNLLHISPIRNASGK 344 (411)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~~~~g~ 344 (411)
...++|.|....-.+.++|+.+..|+
T Consensus 233 ~~aRRksgdS~dqh~~itP~~gqggk 258 (775)
T KOG1229|consen 233 EEARRKSGDSCDQHFIITPFAGQGGK 258 (775)
T ss_pred HHHhhccCCcccceEEEeeecCCCCc
Confidence 99999999988778889999998888
No 68
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=97.91 E-value=1.5e-05 Score=78.55 Aligned_cols=97 Identities=10% Similarity=0.248 Sum_probs=86.0
Q ss_pred CccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCCeEEEEEEEEEeeecC
Q 015216 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKE 119 (411)
Q Consensus 40 dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~ 119 (411)
|.+|+|+.+.+..++||.+++++|+.+..++|..|...+.+...+.+..|......+|+..|+|...|++..++.+.+..
T Consensus 283 DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~lak~GGyvWlQTqATVi~~tk 362 (768)
T KOG3558|consen 283 DMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVVTGYYRLLAKNGGYVWLQTQATVIYNTK 362 (768)
T ss_pred ceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhcCccchhHHHHHHhcCCeEEEEeeeEEEecCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999999999999998755
Q ss_pred CCeEEEEEEEeeccccc
Q 015216 120 DGRATHFVAVQVPIVSR 136 (411)
Q Consensus 120 ~g~~~~~~~~~~DITe~ 136 (411)
+++...++++.-=|+.+
T Consensus 363 n~q~q~IicVnYVlS~~ 379 (768)
T KOG3558|consen 363 NPQEQNIICVNYVLSNI 379 (768)
T ss_pred CCCcceEEEEEeeeccc
Confidence 55556677766555544
No 69
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=97.79 E-value=1.5e-05 Score=74.43 Aligned_cols=106 Identities=23% Similarity=0.360 Sum_probs=89.2
Q ss_pred HHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCcc-chhHHHHHHHHHHhCCcceeeEE
Q 015216 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRT-NRRTIMEIREAIREERPIEVNLL 97 (411)
Q Consensus 19 ~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~e~~ 97 (411)
-+-+.++....+|-++|.+ ..|.|+|++|+.|+||-..|++|++..++...+. .......+...++.|..++++..
T Consensus 158 alFaaLD~c~eAiEI~~dd---hViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~~~ 234 (775)
T KOG1229|consen 158 ALFAALDECDEAIEICDDD---HVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGEEE 234 (775)
T ss_pred HHHHHHhhhhhhheeccch---hHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccchHH
Confidence 3445788889999999987 9999999999999999999999999888765443 34556778888999999999988
Q ss_pred EEccCCCeEEEEEEEEEeeecCCCeEEEEEE
Q 015216 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVA 128 (411)
Q Consensus 98 ~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~ 128 (411)
.+++.|...-..+..+|+.+ ..|++..++.
T Consensus 235 aRRksgdS~dqh~~itP~~g-qggkirhfvs 264 (775)
T KOG1229|consen 235 ARRKSGDSCDQHFIITPFAG-QGGKIRHFVS 264 (775)
T ss_pred HhhccCCcccceEEEeeecC-CCCceeeehh
Confidence 89999988877888999998 7888877753
No 70
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.78 E-value=0.00017 Score=73.54 Aligned_cols=107 Identities=14% Similarity=0.080 Sum_probs=75.4
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCch--hhhccCCCCCCCCCccchhHHHHHHHHHHhCCcce
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR--AEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~--eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 93 (411)
....++.+++++++|++++|.+ |+|+++|+++.+++|++. ++++|+++..+.++.... ..... .....
T Consensus 220 ~~~~~~~il~~~~egii~~D~~---g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~~------~~~~~-~~~~~ 289 (545)
T PRK15053 220 VVRQQEALFSSVYEGLIAVDPH---GYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADFF------TEQID-EKRQD 289 (545)
T ss_pred HHHHHHHHHHHhCceEEEECCC---CeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchhh------hhhcC-Ccccc
Confidence 3456788999999999999998 999999999999999965 468999876665432110 11111 11111
Q ss_pred eeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 94 ~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
.+ ...+|. .+.....|+.. +|.+.|++.+++|+|+.+..
T Consensus 290 ~~---~~~~~~--~~~~~~~~i~~--~~~~~G~v~~~~d~te~~~l 328 (545)
T PRK15053 290 VV---ANFNGL--SVIANREAIRS--GDDLLGAIISFRSKDEISTL 328 (545)
T ss_pred eE---EEECCE--EEEEEeeeEEE--CCeEEEEEEEEEchHHHHHH
Confidence 11 223443 34466788877 67888999999999998775
No 71
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=97.78 E-value=0.00016 Score=75.10 Aligned_cols=109 Identities=12% Similarity=0.217 Sum_probs=79.4
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEE
Q 015216 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (411)
Q Consensus 18 ~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (411)
..+..++++++++|+++|.+ |+|+++|+++++++|++.++++|+++.++++.. ..+..++..+.+......
T Consensus 203 ~~~~~il~~~~~gVl~vD~~---G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~~~------~~l~~vl~~~~~~~~~~~ 273 (638)
T PRK11388 203 NQLNALLESMDDGVIAWDEQ---GNLQFLNAQAARLLRLDATASQGRAITELLTLP------AVLQQAIKQAHPLKHVEV 273 (638)
T ss_pred HHHHHHHhccCCcEEEECCC---CeEehhhHHHHHHhCcCHHHHCCCcHHHHhccc------hHHHHHHhcCCceeeEEE
Confidence 34556899999999999998 999999999999999999999999877765321 123445666665443323
Q ss_pred EEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccccccc
Q 015216 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (411)
Q Consensus 98 ~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~ 138 (411)
....+|..+++.++..|+.+ ..|. +++.+.+|++..+.
T Consensus 274 ~l~~~g~~~~~~v~~~Pi~~-~~g~--~~v~~l~~~~~~~~ 311 (638)
T PRK11388 274 TFESQGQFIDAVITLKPIIE-GQGT--SFILLLHPVEQMRQ 311 (638)
T ss_pred EEecCCceEEEEEEEEeecc-cCce--EEEEEehhhHHHHH
Confidence 33456777788889999976 4553 35666778876543
No 72
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=97.65 E-value=9.3e-05 Score=51.74 Aligned_cols=44 Identities=23% Similarity=0.387 Sum_probs=34.8
Q ss_pred HHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccc
Q 015216 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFL 292 (411)
Q Consensus 242 ~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l 292 (411)
.++.+++++|.+|+++| .+ +|+++|+++++++||+ ..|+.+..+
T Consensus 2 ~~~~l~~~~~~~i~i~d-~~---~i~~~N~~~~~l~g~~---~~~~~~~~~ 45 (64)
T PF13188_consen 2 RYRSLFDNSPDGILIID-GG---RIIYVNPAFEELFGYS---LEGEDIGQL 45 (64)
T ss_dssp HHHHHHCCSSSEEEEEE-TS---BEEEE-HHHHHHHCS----HTCCCHHCT
T ss_pred HHHHHHHcCccceEEEE-CC---ChHHhhHHHHHHhCCC---CCCCCHHHh
Confidence 57889999999999999 32 8999999999999998 556655433
No 73
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.65 E-value=0.00029 Score=69.23 Aligned_cols=114 Identities=11% Similarity=0.037 Sum_probs=80.7
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
+..++++.+++..+.||+.+|.. |+|.-+|+++++|+|.+.++++|.++..+.+. +...+...-..+++..-
T Consensus 367 ~rr~f~E~VLsgvtaGVi~~d~~---g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap~-----~~~vf~~~~a~~~~~~~ 438 (712)
T COG5000 367 QRRRFLEAVLSGLTAGVIGFDNR---GCITTVNPSAEQILGKPFDQLLGQSLSAIAPE-----LEEVFAEAGAAARTDKR 438 (712)
T ss_pred HHHHHHHHHHhcCceeEEEEcCC---CeeEeecchHHHHhcCChhHhhcchhhhhhhH-----HHHHHHHhhhhcCCCcc
Confidence 34567889999999999999998 99999999999999999999999986655432 12222222222233222
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
....+...|+.+.+.+..+.... ++| -|++.++-|||+...+
T Consensus 439 ~ev~~~r~g~~rtl~Vq~t~~~~-d~~--~gyVvt~DDITdLV~A 480 (712)
T COG5000 439 VEVKLAREGEERTLNVQATREPE-DNG--NGYVVTFDDITDLVIA 480 (712)
T ss_pred ceeecccCCCceeeeeeeeeccc-ccC--CceEEEecchHHHHHH
Confidence 22234556677777777766555 323 3788999999999887
No 74
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.65 E-value=0.00023 Score=69.33 Aligned_cols=110 Identities=13% Similarity=0.169 Sum_probs=85.4
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchh--hhccCCCCCCCCCccchhHHHHHHHHHHhCCcc
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA--EIIGRNGRMFQGPRTNRRTIMEIREAIREERPI 92 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~e--eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 92 (411)
+.-++..++++++.+||+.+|.. |.|..+|.++++|+|+... +.+|+++.++++|+.. +...++.+.+.
T Consensus 212 ~l~~er~A~l~si~EGviAvd~~---G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~------l~~vl~~~~~~ 282 (537)
T COG3290 212 TLLEERQAMLQSIKEGVIAVDKK---GVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSD------LPEVLETGKPQ 282 (537)
T ss_pred HHHHHHHHHHHHhhceEEEECCC---CeEeehhHHHHHHhcccCcCcccccccceEeeccccC------cHHHHhcCCcc
Confidence 55567788999999999999999 9999999999999999765 6899998888876322 22345556554
Q ss_pred eeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 93 ~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
..+. .+-+|. ++-+.-.|+.. +|+++|++.++||=||-+..
T Consensus 283 ~~~e--~~~ng~--~~i~nr~pI~~--~~~~~GaI~tFRdktei~~L 323 (537)
T COG3290 283 HDEE--IRINGR--LLVANRVPIRS--GGQIVGAIITFRDKTEIKKL 323 (537)
T ss_pred cchh--hhcCCe--EEEEEeccEEE--CCEEeEEEEEEecHHHHHHH
Confidence 3322 233454 45567889987 89999999999999998876
No 75
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins.
Probab=97.64 E-value=0.00097 Score=54.58 Aligned_cols=101 Identities=15% Similarity=0.097 Sum_probs=76.6
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEE
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (411)
....|-+.|.+|+-.+... |..++|.|.++.++++++-+++++.+++.-..+..+......+.++.+.|-.....-.-.
T Consensus 33 ~~~~L~~ap~ailsh~~~~-dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG~~~~y~GiRi 111 (148)
T PF08670_consen 33 LAKALWHAPFAILSHGTKA-DPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQGYIDNYSGIRI 111 (148)
T ss_pred HHHHHHcCCCEEEEcCCCC-CCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhCCccCCCeEEE
Confidence 3344555899998887764 889999999999999999999999998777667666666677777777766554444445
Q ss_pred ecCCCEEEEE-EEeeEEEcCCCC
Q 015216 323 RKDKSSFWNL-LHISPIRNASGK 344 (411)
Q Consensus 323 ~~dG~~~~~~-~~~~~i~~~~g~ 344 (411)
.+.|+.++++ ..+=.+.|++|.
T Consensus 112 ss~Grrf~ie~a~vW~l~D~~g~ 134 (148)
T PF08670_consen 112 SSTGRRFRIERATVWNLIDEDGN 134 (148)
T ss_pred cCCCCeEEEeceEEEEEEcCCCC
Confidence 7889988765 344456788998
No 76
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.57 E-value=0.00089 Score=74.90 Aligned_cols=137 Identities=7% Similarity=-0.077 Sum_probs=76.5
Q ss_pred CcchhhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHH---HHHH
Q 015216 233 LPGMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQI---KESI 309 (411)
Q Consensus 233 ~~~l~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~---~~~~ 309 (411)
+..++.....+..+++++|++++++|. +|+|+++|+++++++|++.....+.+.....++. ....... ....
T Consensus 568 ~~~l~~~~~~~~~i~~~~~~~i~~~d~---~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~ 642 (1197)
T PRK09959 568 QGDLENQISFRKALSDSLPNPTYVVNW---QGNVISHNSAFEHYFTADYYKNAMLPLENSDSPF--KDVFSNAHEVTAET 642 (1197)
T ss_pred HHHHHHHHHHHHHHHhhCCCcEEEEcC---CCcEEEehHHHHHHhCcccccccccccccccCch--hhhHhHHHHHHHHH
Confidence 344455556677889999999999999 8899999999999999875433332221111110 1111110 0111
Q ss_pred hhcCceEEEEEEEecCCCEEEEEEEeeEEE-cCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHH
Q 015216 310 QTEQACTVRILNYRKDKSSFWNLLHISPIR-NASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQ 388 (411)
Q Consensus 310 ~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~-~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~ 388 (411)
..... .........+|...++.....++. ...+. ..++++...|||++++.+++|+...++
T Consensus 643 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~dite~~~~~~~l~~~~~~ 704 (1197)
T PRK09959 643 KENRT-IYTQVFEIDNGIEKRCINHWHTLCNLPASD-----------------HAVYICGWQDITETRDLIHALEVERNK 704 (1197)
T ss_pred hhccc-cceeeEeeecCccceeeeeeeeeeccCCCC-----------------ceEEEEEEEehhHHHHHHHHHHHHHHH
Confidence 11111 111122233443333222222222 22333 456788889999999999888876665
Q ss_pred HHHh
Q 015216 389 LSAI 392 (411)
Q Consensus 389 l~~~ 392 (411)
+...
T Consensus 705 ~~~~ 708 (1197)
T PRK09959 705 AINA 708 (1197)
T ss_pred HHHH
Confidence 5443
No 77
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.48 E-value=0.0015 Score=73.15 Aligned_cols=124 Identities=9% Similarity=0.009 Sum_probs=67.9
Q ss_pred HHhhhhHHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHH--HHHHHH
Q 015216 9 EQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIM--EIREAI 86 (411)
Q Consensus 9 e~~~~~~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~--~~~~~~ 86 (411)
+..++ ....+++.+++++|.+|+++|.+ |+|+++|+++++++|++.....+.+.....++. ...... ......
T Consensus 568 ~~~l~-~~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 642 (1197)
T PRK09959 568 QGDLE-NQISFRKALSDSLPNPTYVVNWQ---GNVISHNSAFEHYFTADYYKNAMLPLENSDSPF-KDVFSNAHEVTAET 642 (1197)
T ss_pred HHHHH-HHHHHHHHHHhhCCCcEEEEcCC---CcEEEehHHHHHHhCcccccccccccccccCch-hhhHhHHHHHHHHH
Confidence 33443 44567889999999999999998 999999999999999875433332222111111 110000 011111
Q ss_pred HhCCcceeeEEEEccCCCeEEEEEEEE-EeeecCCCeEEEEEEEeecccccccc
Q 015216 87 REERPIEVNLLNYKKDGTPFWMLFKMS-LVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 87 ~~~~~~~~e~~~~~~dG~~~~~~~~~~-pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
.... ..........+|...++..... +... ..+...++++...|||+++.+
T Consensus 643 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dite~~~~ 694 (1197)
T PRK09959 643 KENR-TIYTQVFEIDNGIEKRCINHWHTLCNL-PASDHAVYICGWQDITETRDL 694 (1197)
T ss_pred hhcc-ccceeeEeeecCccceeeeeeeeeecc-CCCCceEEEEEEEehhHHHHH
Confidence 1111 1112222334443332222222 2222 244456788889999998886
No 78
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=97.44 E-value=0.00048 Score=64.10 Aligned_cols=113 Identities=16% Similarity=0.198 Sum_probs=91.0
Q ss_pred HHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeE
Q 015216 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNL 96 (411)
Q Consensus 17 ~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 96 (411)
.+.+.++|++.|.-+..+|.+ +++.|.|+. .++|-.++. .+|++..... |.........+.+.+++|..-..++
T Consensus 289 ~~e~naif~~lP~Ditfvdk~---diV~ffs~~-~rif~rt~s-viGr~v~~ch-pPksv~iv~ki~~~fksG~kd~~ef 362 (409)
T COG2461 289 LEELNAIFKHLPVDITFVDKN---DIVRFFSGG-ERIFPRTPS-VIGRRVQLCH-PPKSVHIVEKILKDFKSGEKDFAEF 362 (409)
T ss_pred HHHHHHHHhhCCCceEEeccc---ceEEecCCc-ceecccChH-hhCCcccCCC-CCchHHHHHHHHHHhhcCCcchHHH
Confidence 467899999999889999998 899999988 888887764 5799987655 4455666788888899998777777
Q ss_pred EEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 97 ~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
+ ....+ ..+.+++.+++| ++|+..|++-+.+|||.-+..
T Consensus 363 w-~~~~~--~~i~i~Y~av~d-e~ge~~g~le~~qdi~~i~~l 401 (409)
T COG2461 363 W-INMGD--KFIHIRYFAVKD-EEGEYLGTLEVVQDITRIKEL 401 (409)
T ss_pred h-ccCCC--ceEEEEEEEEEc-CCCceeeeehhhhhhHHHHhc
Confidence 7 23323 245578999999 899999999999999998876
No 79
>smart00091 PAS PAS domain. PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels ([1]; Ponting & Aravind, in press).
Probab=97.39 E-value=0.00054 Score=45.25 Aligned_cols=59 Identities=22% Similarity=0.365 Sum_probs=48.3
Q ss_pred HHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHH
Q 015216 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIM 80 (411)
Q Consensus 19 ~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~ 80 (411)
+++.+++.++.++++++.. +.+.++|+.+..++|++..++.|..+..+.++.+......
T Consensus 2 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (67)
T smart00091 2 RLRAILESLPDGIFVLDLD---GRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQE 60 (67)
T ss_pred hHHHHHhhCCceEEEEcCC---CeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHH
Confidence 3567889999999999987 9999999999999999999999887766666655444333
No 80
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.33 E-value=0.0038 Score=56.64 Aligned_cols=94 Identities=16% Similarity=0.215 Sum_probs=73.5
Q ss_pred HHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCce-EEEEEEEe
Q 015216 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRILNYR 323 (411)
Q Consensus 245 ~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~~ 323 (411)
..+++++..++++|. ++.|.|+|++++.++|.+..-+.|..+..+++.. .....-+.+....+..+ ..++.+.
T Consensus 11 ~~Ln~~~~pVl~vd~---~~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~g--s~ll~ll~q~~~~~~~~~~~~v~l~- 84 (363)
T COG3852 11 AILNNLINPVLLVDD---ELAIHYANPAAEQLLAVSARRLAGTRLSELLPFG--SLLLSLLDQVLERGQPVTEYEVTLV- 84 (363)
T ss_pred hHHhccCCceEEEcC---CCcEEecCHHHHHHHHHHHHHHhcCChHHHcCCC--cHHHHHHHHHHHhcCCcccceeeee-
Confidence 467888999999999 8899999999999999999999999988777543 23444556666666554 3344443
Q ss_pred cCCCEEEEEEEeeEEEcCCCC
Q 015216 324 KDKSSFWNLLHISPIRNASGK 344 (411)
Q Consensus 324 ~dG~~~~~~~~~~~i~~~~g~ 344 (411)
.+|....++....|+....|.
T Consensus 85 ~~g~~~~v~~~v~~v~~~~G~ 105 (363)
T COG3852 85 ILGRSHIVDLTVAPVPEEPGS 105 (363)
T ss_pred ecCccceEEEEEeeccCCCCe
Confidence 789999999999999876676
No 81
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.19 E-value=0.0025 Score=57.76 Aligned_cols=106 Identities=12% Similarity=0.094 Sum_probs=81.2
Q ss_pred HHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcce-eeEEEE
Q 015216 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE-VNLLNY 99 (411)
Q Consensus 21 ~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~e~~~~ 99 (411)
..++++++.+|+++|.+ +.|.|+|++++.+||.+...+.|..+..+.+.. ......+.+....+.++. +++...
T Consensus 10 ~~~Ln~~~~pVl~vd~~---~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~g--s~ll~ll~q~~~~~~~~~~~~v~l~ 84 (363)
T COG3852 10 GAILNNLINPVLLVDDE---LAIHYANPAAEQLLAVSARRLAGTRLSELLPFG--SLLLSLLDQVLERGQPVTEYEVTLV 84 (363)
T ss_pred HhHHhccCCceEEEcCC---CcEEecCHHHHHHHHHHHHHHhcCChHHHcCCC--cHHHHHHHHHHHhcCCcccceeeee
Confidence 36899999999999998 999999999999999999999999888776543 234566777777776643 333333
Q ss_pred ccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccccc
Q 015216 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (411)
Q Consensus 100 ~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~ 136 (411)
.+|....++..+.|+.. ..|.+. ..+..+...
T Consensus 85 -~~g~~~~v~~~v~~v~~-~~G~vl---le~~~~~~~ 116 (363)
T COG3852 85 -ILGRSHIVDLTVAPVPE-EPGSVL---LEFHPRDMQ 116 (363)
T ss_pred -ecCccceEEEEEeeccC-CCCeEE---EEechhHHH
Confidence 79999999999999987 677544 344444433
No 82
>TIGR02373 photo_yellow photoactive yellow protein. Members of this family are photoactive yellow protein, a cytosolic, 14-kDa light-sensing protein which has a 4-hydroxycinnamyl (p-coumaric acid) chromophore covalently linked to a Cys residue. The enzyme 4-coumarate--CoA ligase as described by TIGR02372 is required for its biosynthesis. The modified Cys is in a PAS (pfam00989) domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.
Probab=97.16 E-value=0.0042 Score=48.70 Aligned_cols=67 Identities=18% Similarity=0.076 Sum_probs=54.4
Q ss_pred HHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCC-CCCCCccchhHHHHHHHHHHhCC
Q 015216 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGR-MFQGPRTNRRTIMEIREAIREER 90 (411)
Q Consensus 21 ~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~-~l~~~~~~~~~~~~~~~~~~~~~ 90 (411)
..-+|.+|.|++-+|.+ |+|+..|.+-..+.|++++.++|+++. ++-|--..+.+...+.+..+.|.
T Consensus 19 ~eelD~lpFGvI~lD~~---G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~ 86 (124)
T TIGR02373 19 DAQFDALPFGAIQLDGS---GVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGT 86 (124)
T ss_pred HhHhhcCCcceEEECCC---CEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCC
Confidence 34589999999999998 999999999999999999999999954 44444445556777777666664
No 83
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.03 E-value=0.013 Score=58.08 Aligned_cols=111 Identities=8% Similarity=0.008 Sum_probs=75.0
Q ss_pred HHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhh-cCceEEEEE
Q 015216 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQT-EQACTVRIL 320 (411)
Q Consensus 242 ~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~e~~ 320 (411)
-+...|+..+.|++..|. +|.+..+|+++++|+|.+.++++|+++..+-+ + +...+...-.. +.....++.
T Consensus 371 f~E~VLsgvtaGVi~~d~---~g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap-~----~~~vf~~~~a~~~~~~~~ev~ 442 (712)
T COG5000 371 FLEAVLSGLTAGVIGFDN---RGCITTVNPSAEQILGKPFDQLLGQSLSAIAP-E----LEEVFAEAGAAARTDKRVEVK 442 (712)
T ss_pred HHHHHHhcCceeEEEEcC---CCeeEeecchHHHHhcCChhHhhcchhhhhhh-H----HHHHHHHhhhhcCCCccceee
Confidence 356678899999999999 88999999999999999999999998654431 1 11122221112 222344444
Q ss_pred EEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHH
Q 015216 321 NYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRH 380 (411)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~ 380 (411)
+. ..|+.+.+.+..+....++| .+++.++-|||+...++.
T Consensus 443 ~~-r~g~~rtl~Vq~t~~~~d~~-------------------~gyVvt~DDITdLV~AQR 482 (712)
T COG5000 443 LA-REGEERTLNVQATREPEDNG-------------------NGYVVTFDDITDLVIAQR 482 (712)
T ss_pred cc-cCCCceeeeeeeeecccccC-------------------CceEEEecchHHHHHHHH
Confidence 43 34566666666655433333 378899999999887764
No 84
>smart00091 PAS PAS domain. PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels ([1]; Ponting & Aravind, in press).
Probab=97.00 E-value=0.0021 Score=42.25 Aligned_cols=59 Identities=24% Similarity=0.308 Sum_probs=47.3
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHH
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQ 304 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~ 304 (411)
+..+++.+++++++++. ++.+.++|+.+.+++|++..++.|..+..+.++.+.......
T Consensus 3 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (67)
T smart00091 3 LRAILESLPDGIFVLDL---DGRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEA 61 (67)
T ss_pred HHHHHhhCCceEEEEcC---CCeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHH
Confidence 44567788899999998 779999999999999999999998887777766665444433
No 85
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=96.91 E-value=0.0062 Score=62.06 Aligned_cols=80 Identities=14% Similarity=0.109 Sum_probs=63.2
Q ss_pred CCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCc---eEEEEEEEecCCCEEEEEEEee
Q 015216 260 HLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA---CTVRILNYRKDKSSFWNLLHIS 336 (411)
Q Consensus 260 ~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~---~~~e~~~~~~dG~~~~~~~~~~ 336 (411)
+.+.+.|..|..++..++||-+.+++|+.+..++|++|.......-...++.++. ....+|+...+|.++.++...+
T Consensus 337 HTptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ldTeWS 416 (1114)
T KOG3753|consen 337 HTPTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVRLDTEWS 416 (1114)
T ss_pred cCCcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEEEechhh
Confidence 3447788899999999999999999999999999999988877777777765543 3447888889999987766544
Q ss_pred EEE
Q 015216 337 PIR 339 (411)
Q Consensus 337 ~i~ 339 (411)
...
T Consensus 417 sFV 419 (1114)
T KOG3753|consen 417 SFV 419 (1114)
T ss_pred hcc
Confidence 433
No 86
>smart00086 PAC Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain). PAC motif occurs C-terminal to a subset of all known PAS motifs. It is proposed to contribute to the PAS domain fold.
Probab=96.52 E-value=0.016 Score=33.82 Aligned_cols=41 Identities=29% Similarity=0.448 Sum_probs=35.1
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccccc
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~ 136 (411)
++.....+|..+|+.....++.+ ..|.+.+++++..|||++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~di~~~ 43 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRD-EDGEVEGILGVVRDITER 43 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEEC-CCCCEEEEEEEEEeccCC
Confidence 44567789999999999999988 789999999999999863
No 87
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=96.47 E-value=0.0082 Score=56.13 Aligned_cols=116 Identities=7% Similarity=0.062 Sum_probs=89.1
Q ss_pred hhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEE
Q 015216 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (411)
Q Consensus 239 ~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (411)
.-..+++++.+.|.-+-.+|. ++.+.|.|+. .++|-.++. ++|+++.. .||.-.......+.+.+.+|..-..+
T Consensus 288 ~~~e~naif~~lP~Ditfvdk---~diV~ffs~~-~rif~rt~s-viGr~v~~-chpPksv~iv~ki~~~fksG~kd~~e 361 (409)
T COG2461 288 SLEELNAIFKHLPVDITFVDK---NDIVRFFSGG-ERIFPRTPS-VIGRRVQL-CHPPKSVHIVEKILKDFKSGEKDFAE 361 (409)
T ss_pred eHHHHHHHHhhCCCceEEecc---cceEEecCCc-ceecccChH-hhCCcccC-CCCCchHHHHHHHHHHhhcCCcchHH
Confidence 445688999999988888888 7799999998 888887775 57888764 45555566677777888888776666
Q ss_pred EEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHH
Q 015216 319 ILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRH 380 (411)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~ 380 (411)
+.. +.-+ ..+.++..+++|++|+ ..|++-+..|||.-|..+-
T Consensus 362 fw~-~~~~--~~i~i~Y~av~de~ge-----------------~~g~le~~qdi~~i~~l~g 403 (409)
T COG2461 362 FWI-NMGD--KFIHIRYFAVKDEEGE-----------------YLGTLEVVQDITRIKELEG 403 (409)
T ss_pred Hhc-cCCC--ceEEEEEEEEEcCCCc-----------------eeeeehhhhhhHHHHhccc
Confidence 662 2222 3456788999999999 9999999999999887653
No 88
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=96.46 E-value=0.0068 Score=56.31 Aligned_cols=90 Identities=18% Similarity=0.191 Sum_probs=64.3
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
|.+..+.++++++|++|+.+|.. |.+..+|+++++++|.+.+++.|.+...++....-.+ .+.++ +...
T Consensus 77 R~hl~L~aLL~al~~pVlsvd~k---g~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~~-------~l~~~-~~~~ 145 (511)
T COG3283 77 REHLALSALLEALPEPVLSVDMK---GKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFLR-------WLEGE-PQRS 145 (511)
T ss_pred hHhHHHHHHHHhCCCceEEeccc---CceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHHH-------HHhcC-CCcC
Confidence 45667899999999999999998 9999999999999999999999998777665443332 22222 2222
Q ss_pred eEEEEccCCCeEEEEEEEEEeee
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFG 117 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~ 117 (411)
-.....-+|..+..+ ++|+..
T Consensus 146 ~~~~V~~~gq~~lme--itPv~~ 166 (511)
T COG3283 146 HNEHVVINGQNFLME--ITPVYL 166 (511)
T ss_pred CCceEEEcchhheee--ccceee
Confidence 122234467666655 566654
No 89
>TIGR02373 photo_yellow photoactive yellow protein. Members of this family are photoactive yellow protein, a cytosolic, 14-kDa light-sensing protein which has a 4-hydroxycinnamyl (p-coumaric acid) chromophore covalently linked to a Cys residue. The enzyme 4-coumarate--CoA ligase as described by TIGR02372 is required for its biosynthesis. The modified Cys is in a PAS (pfam00989) domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.
Probab=96.34 E-value=0.03 Score=43.97 Aligned_cols=64 Identities=16% Similarity=0.094 Sum_probs=50.6
Q ss_pred HhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCC-chHHHHHHHHHHhhcC
Q 015216 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT-DTTVLYQIKESIQTEQ 313 (411)
Q Consensus 247 l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~-~~~~~~~~~~~~~~~~ 313 (411)
++..|-|++-.|. +|.|+..|.+-.++.|++++.++|+++..-+.|.. .+.+...+.+....|.
T Consensus 22 lD~lpFGvI~lD~---~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~ 86 (124)
T TIGR02373 22 FDALPFGAIQLDG---SGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGT 86 (124)
T ss_pred hhcCCcceEEECC---CCEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCC
Confidence 6788999999999 88999999999999999999999999755455554 3445556666555444
No 90
>smart00086 PAC Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain). PAC motif occurs C-terminal to a subset of all known PAS motifs. It is proposed to contribute to the PAS domain fold.
Probab=96.34 E-value=0.026 Score=32.80 Aligned_cols=41 Identities=32% Similarity=0.428 Sum_probs=34.8
Q ss_pred EEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhh
Q 015216 318 RILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCR 375 (411)
Q Consensus 318 e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~ 375 (411)
++.....+|..+|+.....++.+.+|. +.+++++..|||++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~~di~~~ 43 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRDEDGE-----------------VEGILGVVRDITER 43 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEECCCCC-----------------EEEEEEEEEeccCC
Confidence 455677899999999999999988888 88999999999863
No 91
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=96.03 E-value=0.079 Score=43.25 Aligned_cols=103 Identities=14% Similarity=0.139 Sum_probs=82.1
Q ss_pred HHhhCCCeEEEEcCCC-CCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEcc
Q 015216 23 ALDELPDSFTITDPSI-SGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKK 101 (411)
Q Consensus 23 l~e~~~~~i~i~d~~~-~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 101 (411)
+-..+|.. ++++... .+.++..+=....+++|+ |+.|+++.+++.+.........+..++..+.+..........
T Consensus 33 i~~~Lp~i-~ile~~~~~~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~ 108 (137)
T PF07310_consen 33 IPRLLPHI-FILEVDDPGDFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVRARGRAEDA 108 (137)
T ss_pred HHHHhCCe-EEEEEeCCCceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEEEEEEEecC
Confidence 34455553 4444432 246777788899999997 567999999988888888888888888899998888888889
Q ss_pred CCCeEEEEEEEEEeeecCCCeEEEEEEEe
Q 015216 102 DGTPFWMLFKMSLVFGKEDGRATHFVAVQ 130 (411)
Q Consensus 102 dG~~~~~~~~~~pi~~~~~g~~~~~~~~~ 130 (411)
+|....++...-|+.+ ++|.+..++|..
T Consensus 109 ~g~~~~~e~l~LPL~~-~~~~v~rilG~~ 136 (137)
T PF07310_consen 109 DGRYLEYERLLLPLRS-DGGTVDRILGAL 136 (137)
T ss_pred CCCeeEEEEEEcccCC-CCCCccEEEEec
Confidence 9999999999999999 789898888864
No 92
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=95.90 E-value=0.15 Score=55.51 Aligned_cols=121 Identities=7% Similarity=-0.009 Sum_probs=76.1
Q ss_pred chhhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCc
Q 015216 235 GMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA 314 (411)
Q Consensus 235 ~l~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 314 (411)
.+...++.++.+++.+|.++++.+.. ++.+++.|+.+..++|+...+. ... +...+....
T Consensus 328 ~L~e~e~~~r~iv~~~p~gi~i~~~~--~g~~~~~N~~a~~~~~l~~~~~-------------~~~----~~~~~~~~~- 387 (924)
T PRK10841 328 RLEEHEQFNRKIVASAPVGICILRTS--DGTNILSNELAHNYLNMLTHED-------------RQR----LTQIICGQQ- 387 (924)
T ss_pred HHHHHHHHHHHHHHhCCccEEEEEcC--CCcEEEehHHHHHHhccCChhH-------------HHH----HHHHHhccc-
Confidence 45566677888999999999999753 8899999999999988643221 111 111111111
Q ss_pred eEEEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHHHHHHHHHHhhh
Q 015216 315 CTVRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIGA 394 (411)
Q Consensus 315 ~~~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~~ 394 (411)
... ......++....+.+ .+... .|. ...++++.|||++++++++|+++.+.++..+.
T Consensus 388 ~~~-~~~~~~~~~~~~i~~--~~~~~-~~~------------------~~~i~~~~Dit~r~~~e~~L~~~~~~~e~a~~ 445 (924)
T PRK10841 388 VNF-VDVLTSNNTNLQISF--VHSRY-RNE------------------NVAICVLVDVSARVKMEESLQEMAQAAEQASQ 445 (924)
T ss_pred cce-eeEEcCCCcEEEEEE--Eeeee-cCc------------------eEEEEEEEEhhHHHHHHHHHHHHHHHHHHHHH
Confidence 111 112233444433333 23222 223 34678899999999999999998888887766
Q ss_pred HHH
Q 015216 395 IKV 397 (411)
Q Consensus 395 ~~~ 397 (411)
.++
T Consensus 446 ~k~ 448 (924)
T PRK10841 446 SKS 448 (924)
T ss_pred HHH
Confidence 654
No 93
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=95.82 E-value=0.032 Score=54.16 Aligned_cols=94 Identities=14% Similarity=0.161 Sum_probs=79.0
Q ss_pred CccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCCeEEEEEEEEEeeecC
Q 015216 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKE 119 (411)
Q Consensus 40 dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~ 119 (411)
|+..+.+......++||...|+.|++...+++-+|..-......+.+++|..--.-+|..+|+|++.|+..+..-++-
T Consensus 292 Dfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~qtk~grw~wvqssarllyk-- 369 (712)
T KOG3560|consen 292 DFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQTKAGRWAWVQSSARLLYK-- 369 (712)
T ss_pred ccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCCcceEEEEEeecCCcEEEeeccceeeee--
Confidence 467777888899999999999999999999988877666667778889998888888999999999999988766665
Q ss_pred CCeEEEEEEEeecccc
Q 015216 120 DGRATHFVAVQVPIVS 135 (411)
Q Consensus 120 ~g~~~~~~~~~~DITe 135 (411)
+|++-.++.+.+-.++
T Consensus 370 ngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 370 NGKPDLVIDTHRGLGD 385 (712)
T ss_pred cCCCCEEEecCCCccc
Confidence 8998888877776665
No 94
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=95.10 E-value=0.25 Score=40.25 Aligned_cols=79 Identities=15% Similarity=0.154 Sum_probs=69.2
Q ss_pred CCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEcCC
Q 015216 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNAS 342 (411)
Q Consensus 263 d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~~~ 342 (411)
+.++-.+-...++++|+ |+-|+++.++..+.....+...+..++....+..........+|....++...-|+.+.+
T Consensus 50 ~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~~g~~~~~e~l~LPL~~~~ 126 (137)
T PF07310_consen 50 DFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVRARGRAEDADGRYLEYERLLLPLRSDG 126 (137)
T ss_pred ceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEEEEEEEecCCCCeeEEEEEEcccCCCC
Confidence 55677889999999997 667999999988888888888888888888888888888889999999999999999988
Q ss_pred CC
Q 015216 343 GK 344 (411)
Q Consensus 343 g~ 344 (411)
|.
T Consensus 127 ~~ 128 (137)
T PF07310_consen 127 GT 128 (137)
T ss_pred CC
Confidence 88
No 95
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=95.08 E-value=0.048 Score=50.84 Aligned_cols=56 Identities=16% Similarity=0.084 Sum_probs=49.4
Q ss_pred HHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchH
Q 015216 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT 300 (411)
Q Consensus 242 ~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~ 300 (411)
.+.++++++|+.+..+|. .|.+..+|++++.++|.+.+.+.|++...++...+.+.
T Consensus 81 ~L~aLL~al~~pVlsvd~---kg~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~~ 136 (511)
T COG3283 81 ALSALLEALPEPVLSVDM---KGKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFLR 136 (511)
T ss_pred HHHHHHHhCCCceEEecc---cCceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHHH
Confidence 477889999999999999 77999999999999999999999999888876665443
No 96
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=94.30 E-value=0.093 Score=49.15 Aligned_cols=85 Identities=8% Similarity=0.051 Sum_probs=66.4
Q ss_pred eEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCCeEEEE
Q 015216 30 SFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWML 109 (411)
Q Consensus 30 ~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 109 (411)
.+++...+ .+++|......+++||++.+++|+.+...++..|.......-...+..|....--++++.+.|.+.|+.
T Consensus 227 FmfraslD---lkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwvq 303 (598)
T KOG3559|consen 227 FMFRASLD---LKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWVQ 303 (598)
T ss_pred EEEEeecc---eEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceEEEE
Confidence 34455554 899999999999999999999999987777666665555555566667766555677889999999998
Q ss_pred EEEEEeee
Q 015216 110 FKMSLVFG 117 (411)
Q Consensus 110 ~~~~pi~~ 117 (411)
.....+.+
T Consensus 304 syat~vHn 311 (598)
T KOG3559|consen 304 SYATFVHN 311 (598)
T ss_pred EeeEEEec
Confidence 87777766
No 97
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=93.75 E-value=0.048 Score=56.56 Aligned_cols=95 Identities=15% Similarity=0.165 Sum_probs=71.6
Q ss_pred CCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcC-ceEEEEEEEecCCCEEEEEEEeeEEEcC
Q 015216 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ-ACTVRILNYRKDKSSFWNLLHISPIRNA 341 (411)
Q Consensus 263 d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~~dG~~~~~~~~~~~i~~~ 341 (411)
+|.++++-.....+.||...++.|..+..+.|+++.......+........ ....-++.+.++|.+.|.........|.
T Consensus 381 ~g~~~~~dqr~~~i~~~~~~~~~g~ss~~s~h~~d~~~~~~s~~~~~~~s~~~~~~~yr~~~~n~~~~~~~~~~~~~~n~ 460 (803)
T KOG3561|consen 381 DGSFTFVDQRASAILGYQPQELLGRSSYESSHPADSSPLSESLKQVQALSEQRSTLLYRFRSKNGSSIPNKSSAYLFSNP 460 (803)
T ss_pred CCceeccccccccccccCchhhcCcccccccCccccchhhchHHHHHHhcccccccccccccCCCCccccccccccccCC
Confidence 889999999999999999999999999999999988877777665554333 3445677788999999987766655554
Q ss_pred CCCcccccccCccccccccceeEEEEEeechh
Q 015216 342 SGKQLASTFNSTSFTICPVEIAYFAAVHTEEG 373 (411)
Q Consensus 342 ~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT 373 (411)
.-+ .+.+++++-.-+.
T Consensus 461 ~s~----------------~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 461 GSD----------------EVEYIVCTNSNVP 476 (803)
T ss_pred Ccc----------------ccceeeecccccc
Confidence 333 1567777666655
No 98
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=93.37 E-value=0.88 Score=49.21 Aligned_cols=43 Identities=7% Similarity=-0.017 Sum_probs=36.5
Q ss_pred chhhhhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCC
Q 015216 235 GMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGY 279 (411)
Q Consensus 235 ~l~~~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~ 279 (411)
.+.......+.+++++|+|+++.|.. +++++++|+++.+++|+
T Consensus 337 ~L~~~~~l~~~Ii~~lp~Gilv~D~~--~~~Ii~~N~aA~~ll~~ 379 (894)
T PRK10618 337 ELRILRALNEEIVSNLPLGLLVYDFE--SNRTVISNKIADHLLPH 379 (894)
T ss_pred HHHHHHHHHHHHHHhCCceEEEEECC--CCeEEEEhHHHHHHhCc
Confidence 35556667888999999999999953 78999999999999975
No 99
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=93.02 E-value=0.054 Score=56.16 Aligned_cols=59 Identities=17% Similarity=0.201 Sum_probs=45.7
Q ss_pred HHHHH-HhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHH
Q 015216 242 SLYIS-LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLY 303 (411)
Q Consensus 242 ~l~~~-l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~ 303 (411)
.|.-+ |+.+...++++.- +|+|+||++....++||..+|++|+++..+.||.+......
T Consensus 95 eL~~LmLeAlDGF~fvV~c---dG~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~ 154 (803)
T KOG3561|consen 95 ELTHLILEALDGFLFVVNC---DGRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPRE 154 (803)
T ss_pred HHHHHHHHHhcCeEEEEec---CceEEEEecchHHhhCcCHHHHhcchHHHhcCccccCcccc
Confidence 34433 4444344566666 89999999999999999999999999999999887655443
No 100
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=92.60 E-value=1.3 Score=44.69 Aligned_cols=102 Identities=13% Similarity=0.056 Sum_probs=56.9
Q ss_pred HHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchh-hhccCCCCCCCCCccchhHHHHHHHHHHhCCcceee
Q 015216 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA-EIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVN 95 (411)
Q Consensus 17 ~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~e-eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 95 (411)
.+++-..+-..+.++++.|.+ |.++..+-.-........- -..|..|++ ....-..+-.++..+++...-
T Consensus 76 L~~L~~~v~~~~~~vLLtD~~---GViL~~~G~~~~~~~~rk~gl~~Ga~WSE------~~~GTNgIGTcLve~~aVtI~ 146 (606)
T COG3284 76 LDRLFQAVAGSGCCVLLTDAD---GVILERRGDPRDDEDFRKAGLWLGAVWSE------PREGTNGIGTCLVEGEAVTIH 146 (606)
T ss_pred HHHHHHHhcCCCeEEEEEcCc---eeEEEeecChhhhhhhhhhcccccccccc------ccccccchhhhhccCcceEEe
Confidence 355666777889999999998 9888765432211111110 012222221 111124455666667665432
Q ss_pred EEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEE
Q 015216 96 LLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAV 129 (411)
Q Consensus 96 ~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~ 129 (411)
-.-.-.. ....+.+++.||+| ..|+++|++.+
T Consensus 147 ~~qHF~~-~~~~lsCsAaPI~D-~qG~L~gVLDI 178 (606)
T COG3284 147 GDQHFIQ-AHHGLSCSAAPIFD-EQGELVGVLDI 178 (606)
T ss_pred hhhhHhh-cccCceeeeecccc-CCCcEEEEEEe
Confidence 1111112 22345688999999 99999998743
No 101
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=92.31 E-value=1.2 Score=35.21 Aligned_cols=89 Identities=21% Similarity=0.212 Sum_probs=56.5
Q ss_pred CeEEEEcCCCCCccEEEe-cHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHh---CCcceeeEEEEccCCC
Q 015216 29 DSFTITDPSISGHPIVFA-SRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIRE---ERPIEVNLLNYKKDGT 104 (411)
Q Consensus 29 ~~i~i~d~~~~dg~i~~~-N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~---~~~~~~e~~~~~~dG~ 104 (411)
.-|++.|...++..|+++ |.. +-||...+ |.. ....+.+.. ...+...+....++|+
T Consensus 20 ~EVVLHDl~~~~~sIv~I~Ng~-----------vsgR~vGd---p~t-----~~~l~~l~~~~~~~~~~~nY~~~~~~Gk 80 (118)
T PF08348_consen 20 CEVVLHDLSDPEHSIVAIANGH-----------VSGRKVGD---PIT-----DLALELLKEKQYEEDYIINYKTKTKDGK 80 (118)
T ss_pred eEEEEEECCCCCCEEEEEECCC-----------ccCCccCC---chh-----HHHHHHHhccccCCCccccccccCCCCC
Confidence 347777877667888887 532 22333221 110 112222332 2334455666788995
Q ss_pred eEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 105 PFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 105 ~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
. +..+...+++ ++|+++|++|+-.|+|.-..+
T Consensus 81 ~--lrSsT~~Ird-~~g~~iG~LCIN~D~s~~~~~ 112 (118)
T PF08348_consen 81 I--LRSSTFFIRD-ENGKLIGALCINFDISALEQA 112 (118)
T ss_pred E--EEEEEEEEEC-CCCCEEEEEEEEeccHHHHHH
Confidence 4 5677889999 899999999999999987664
No 102
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=91.53 E-value=3.9 Score=44.65 Aligned_cols=100 Identities=10% Similarity=0.081 Sum_probs=60.8
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
...+..+.+++.+|.++++++.. ||.++++|+.+..++|+...+. .. .+...+.... ...
T Consensus 331 e~e~~~r~iv~~~p~gi~i~~~~--~g~~~~~N~~a~~~~~l~~~~~-------------~~----~~~~~~~~~~-~~~ 390 (924)
T PRK10841 331 EHEQFNRKIVASAPVGICILRTS--DGTNILSNELAHNYLNMLTHED-------------RQ----RLTQIICGQQ-VNF 390 (924)
T ss_pred HHHHHHHHHHHhCCccEEEEEcC--CCcEEEehHHHHHHhccCChhH-------------HH----HHHHHHhccc-cce
Confidence 34567788999999999999865 6999999999999988643221 11 1112221111 111
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccch
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~~ 140 (411)
......++....+ ...+... .|+. ..++++.|||++++++
T Consensus 391 -~~~~~~~~~~~~i--~~~~~~~--~~~~-~~i~~~~Dit~r~~~e 430 (924)
T PRK10841 391 -VDVLTSNNTNLQI--SFVHSRY--RNEN-VAICVLVDVSARVKME 430 (924)
T ss_pred -eeEEcCCCcEEEE--EEEeeee--cCce-EEEEEEEEhhHHHHHH
Confidence 1223345544433 3333333 2333 3678899999999873
No 103
>PF08348 PAS_6: YheO-like PAS domain; InterPro: IPR013559 This domain is found in various hypothetical bacterial proteins that are similar to the Escherichia coli protein YheO (P64624 from SWISSPROT). Their function is unknown, but a few members are annotated as being HTH-containing proteins and putative DNA-binding proteins.
Probab=90.17 E-value=7.9 Score=30.56 Aligned_cols=50 Identities=16% Similarity=0.074 Sum_probs=39.8
Q ss_pred eEEEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhhhhHHHHHHH
Q 015216 315 CTVRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGCRNQDRHGLS 383 (411)
Q Consensus 315 ~~~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~~k~~e~~L~ 383 (411)
+...+....++|+ .+..+...++|++|+ +.+++|+-.|+|...++..-|.
T Consensus 68 ~~~nY~~~~~~Gk--~lrSsT~~Ird~~g~-----------------~iG~LCIN~D~s~~~~~~~~L~ 117 (118)
T PF08348_consen 68 YIINYKTKTKDGK--ILRSSTFFIRDENGK-----------------LIGALCINFDISALEQAQNFLD 117 (118)
T ss_pred ccccccccCCCCC--EEEEEEEEEECCCCC-----------------EEEEEEEEeccHHHHHHHHHHc
Confidence 4445556678885 457788899999999 9999999999999887766553
No 104
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3S7O_A 2O9B_A 3S7P_A 1ZTU_A 3S7N_A 3S7Q_A 2O9C_A 2OOL_A 3C2W_G 3NHQ_B ....
Probab=88.56 E-value=0.42 Score=37.29 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=35.3
Q ss_pred eEEEEcCCCCCccEEEecHHHHHHhCCc---hhhhccCCCCCCCCCcc
Q 015216 30 SFTITDPSISGHPIVFASRGFLKMSGFS---RAEIIGRNGRMFQGPRT 74 (411)
Q Consensus 30 ~i~i~d~~~~dg~i~~~N~~~~~l~G~~---~eeliG~~~~~l~~~~~ 74 (411)
.++++|.. +++|++++.....++|.+ .++++|+++..++.+..
T Consensus 17 ~LLa~d~~--~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~ 62 (110)
T PF08446_consen 17 ALLALDPD--DLRIVQASENIAELLGIPPELPEELLGRPLSELLGAES 62 (110)
T ss_dssp EEEEEETT--TTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCC
T ss_pred EEEEEECC--CCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHH
Confidence 45567765 699999999999999999 99999999888876543
No 105
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3S7O_A 2O9B_A 3S7P_A 1ZTU_A 3S7N_A 3S7Q_A 2O9C_A 2OOL_A 3C2W_G 3NHQ_B ....
Probab=87.31 E-value=0.78 Score=35.78 Aligned_cols=43 Identities=28% Similarity=0.506 Sum_probs=35.0
Q ss_pred EEEEcCCCCCCCEEEecHHHHHHhCCC---cccccCCccccccCCCCc
Q 015216 254 FVLIDPHLPDMPMVYASDAFLKLTGYD---RNEVVGQNCRFLNGVDTD 298 (411)
Q Consensus 254 i~~~d~~~~d~~i~~~N~~~~~l~G~~---~~e~~g~~~~~l~~~~~~ 298 (411)
++.+|.. +++|+.++.....++|.+ .++++|+++..++.+...
T Consensus 18 LLa~d~~--~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~~ 63 (110)
T PF08446_consen 18 LLALDPD--DLRIVQASENIAELLGIPPELPEELLGRPLSELLGAESA 63 (110)
T ss_dssp EEEEETT--TTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCCH
T ss_pred EEEEECC--CCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHHH
Confidence 4556653 789999999999999999 899999999888866543
No 106
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=87.18 E-value=1.4 Score=45.74 Aligned_cols=89 Identities=10% Similarity=0.138 Sum_probs=66.4
Q ss_pred CccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhC-Cc--ceeeEEEEccCCCeEEEEEEEEEee
Q 015216 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RP--IEVNLLNYKKDGTPFWMLFKMSLVF 116 (411)
Q Consensus 40 dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~-~~--~~~e~~~~~~dG~~~~~~~~~~pi~ 116 (411)
.+.|..|..++..++||-+.++||+++..+++++|.....+....+++.+ .+ ....+++...+|.++.++...+-+.
T Consensus 340 tClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ldTeWSsFV 419 (1114)
T KOG3753|consen 340 TCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVRLDTEWSSFV 419 (1114)
T ss_pred cceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEEEechhhhcc
Confidence 47788999999999999999999999999999988776666555666544 44 2346778889999998887766665
Q ss_pred ecCCCeEEEEEE
Q 015216 117 GKEDGRATHFVA 128 (411)
Q Consensus 117 ~~~~g~~~~~~~ 128 (411)
++-.-++..+||
T Consensus 420 NPWSRKieFVvG 431 (1114)
T KOG3753|consen 420 NPWSRKIEFVVG 431 (1114)
T ss_pred Chhhhheeeeee
Confidence 533344554444
No 107
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=80.07 E-value=3.4 Score=36.21 Aligned_cols=40 Identities=18% Similarity=0.063 Sum_probs=34.9
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCch
Q 015216 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR 58 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~ 58 (411)
..+-+..+++..|.+++|-+.+ |.+++.|.+|.+.+.-.-
T Consensus 17 ~~~~~~~~i~~~~~P~CiR~~~---g~fi~~N~~F~~~f~~~~ 56 (217)
T PRK13719 17 LPESLTAFIDDYSYPACIRNES---GKFIFYNTLFLKEFLGQL 56 (217)
T ss_pred hHHHHHHHHHcCCCCeEEECCC---CCeeecchHHHHHHHhcC
Confidence 3456788999999999999998 999999999999987543
No 108
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=78.17 E-value=4.7 Score=43.71 Aligned_cols=40 Identities=13% Similarity=0.075 Sum_probs=35.4
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCC
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGF 56 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~ 56 (411)
......+.+++++|+|++++|.. +++|+++|+++.+++|+
T Consensus 340 ~~~~l~~~Ii~~lp~Gilv~D~~--~~~Ii~~N~aA~~ll~~ 379 (894)
T PRK10618 340 ILRALNEEIVSNLPLGLLVYDFE--SNRTVISNKIADHLLPH 379 (894)
T ss_pred HHHHHHHHHHHhCCceEEEEECC--CCeEEEEhHHHHHHhCc
Confidence 45667889999999999999965 59999999999999985
No 109
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=77.83 E-value=3.9 Score=37.71 Aligned_cols=89 Identities=12% Similarity=0.252 Sum_probs=57.5
Q ss_pred HHHHHHhhC----CCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHh--CCcc
Q 015216 19 WVHEALDEL----PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIRE--ERPI 92 (411)
Q Consensus 19 ~l~~l~e~~----~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~--~~~~ 92 (411)
..+.++|++ ..+++++.+. +.+.+|+|.-+..++||+.++++..... ++ ......|...+.. ....
T Consensus 284 dcRrLfDsLreEnlgmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~d-IV-----~eGl~qW~~dL~~~s~~E~ 355 (401)
T PF06785_consen 284 DCRRLFDSLREENLGMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFSD-IV-----QEGLAQWETDLQLLSRQER 355 (401)
T ss_pred HHHHHHhhhcccccceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcchH-HH-----HhhHHHHHHHHHhhhhhhh
Confidence 345566654 4577888876 6899999999999999999998754221 11 1122333333332 2223
Q ss_pred eeeEEEEccCCCeEEEEEEEEEe
Q 015216 93 EVNLLNYKKDGTPFWMLFKMSLV 115 (411)
Q Consensus 93 ~~e~~~~~~dG~~~~~~~~~~pi 115 (411)
.....+.+|+|....+..+...+
T Consensus 356 ~grlviKTK~~g~ipf~ycL~ii 378 (401)
T PF06785_consen 356 SGRLVIKTKNGGNIPFYYCLGII 378 (401)
T ss_pred hceEEEEecCCCceeeEEEEeec
Confidence 45566788999888777666655
No 110
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=75.15 E-value=24 Score=35.68 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=33.0
Q ss_pred hhhHHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhC
Q 015216 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTG 278 (411)
Q Consensus 239 ~~~~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G 278 (411)
.+..+..++.++|.||++.|. ++.+.|+||-...+++
T Consensus 73 ~~~~~~~al~nmPiGii~~~e---~~~veW~Npf~~~if~ 109 (655)
T COG3887 73 AEKSLEEALTNMPIGIILFNE---TNKVEWVNPFASKIFN 109 (655)
T ss_pred HHHHHHHHHHhCCceEEEEcC---CCceEEecHHHHHhcC
Confidence 456788899999999999997 8899999999999886
No 111
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.38 E-value=18 Score=30.87 Aligned_cols=107 Identities=16% Similarity=0.220 Sum_probs=77.8
Q ss_pred HHHhhCCCeEEEEcCCCCCccE--EEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEE
Q 015216 22 EALDELPDSFTITDPSISGHPI--VFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (411)
Q Consensus 22 ~l~e~~~~~i~i~d~~~~dg~i--~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (411)
.+-..+++.+++-+.. +|.+ .-+-...+.+|| .|+.|+.+..++.+.+.......+..+.....++-+.....
T Consensus 52 ~l~slL~d~FiL~~~~--~G~~~FRLAGTriC~LfG---RELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~ 126 (209)
T COG5388 52 KLKSLLPDVFILERDG--RGKLPFRLAGTRICDLFG---RELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGR 126 (209)
T ss_pred HHHhhcCceEEEeccC--CCCceEEecccchhhhhc---hhhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchh
Confidence 3556677755544432 2444 345556677777 58889998888888777776667777777777777777777
Q ss_pred ccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccc
Q 015216 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (411)
Q Consensus 100 ~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DIT 134 (411)
...|...-++.-..|+.. .+|+...++|...-+.
T Consensus 127 s~~G~sl~fEmLl~PL~~-~~g~~~R~LGais~~~ 160 (209)
T COG5388 127 SHGGRSLGFEMLLAPLQG-ASGETDRFLGAISPIA 160 (209)
T ss_pred hccCcccceeeeeecccC-CCCCccchhhhccccc
Confidence 888888888999999999 8898777888766654
No 112
>PF09308 LuxQ-periplasm: LuxQ, periplasmic; InterPro: IPR015387 This entry represents the periplasmic sensor domain of the prokaryotic protein LuxQ, that assumes a structure consisting of two tandem Per/ARNT/Simple-minded (PAS) folds []. ; GO: 0004673 protein histidine kinase activity, 0016791 phosphatase activity; PDB: 2HJ9_C 2HJE_A 1ZHH_B 3C30_A 3C38_A.
Probab=71.89 E-value=53 Score=29.32 Aligned_cols=83 Identities=12% Similarity=0.154 Sum_probs=51.0
Q ss_pred hhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCC
Q 015216 25 DELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGT 104 (411)
Q Consensus 25 e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~ 104 (411)
+.+|+--++.+.+ + ++|.++-..++|.+... ...+......+..|.+.. ....+.
T Consensus 69 ~~~pDfRFi~~~~---~--~~WdDgN~~FYGi~~~~------------------L~~ls~~~~~~~~W~~i~--~~s~~g 123 (238)
T PF09308_consen 69 SNAPDFRFISSHD---G--VIWDDGNAPFYGISESS------------------LQHLSQKVAFSNNWHYIQ--TPSSMG 123 (238)
T ss_dssp CCS-SEEEEEETT---C--EEEE-SHHHHCT--HHH------------------HHHHHHHT-STTS-EEEE--EEETTC
T ss_pred cCCCCEEEEEeCC---C--cEEeCCCCcccCcCHHH------------------HHHHhhcccccCceeEEE--ecCCCC
Confidence 4567777777765 3 45677778888876543 344555555566665532 344566
Q ss_pred eEEEEEEEEEeeecCCCeEEEEEEEeec
Q 015216 105 PFWMLFKMSLVFGKEDGRATHFVAVQVP 132 (411)
Q Consensus 105 ~~~~~~~~~pi~~~~~g~~~~~~~~~~D 132 (411)
.+.+.++-+|+.+...|+++|++-++.-
T Consensus 124 ~~~lLvRR~pIi~~~tGEVlG~Ly~gvV 151 (238)
T PF09308_consen 124 NRYLLVRRTPIIDPKTGEVLGYLYIGVV 151 (238)
T ss_dssp EEEEEEEEEEEE-TTTSBEEEEEEEEEE
T ss_pred ceEEEEeecceeeCCCCeEEEEEEEEEE
Confidence 6777788999988788999998766544
No 113
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=68.33 E-value=8.3 Score=41.33 Aligned_cols=48 Identities=19% Similarity=0.101 Sum_probs=38.9
Q ss_pred HHHHHHHHHhhCCCeEEEEc-CCCCCccEEEecHHHHHHhCCchhhhccCCCCCC
Q 015216 16 YTLWVHEALDELPDSFTITD-PSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMF 69 (411)
Q Consensus 16 ~~~~l~~l~e~~~~~i~i~d-~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l 69 (411)
...-.+.++..+|.|++++| .+ |+|.|+|+.|..++| .+ ++|+++..+
T Consensus 100 ~~~~~~~~l~~~p~gi~~~~~~~---~~i~W~N~~~~~~~~--~~-~~g~~i~~~ 148 (838)
T PRK14538 100 VSQIGEEVLNELPIGIVLIDISS---KEIQWLNPYANFILK--NP-EINTPLAQI 148 (838)
T ss_pred HhHHHHHHHHhCCceEEEEeCCC---CEEEEECHHHHHHhC--cc-ccCCcHHHh
Confidence 44556678999999999999 55 999999999999988 23 789887653
No 114
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=66.93 E-value=65 Score=33.00 Aligned_cols=92 Identities=12% Similarity=0.039 Sum_probs=45.5
Q ss_pred HHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCccc-ccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEE
Q 015216 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNE-VVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILN 321 (411)
Q Consensus 243 l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e-~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 321 (411)
+...+...+.+++++|. +|.++..+-.-....+.+.-- ..|..|.+-.-.. ..+.-++..+++...--.-
T Consensus 79 L~~~v~~~~~~vLLtD~---~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~GT------NgIGTcLve~~aVtI~~~q 149 (606)
T COG3284 79 LFQAVAGSGCCVLLTDA---DGVILERRGDPRDDEDFRKAGLWLGAVWSEPREGT------NGIGTCLVEGEAVTIHGDQ 149 (606)
T ss_pred HHHHhcCCCeEEEEEcC---ceeEEEeecChhhhhhhhhhccccccccccccccc------cchhhhhccCcceEEehhh
Confidence 44456667788999999 788886554422211111111 1233333221111 1233334444443221110
Q ss_pred EecCCCEEEEEEEeeEEEcCCCC
Q 015216 322 YRKDKSSFWNLLHISPIRNASGK 344 (411)
Q Consensus 322 ~~~dG~~~~~~~~~~~i~~~~g~ 344 (411)
.-. -....+.+++.||+|+.|+
T Consensus 150 HF~-~~~~~lsCsAaPI~D~qG~ 171 (606)
T COG3284 150 HFI-QAHHGLSCSAAPIFDEQGE 171 (606)
T ss_pred hHh-hcccCceeeeeccccCCCc
Confidence 011 1223457899999999999
No 115
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=64.70 E-value=15 Score=37.14 Aligned_cols=42 Identities=12% Similarity=0.125 Sum_probs=36.0
Q ss_pred hhhHHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCC
Q 015216 12 FNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGF 56 (411)
Q Consensus 12 ~~~~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~ 56 (411)
++.+.+.-++.++.++|.||+++|.+ +++.|+||-+..+|+-
T Consensus 69 ls~~~~~~~~~al~nmPiGii~~~e~---~~veW~Npf~~~if~~ 110 (655)
T COG3887 69 LSYQAEKSLEEALTNMPIGIILFNET---NKVEWVNPFASKIFNK 110 (655)
T ss_pred HHHHHHHHHHHHHHhCCceEEEEcCC---CceEEecHHHHHhcCh
Confidence 34456677889999999999999976 9999999999998863
No 116
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=54.63 E-value=57 Score=25.33 Aligned_cols=74 Identities=18% Similarity=0.217 Sum_probs=41.8
Q ss_pred ccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecCCCEEEE
Q 015216 252 QSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWN 331 (411)
Q Consensus 252 ~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 331 (411)
+-++++|. +|.+++-+. .+.+|+++.. .+ ..+++ .|+.+... ...++ -+.
T Consensus 40 ~~i~v~D~---~g~~l~~s~----------~~~iG~~~~~----~~-------~~~aL-~G~~~~~~---~~~~~--~~~ 89 (116)
T PF14827_consen 40 DYIVVTDR---DGIVLAHSD----------PERIGDRYSD----ED-------VRKAL-QGKSYTSV---SQGTG--GPS 89 (116)
T ss_dssp SEEEEECT---TSBECE-SS----------CCCTTSB-SS----CC-------HCHHC-CT--EEEE---EECTT--CEE
T ss_pred eEEEEEcC---CCCEEEcCC----------hHHcCCcccC----CC-------hhhhh-cCCceEEe---eecCC--ceE
Confidence 45788998 667766432 3557776532 11 23344 45554443 22223 345
Q ss_pred EEEeeEEEcCCCCcccccccCccccccccceeEEEEEeech
Q 015216 332 LLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEE 372 (411)
Q Consensus 332 ~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DI 372 (411)
.....||+|.+|+ +.|++.+...+
T Consensus 90 ~~~~~PV~d~~g~-----------------viG~V~VG~~~ 113 (116)
T PF14827_consen 90 LRAFAPVYDSDGK-----------------VIGVVSVGVSL 113 (116)
T ss_dssp EEEEEEEE-TTS------------------EEEEEEEEEEH
T ss_pred EEEEEeeECCCCc-----------------EEEEEEEEEEc
Confidence 5678999999999 99999887654
No 117
>PF09884 DUF2111: Uncharacterized protein conserved in archaea (DUF2111); InterPro: IPR012029 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, members of PIRSF036667 from PIRSF possess a domain homologous to these proteins fused within a signal transduction sensor protein containing PAS/PAC and GAF domains. Therefore, it is possible that members of this family are involved in signal transduction (possibly as a sensor).
Probab=53.47 E-value=56 Score=23.77 Aligned_cols=47 Identities=13% Similarity=0.134 Sum_probs=34.0
Q ss_pred HHHHHhhcCceEEEEEEEecCCCEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechh
Q 015216 305 IKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEG 373 (411)
Q Consensus 305 ~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT 373 (411)
+.+.+.+++.. +.....|.+.=+-+...|+++.+|+ +.+.+|++ |+|
T Consensus 37 Le~vl~~g~v~----r~~P~~G~Y~G~PViV~PI~~~~g~-----------------viaAiGvV-D~t 83 (84)
T PF09884_consen 37 LEEVLETGKVI----RVTPIEGPYKGVPVIVAPIKDEDGE-----------------VIAAIGVV-DLT 83 (84)
T ss_pred HHHHHHcCCEE----EeccCCcccCCeeEEEEEEEcCCCC-----------------EEEEEEEE-Ecc
Confidence 44556666543 3345667777777889999999999 88888874 665
No 118
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=50.02 E-value=26 Score=32.51 Aligned_cols=79 Identities=16% Similarity=0.261 Sum_probs=51.2
Q ss_pred ccEEEEcCCCCCCCEEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHh--hcCceEEEEEEEecCCCEE
Q 015216 252 QSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQ--TEQACTVRILNYRKDKSSF 329 (411)
Q Consensus 252 ~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~~~~dG~~~ 329 (411)
.++++..+. +.+.+|+|.-+..++||+.++++......+. .....+...+. ......+.+.+.+|.|...
T Consensus 298 gmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~dIV~------eGl~qW~~dL~~~s~~E~~grlviKTK~~g~i 369 (401)
T PF06785_consen 298 GMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFSDIVQ------EGLAQWETDLQLLSRQERSGRLVIKTKNGGNI 369 (401)
T ss_pred ceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcchHHHH------hhHHHHHHHHHhhhhhhhhceEEEEecCCCce
Confidence 345555553 7799999999999999999988754322221 12222322222 2334567788889999988
Q ss_pred EEEEEeeEE
Q 015216 330 WNLLHISPI 338 (411)
Q Consensus 330 ~~~~~~~~i 338 (411)
.+.+....+
T Consensus 370 pf~ycL~ii 378 (401)
T PF06785_consen 370 PFYYCLGII 378 (401)
T ss_pred eeEEEEeec
Confidence 877766554
No 119
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=49.05 E-value=85 Score=26.94 Aligned_cols=92 Identities=15% Similarity=0.126 Sum_probs=63.2
Q ss_pred hcccccEEEEcCCCCCCC--EEEecHHHHHHhCCCcccccCCccccccCCCCchHHHHHHHHHHhhcCceEEEEEEEecC
Q 015216 248 GRIKQSFVLIDPHLPDMP--MVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKD 325 (411)
Q Consensus 248 ~~~~~~i~~~d~~~~d~~--i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~d 325 (411)
...++-+++.+.. +|. +-.+-...|.++| .|+-|..+..+..+.+.......+..+.....+.-.........
T Consensus 55 slL~d~FiL~~~~--~G~~~FRLAGTriC~LfG---RELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~s~~ 129 (209)
T COG5388 55 SLLPDVFILERDG--RGKLPFRLAGTRICDLFG---RELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGRSHG 129 (209)
T ss_pred hhcCceEEEeccC--CCCceEEecccchhhhhc---hhhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchhhcc
Confidence 4456655554432 344 4446666788887 57888888777777777776666666666666655555556667
Q ss_pred CCEEEEEEEeeEEEcCCCC
Q 015216 326 KSSFWNLLHISPIRNASGK 344 (411)
Q Consensus 326 G~~~~~~~~~~~i~~~~g~ 344 (411)
|...-+++-..|+....|+
T Consensus 130 G~sl~fEmLl~PL~~~~g~ 148 (209)
T COG5388 130 GRSLGFEMLLAPLQGASGE 148 (209)
T ss_pred CcccceeeeeecccCCCCC
Confidence 8888889999999888887
No 120
>PF09884 DUF2111: Uncharacterized protein conserved in archaea (DUF2111); InterPro: IPR012029 There are currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, members of PIRSF036667 from PIRSF possess a domain homologous to these proteins fused within a signal transduction sensor protein containing PAS/PAC and GAF domains. Therefore, it is possible that members of this family are involved in signal transduction (possibly as a sensor).
Probab=47.59 E-value=70 Score=23.29 Aligned_cols=47 Identities=15% Similarity=0.169 Sum_probs=31.9
Q ss_pred HHHHHHhCCcceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccc
Q 015216 82 IREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (411)
Q Consensus 82 ~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DIT 134 (411)
+.+++.+++... .....|.+.=+-+...|+++ .+|++++.+|+. |+|
T Consensus 37 Le~vl~~g~v~r----~~P~~G~Y~G~PViV~PI~~-~~g~viaAiGvV-D~t 83 (84)
T PF09884_consen 37 LEEVLETGKVIR----VTPIEGPYKGVPVIVAPIKD-EDGEVIAAIGVV-DLT 83 (84)
T ss_pred HHHHHHcCCEEE----eccCCcccCCeeEEEEEEEc-CCCCEEEEEEEE-Ecc
Confidence 456666665432 23445665555567899999 889999999974 554
No 121
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=46.70 E-value=33 Score=30.20 Aligned_cols=37 Identities=14% Similarity=0.042 Sum_probs=32.2
Q ss_pred HHHHHHhcccccEEEEcCCCCCCCEEEecHHHHHHhCCCc
Q 015216 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR 281 (411)
Q Consensus 242 ~l~~~l~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~ 281 (411)
.+..++...|.++++-+. +|.+++.|.+|.+++.-.-
T Consensus 20 ~~~~~i~~~~~P~CiR~~---~g~fi~~N~~F~~~f~~~~ 56 (217)
T PRK13719 20 SLTAFIDDYSYPACIRNE---SGKFIFYNTLFLKEFLGQL 56 (217)
T ss_pred HHHHHHHcCCCCeEEECC---CCCeeecchHHHHHHHhcC
Confidence 566778889999999999 8899999999999987543
No 122
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=45.39 E-value=29 Score=37.31 Aligned_cols=46 Identities=11% Similarity=0.010 Sum_probs=37.5
Q ss_pred hHHHHHHhcccccEEEEc-CCCCCCCEEEecHHHHHHhCCCcccccCCccccc
Q 015216 241 SSLYISLGRIKQSFVLID-PHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFL 292 (411)
Q Consensus 241 ~~l~~~l~~~~~~i~~~d-~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~l 292 (411)
+.....+..+|.|+++.| . ++.|+|+|+.|.+++| .+ ++|+++..+
T Consensus 102 ~~~~~~l~~~p~gi~~~~~~---~~~i~W~N~~~~~~~~--~~-~~g~~i~~~ 148 (838)
T PRK14538 102 QIGEEVLNELPIGIVLIDIS---SKEIQWLNPYANFILK--NP-EINTPLAQI 148 (838)
T ss_pred HHHHHHHHhCCceEEEEeCC---CCEEEEECHHHHHHhC--cc-ccCCcHHHh
Confidence 345667888999999999 6 7899999999999988 33 889887653
No 123
>PF10114 PocR: Sensory domain found in PocR; InterPro: IPR018771 This entry is thought to act as a sensory domain in histidine kinases catalysing the reaction: ATP + protein L-histidine = ADP + protein N- phospho-L-histidine.
Probab=44.96 E-value=1.8e+02 Score=24.18 Aligned_cols=97 Identities=13% Similarity=0.105 Sum_probs=53.3
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCccee
Q 015216 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (411)
Q Consensus 15 ~~~~~l~~l~e~~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (411)
.....+..+.+.+..++.++|.+ |..+.....+..+-.+-...-.|... -.........++.+.++++
T Consensus 9 ~lq~i~~~fs~~tgl~~~i~d~~---G~~l~~~~~~~~fC~~~~~~~~~~~~-------C~~~~~~~~~~a~~~~~~~-- 76 (173)
T PF10114_consen 9 ELQEIQDSFSKATGLSIVIVDPD---GNPLTQPSNFCPFCKLIRSSPEGRER-------CRESDRRLAEQAMKKGEPY-- 76 (173)
T ss_pred HHHHHHHHHHHHHCCcEEEEeCC---CCEEeeCCCchhhhhHHhcCCccccc-------CHHHHHHHHHHhhccCCCE--
Confidence 45566777888899999999998 88874433333333222211111110 0001111122334444443
Q ss_pred eEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEee
Q 015216 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQV 131 (411)
Q Consensus 95 e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~ 131 (411)
.+....|-..| +.||.- +|+.+|++....
T Consensus 77 --i~~C~~GL~~~----~~PI~~--~g~~iG~i~~G~ 105 (173)
T PF10114_consen 77 --IYRCHAGLVDI----AVPIIV--DGEYIGYIICGQ 105 (173)
T ss_pred --EEEcCcCceee----eeeEEE--CCEEEEEEEEEE
Confidence 34566775444 579988 889999886653
No 124
>PF12282 H_kinase_N: Signal transduction histidine kinase; InterPro: IPR022066 This domain is found in bacteria. This domain is about 150 amino acids in length. This domain is found associated with PF07568 from PFAM, PF08448 from PFAM, PF02518 from PFAM. This domain has a single completely conserved residue P that may be functionally important. This family is mostly annotated as a histidine kinase involved in signal transduction but there is little published evidence to support this. ; PDB: 2YKH_B 2YKF_A.
Probab=40.27 E-value=90 Score=25.59 Aligned_cols=55 Identities=9% Similarity=0.064 Sum_probs=25.8
Q ss_pred HHHHHHHHhCCcceeeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccccccc
Q 015216 80 MEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (411)
Q Consensus 80 ~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~k~~ 139 (411)
..+.+++.+|.+....-. . ......+...+.||++ +|++++++..-.++...+..
T Consensus 79 p~v~~a~~tg~~~~~~~~-~--~~~~~~v~~~~~PI~~--~~~vIaVl~~~~~~~~~~~~ 133 (145)
T PF12282_consen 79 PAVDRALETGRPVRGGRA-V--WQGGVPVRQEVVPIRR--NGRVIAVLIRETNLSASRTP 133 (145)
T ss_dssp HHHHHHHH---------------------EEEEEEEEE--TTEEEEEEEEE--GGGS---
T ss_pred HHHHHHHHhCCceecCCc-c--ccCCceeEEEEEEEEE--CCEEEEEEEEEcccccccCC
Confidence 456777888876543211 1 1222356778999999 67999999877777666554
No 125
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=37.00 E-value=4.9e+02 Score=26.81 Aligned_cols=96 Identities=16% Similarity=0.118 Sum_probs=57.7
Q ss_pred HHHHHHHHHHhh-CCCeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcce
Q 015216 15 RYTLWVHEALDE-LPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (411)
Q Consensus 15 ~~~~~l~~l~e~-~~~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 93 (411)
+.+..|+.+-.. -...++++|+. |..+-++.. + .+...+|+++. +...+.++++++....
T Consensus 86 ~~n~~L~~in~~a~ss~iYlid~~---G~~iaASNw-----~-~p~SFVG~nya----------fRpYf~~Am~gg~~r~ 146 (603)
T COG4191 86 AANRYLEQINEAAGSSAIYLIDPT---GLTLAASNW-----N-LPTSFVGRNYA----------FRPYFQDAMAGGSGRF 146 (603)
T ss_pred HHHHHHHHHHhhccCCeEEEECCC---CcEEeeccC-----C-CCCcccccCcc----------cHHHHHHHHhcCCcee
Confidence 456666666554 34568899998 766654421 2 23456666543 3456778888776544
Q ss_pred eeEEEEccCCCeEEEEEEEEEeeecCCCeEEEEEEEeecccc
Q 015216 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVS 135 (411)
Q Consensus 94 ~e~~~~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe 135 (411)
+-+- .-.|.+-++ -..|+.. .|+++|++++-.|+..
T Consensus 147 yalG--tts~~pGyy--~a~pV~~--~~~ilGvivvKvdl~~ 182 (603)
T COG4191 147 YALG--TTSGRPGYY--LAAPVDD--GGGILGVIVVKVDLDR 182 (603)
T ss_pred Eeec--cccCCCcee--Eeeeecc--CCceeEEEEEEEehHH
Confidence 3322 123333332 2678887 6669999988776543
No 126
>PF02743 Cache_1: Cache domain; InterPro: IPR004010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions [].; GO: 0016020 membrane; PDB: 3C8C_A 3LIB_D 3LIA_A 3LI8_A 3LI9_A.
Probab=31.48 E-value=1e+02 Score=21.86 Aligned_cols=30 Identities=10% Similarity=0.217 Sum_probs=23.2
Q ss_pred EEEEEEEEEeeecCCCeEEEEEEEeeccccc
Q 015216 106 FWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (411)
Q Consensus 106 ~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~ 136 (411)
.++-....|+++ .+|++.|++++..++...
T Consensus 12 ~~vi~~s~pi~~-~~g~~~Gvv~~di~l~~l 41 (81)
T PF02743_consen 12 QPVITISVPIYD-DDGKIIGVVGIDISLDQL 41 (81)
T ss_dssp EEEEEEEEEEEE-TTTEEEEEEEEEEEHHHH
T ss_pred cEEEEEEEEEEC-CCCCEEEEEEEEecccee
Confidence 355566889999 899999999886665543
No 127
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=23.57 E-value=1.2e+02 Score=23.52 Aligned_cols=74 Identities=23% Similarity=0.285 Sum_probs=40.5
Q ss_pred CeEEEEcCCCCCccEEEecHHHHHHhCCchhhhccCCCCCCCCCccchhHHHHHHHHHHhCCcceeeEEEEccCCCeEEE
Q 015216 29 DSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWM 108 (411)
Q Consensus 29 ~~i~i~d~~~~dg~i~~~N~~~~~l~G~~~eeliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 108 (411)
+-+++.|.+ |++++-+ ..+.+|+++.. . + ...++ .|.++... ...++ -+.
T Consensus 40 ~~i~v~D~~---g~~l~~s----------~~~~iG~~~~~-~---~-------~~~aL-~G~~~~~~---~~~~~--~~~ 89 (116)
T PF14827_consen 40 DYIVVTDRD---GIVLAHS----------DPERIGDRYSD-E---D-------VRKAL-QGKSYTSV---SQGTG--GPS 89 (116)
T ss_dssp SEEEEECTT---SBECE-S----------SCCCTTSB-SS-C---C-------HCHHC-CT--EEEE---EECTT--CEE
T ss_pred eEEEEEcCC---CCEEEcC----------ChHHcCCcccC-C---C-------hhhhh-cCCceEEe---eecCC--ceE
Confidence 447788987 8776543 34556766543 1 0 23344 55554443 22223 233
Q ss_pred EEEEEEeeecCCCeEEEEEEEeecc
Q 015216 109 LFKMSLVFGKEDGRATHFVAVQVPI 133 (411)
Q Consensus 109 ~~~~~pi~~~~~g~~~~~~~~~~DI 133 (411)
.....|+++ .+|+++|++.+...+
T Consensus 90 ~~~~~PV~d-~~g~viG~V~VG~~~ 113 (116)
T PF14827_consen 90 LRAFAPVYD-SDGKVIGVVSVGVSL 113 (116)
T ss_dssp EEEEEEEE--TTS-EEEEEEEEEEH
T ss_pred EEEEEeeEC-CCCcEEEEEEEEEEc
Confidence 345789998 899999999887654
No 128
>PF02743 Cache_1: Cache domain; InterPro: IPR004010 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions [].; GO: 0016020 membrane; PDB: 3C8C_A 3LIB_D 3LIA_A 3LI8_A 3LI9_A.
Probab=23.56 E-value=2.2e+02 Score=20.07 Aligned_cols=31 Identities=16% Similarity=0.094 Sum_probs=23.5
Q ss_pred CEEEEEEEeeEEEcCCCCcccccccCccccccccceeEEEEEeechhh
Q 015216 327 SSFWNLLHISPIRNASGKQLASTFNSTSFTICPVEIAYFAAVHTEEGC 374 (411)
Q Consensus 327 ~~~~~~~~~~~i~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~DIT~ 374 (411)
...++-....|+++.+|+ +.|++++-.++..
T Consensus 10 ~~~~vi~~s~pi~~~~g~-----------------~~Gvv~~di~l~~ 40 (81)
T PF02743_consen 10 TGQPVITISVPIYDDDGK-----------------IIGVVGIDISLDQ 40 (81)
T ss_dssp TTEEEEEEEEEEEETTTE-----------------EEEEEEEEEEHHH
T ss_pred CCcEEEEEEEEEECCCCC-----------------EEEEEEEEeccce
Confidence 334667788999998999 8898887655543
No 129
>COG2964 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.51 E-value=1.2e+02 Score=26.70 Aligned_cols=35 Identities=14% Similarity=0.241 Sum_probs=27.4
Q ss_pred EccCCCeEEEEEEEEEeeecCCCeEEEEEEEeeccccc
Q 015216 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (411)
Q Consensus 99 ~~~dG~~~~~~~~~~pi~~~~~g~~~~~~~~~~DITe~ 136 (411)
+-++|.. +..+...+++ ..|+++|++|+-.|++-.
T Consensus 85 ~~~~g~~--ikSsS~~Irn-~~g~~iGmLCIN~d~s~l 119 (220)
T COG2964 85 RAKDGRL--IKSSSIFIRN-KEGRIIGMLCINMDLSLL 119 (220)
T ss_pred cCCCCce--eeeeEEEEEc-CCCCEEEEEEEecchhhh
Confidence 3445543 5567778999 999999999999999943
No 130
>cd07055 BMC_like_2 Bacterial Micro-Compartment (BMC)-like domain 2. BMC like 2 domains exist in cyanobacteria, proteobacteria, and actinobacteria and are homologs of carboxysome shell proteins. They might be encoded from putative organelles involved in unknown metabolic process. Although it has been suggested that these carboxysome shell protein homologs form hexamers and further assemble into the flat facets of the polyhedral bacterial organelles shell at present no experimental evidence exists to directly support this view.
Probab=21.65 E-value=1.5e+02 Score=20.25 Aligned_cols=24 Identities=21% Similarity=0.387 Sum_probs=15.3
Q ss_pred cccccccceeEEEEEeechhhhhHH
Q 015216 354 SFTICPVEIAYFAAVHTEEGCRNQD 378 (411)
Q Consensus 354 ~~~~~~~~i~~~~~~~~DIT~~k~~ 378 (411)
.|++||.....+ .+.=|+++-+.+
T Consensus 30 ~f~gCPq~~~~l-~i~Gdvs~Ve~A 53 (61)
T cd07055 30 IFGSCPQHMITL-AIFGETSAVELA 53 (61)
T ss_pred ecCCCCCceEEE-EEEecHHHHHHH
Confidence 478899888643 345677766433
Done!