Query 016138
Match_columns 394
No_of_seqs 415 out of 1219
Neff 11.1
Searched_HMMs 46136
Date Fri Mar 29 04:08:39 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016138.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016138hhsearch_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 2.6E-28 5.5E-33 243.5 27.1 260 15-374 201-481 (807)
2 PRK09776 putative diguanylate 100.0 1.6E-28 3.4E-33 252.1 25.5 260 15-375 280-541 (1092)
3 PRK13560 hypothetical protein; 100.0 1.3E-26 2.8E-31 231.3 27.5 260 16-376 65-338 (807)
4 TIGR02040 PpsR-CrtJ transcript 99.9 1E-25 2.2E-30 208.2 25.7 237 15-362 130-368 (442)
5 PRK09776 putative diguanylate 99.9 5.8E-26 1.3E-30 233.2 26.3 253 15-368 407-664 (1092)
6 PRK11359 cyclic-di-GMP phospho 99.9 1.5E-24 3.3E-29 215.8 25.7 244 18-367 12-260 (799)
7 TIGR02938 nifL_nitrog nitrogen 99.9 2E-25 4.4E-30 210.3 16.8 246 18-367 4-260 (494)
8 TIGR02040 PpsR-CrtJ transcript 99.9 7.3E-24 1.6E-28 195.9 21.5 250 23-366 1-251 (442)
9 PF13426 PAS_9: PAS domain; PD 99.8 7.6E-19 1.6E-23 128.5 12.6 104 28-135 1-104 (104)
10 PF13426 PAS_9: PAS domain; PD 99.8 1.7E-18 3.6E-23 126.7 13.8 104 251-357 1-104 (104)
11 PF08448 PAS_4: PAS fold; Int 99.8 1.1E-17 2.4E-22 123.7 10.9 110 24-138 1-110 (110)
12 PF00989 PAS: PAS fold; Inter 99.7 3.1E-17 6.8E-22 121.9 12.6 112 18-133 1-113 (113)
13 PF08448 PAS_4: PAS fold; Int 99.7 3.9E-17 8.4E-22 120.7 12.8 110 247-360 1-110 (110)
14 PF00989 PAS: PAS fold; Inter 99.7 4.3E-16 9.3E-21 115.7 13.3 111 242-355 2-113 (113)
15 PRK13559 hypothetical protein; 99.6 6.4E-15 1.4E-19 133.0 16.9 131 241-371 43-173 (361)
16 PRK13557 histidine kinase; Pro 99.6 1.3E-14 2.9E-19 138.4 17.6 130 240-369 29-158 (540)
17 PRK11091 aerobic respiration c 99.6 8.3E-15 1.8E-19 145.4 14.6 135 234-371 148-282 (779)
18 PRK13559 hypothetical protein; 99.6 4E-14 8.7E-19 127.8 16.7 123 16-139 41-163 (361)
19 PRK13558 bacterio-opsin activa 99.6 6.4E-14 1.4E-18 136.6 17.8 133 243-375 150-282 (665)
20 PRK11091 aerobic respiration c 99.6 5E-14 1.1E-18 139.9 15.3 121 15-139 152-272 (779)
21 PRK13557 histidine kinase; Pro 99.6 5.4E-14 1.2E-18 134.2 14.2 124 15-139 27-150 (540)
22 TIGR02938 nifL_nitrog nitrogen 99.6 2.7E-14 5.8E-19 134.8 12.0 133 241-376 4-136 (494)
23 PRK10060 RNase II stability mo 99.6 1.2E-13 2.6E-18 133.7 16.2 122 243-368 113-236 (663)
24 PRK13558 bacterio-opsin activa 99.5 6.3E-13 1.4E-17 129.7 16.2 120 19-139 149-268 (665)
25 COG3829 RocR Transcriptional r 99.5 1.4E-12 3.1E-17 116.1 15.1 234 21-373 4-237 (560)
26 PF08447 PAS_3: PAS fold; Int 99.5 6.7E-13 1.5E-17 94.1 10.4 86 266-352 1-91 (91)
27 PF08447 PAS_3: PAS fold; Int 99.4 6.2E-13 1.3E-17 94.3 9.1 86 43-130 1-91 (91)
28 TIGR00229 sensory_box PAS doma 99.4 5E-12 1.1E-16 93.3 12.1 119 242-364 4-123 (124)
29 PRK10060 RNase II stability mo 99.4 1.1E-11 2.4E-16 120.0 16.0 119 16-139 109-229 (663)
30 KOG3558 Hypoxia-inducible fact 99.3 2.8E-11 6E-16 109.4 14.5 104 254-358 275-379 (768)
31 TIGR00229 sensory_box PAS doma 99.3 2.8E-11 6E-16 89.3 11.6 117 18-139 3-120 (124)
32 PRK11359 cyclic-di-GMP phospho 99.3 4.5E-11 9.7E-16 119.6 12.6 121 16-140 134-255 (799)
33 PF13596 PAS_10: PAS domain; P 99.2 1.6E-10 3.5E-15 84.3 10.1 106 20-134 1-106 (106)
34 cd00130 PAS PAS domain; PAS mo 99.2 7.6E-10 1.6E-14 77.9 12.7 103 27-133 1-103 (103)
35 cd00130 PAS PAS domain; PAS mo 99.2 1.7E-09 3.7E-14 76.0 13.2 102 251-355 2-103 (103)
36 PF12860 PAS_7: PAS fold 99.1 2.4E-10 5.3E-15 84.7 8.8 103 24-139 1-113 (115)
37 PRK11360 sensory histidine kin 99.1 2E-09 4.3E-14 104.4 17.4 124 241-370 262-386 (607)
38 PF12860 PAS_7: PAS fold 99.1 6.3E-10 1.4E-14 82.5 10.4 105 247-363 1-115 (115)
39 PRK11073 glnL nitrogen regulat 99.1 1.1E-09 2.5E-14 98.4 13.9 118 242-369 8-125 (348)
40 PF13596 PAS_10: PAS domain; P 99.1 6.4E-10 1.4E-14 81.1 8.6 106 243-356 1-106 (106)
41 PF14598 PAS_11: PAS domain; P 99.1 3.2E-09 7E-14 77.3 12.1 102 32-136 6-109 (111)
42 TIGR02966 phoR_proteo phosphat 99.1 1.9E-09 4.1E-14 96.2 12.7 112 239-366 4-115 (333)
43 PRK11388 DNA-binding transcrip 99.1 3.5E-08 7.6E-13 95.5 22.2 107 243-360 205-311 (638)
44 PF14598 PAS_11: PAS domain; P 99.0 5.8E-09 1.3E-13 76.0 12.0 95 263-357 11-108 (111)
45 TIGR02966 phoR_proteo phosphat 99.0 1.6E-09 3.5E-14 96.7 10.8 108 15-139 3-110 (333)
46 PRK11073 glnL nitrogen regulat 99.0 3.1E-09 6.8E-14 95.5 12.1 111 18-139 7-117 (348)
47 KOG0501 K+-channel KCNQ [Inorg 99.0 3E-09 6.4E-14 94.8 10.2 123 16-139 12-139 (971)
48 PRK11360 sensory histidine kin 98.9 1.2E-08 2.6E-13 98.9 13.4 117 16-139 260-377 (607)
49 PRK11086 sensory histidine kin 98.8 1.9E-07 4.1E-12 89.4 17.1 123 236-373 216-341 (542)
50 KOG0501 K+-channel KCNQ [Inorg 98.8 1.6E-08 3.4E-13 90.3 8.3 110 252-361 28-139 (971)
51 COG5002 VicK Signal transducti 98.8 1.3E-07 2.7E-12 79.8 12.3 114 15-139 108-221 (459)
52 COG3829 RocR Transcriptional r 98.8 7E-08 1.5E-12 86.7 11.5 112 15-139 114-225 (560)
53 COG2202 AtoS FOG: PAS/PAC doma 98.8 1.7E-06 3.6E-11 70.4 19.0 115 243-361 114-231 (232)
54 PRK15053 dpiB sensor histidine 98.7 4.3E-06 9.3E-11 80.1 23.3 120 240-375 221-342 (545)
55 COG5002 VicK Signal transducti 98.7 2.7E-07 5.8E-12 77.8 12.2 120 241-370 111-230 (459)
56 PRK10820 DNA-binding transcrip 98.7 9.6E-08 2.1E-12 89.6 10.1 110 15-138 77-190 (520)
57 KOG3559 Transcriptional regula 98.5 2.2E-06 4.7E-11 73.3 13.0 100 263-362 234-336 (598)
58 PRK11006 phoR phosphate regulo 98.5 2E-07 4.3E-12 86.3 7.6 106 15-139 95-200 (430)
59 PRK10820 DNA-binding transcrip 98.5 7E-07 1.5E-11 83.8 11.0 106 241-359 80-189 (520)
60 PRK11006 phoR phosphate regulo 98.5 3.7E-07 7.9E-12 84.6 9.0 110 239-366 96-205 (430)
61 COG3290 CitA Signal transducti 98.5 2.6E-06 5.7E-11 76.8 13.5 127 235-375 209-337 (537)
62 PF13188 PAS_8: PAS domain; PD 98.5 2.1E-07 4.5E-12 60.7 4.8 43 18-67 1-43 (64)
63 COG2202 AtoS FOG: PAS/PAC doma 98.4 1.1E-05 2.4E-10 65.5 13.0 119 16-139 110-231 (232)
64 KOG3560 Aryl-hydrocarbon recep 98.3 2E-06 4.2E-11 76.4 8.2 102 254-357 284-385 (712)
65 PF08670 MEKHLA: MEKHLA domain 98.3 1.5E-05 3.3E-10 60.1 11.5 113 18-133 32-145 (148)
66 PRK11086 sensory histidine kin 98.3 4.6E-06 1E-10 79.9 11.1 109 15-139 218-329 (542)
67 KOG1229 3'5'-cyclic nucleotide 98.3 5.4E-07 1.2E-11 78.0 2.8 107 241-350 157-264 (775)
68 KOG3558 Hypoxia-inducible fact 98.2 2.6E-06 5.5E-11 78.1 5.2 105 31-136 275-379 (768)
69 KOG1229 3'5'-cyclic nucleotide 98.1 2E-06 4.2E-11 74.7 2.9 106 19-128 158-264 (775)
70 PRK11388 DNA-binding transcrip 98.1 2.4E-05 5.1E-10 76.1 10.7 109 18-138 203-311 (638)
71 PF13188 PAS_8: PAS domain; PD 98.1 9.3E-06 2E-10 52.8 5.4 42 242-290 2-43 (64)
72 COG5000 NtrY Signal transducti 98.1 5.2E-05 1.1E-09 69.3 11.3 114 15-139 367-480 (712)
73 PF08670 MEKHLA: MEKHLA domain 98.0 0.00025 5.4E-09 53.6 11.8 110 244-355 35-145 (148)
74 PRK15053 dpiB sensor histidine 98.0 3.4E-05 7.3E-10 74.0 9.2 107 16-139 220-328 (545)
75 COG3290 CitA Signal transducti 97.9 4E-05 8.6E-10 69.4 8.2 110 15-139 212-323 (537)
76 PRK09959 hybrid sensory histid 97.9 0.00018 3.9E-09 75.8 13.6 134 238-376 573-709 (1197)
77 COG5000 NtrY Signal transducti 97.9 0.00011 2.5E-09 67.1 9.9 112 242-364 371-483 (712)
78 COG3852 NtrB Signal transducti 97.8 0.00058 1.2E-08 57.3 12.1 111 245-364 11-122 (363)
79 COG2461 Uncharacterized conser 97.7 0.00011 2.5E-09 63.3 7.5 113 17-139 289-401 (409)
80 PRK09959 hybrid sensory histid 97.7 0.00068 1.5E-08 71.5 14.0 42 16-60 574-615 (1197)
81 smart00091 PAS PAS domain. PAS 97.6 0.00019 4.2E-09 45.0 5.8 58 19-79 2-59 (67)
82 COG3852 NtrB Signal transducti 97.6 0.00041 8.8E-09 58.2 8.4 107 21-137 10-117 (363)
83 TIGR02373 photo_yellow photoac 97.5 0.0011 2.5E-08 47.8 9.1 67 21-90 19-86 (124)
84 COG2461 Uncharacterized conser 97.5 0.00035 7.7E-09 60.4 6.9 115 240-363 289-403 (409)
85 KOG3753 Circadian clock protei 97.5 0.00097 2.1E-08 63.3 10.0 79 262-340 339-420 (1114)
86 smart00091 PAS PAS domain. PAS 97.4 0.00079 1.7E-08 42.1 6.1 59 243-304 3-61 (67)
87 TIGR02373 photo_yellow photoac 97.2 0.0032 6.9E-08 45.6 8.1 64 247-313 22-86 (124)
88 COG3283 TyrR Transcriptional r 97.0 0.0017 3.7E-08 56.0 6.3 89 15-117 77-166 (511)
89 smart00086 PAC Motif C-termina 96.9 0.0068 1.5E-07 33.5 6.8 41 318-358 3-43 (43)
90 smart00086 PAC Motif C-termina 96.8 0.008 1.7E-07 33.2 6.5 41 95-136 3-43 (43)
91 PRK10841 hybrid sensory kinase 96.8 0.045 9.8E-07 55.8 15.4 120 236-380 329-448 (924)
92 COG3283 TyrR Transcriptional r 96.6 0.0058 1.3E-07 52.8 6.4 56 242-300 81-136 (511)
93 KOG3560 Aryl-hydrocarbon recep 96.6 0.0086 1.9E-07 54.1 7.3 96 40-137 292-387 (712)
94 PF07310 PAS_5: PAS domain; I 96.2 0.081 1.8E-06 40.2 10.2 101 25-130 35-136 (137)
95 PF07310 PAS_5: PAS domain; I 95.9 0.15 3.2E-06 38.8 10.3 87 263-352 50-136 (137)
96 KOG3559 Transcriptional regula 95.5 0.033 7.2E-07 48.5 5.6 86 29-117 226-311 (598)
97 PRK10618 phosphotransfer inter 95.3 0.26 5.7E-06 50.0 12.3 114 236-380 338-451 (894)
98 PF08348 PAS_6: YheO-like PAS 95.2 0.12 2.6E-06 37.9 7.1 51 314-366 67-117 (118)
99 KOG3561 Aryl-hydrocarbon recep 95.0 0.018 3.9E-07 55.8 3.0 94 263-356 381-476 (803)
100 KOG3561 Aryl-hydrocarbon recep 94.9 0.018 3.9E-07 55.8 2.5 57 245-304 99-155 (803)
101 PRK10841 hybrid sensory kinase 93.5 2 4.3E-05 44.2 14.1 99 15-139 331-429 (924)
102 PF08348 PAS_6: YheO-like PAS 92.9 0.71 1.5E-05 33.9 7.2 93 28-139 19-112 (118)
103 COG3284 AcoR Transcriptional a 92.9 1.4 3.1E-05 41.6 10.8 43 247-292 228-271 (606)
104 PF08446 PAS_2: PAS fold; Int 92.0 0.19 4.1E-06 36.4 3.2 43 30-74 17-62 (110)
105 PF08446 PAS_2: PAS fold; Int 90.9 0.33 7.2E-06 35.2 3.6 43 253-297 17-62 (110)
106 KOG3753 Circadian clock protei 90.8 0.66 1.4E-05 45.1 6.2 90 39-128 339-431 (1114)
107 COG3887 Predicted signaling pr 90.4 2.9 6.3E-05 39.3 9.7 37 239-278 73-109 (655)
108 PF06785 UPF0242: Uncharacteri 89.1 1.6 3.4E-05 37.5 6.5 83 250-338 296-378 (401)
109 PRK10618 phosphotransfer inter 88.9 2.8 6.1E-05 42.8 9.4 41 15-57 340-380 (894)
110 PF06785 UPF0242: Uncharacteri 87.6 0.92 2E-05 38.8 4.3 90 20-115 285-378 (401)
111 PRK14538 putative bifunctional 84.8 7.6 0.00016 39.2 9.7 45 242-291 103-147 (838)
112 PF09308 LuxQ-periplasm: LuxQ, 82.5 21 0.00046 29.7 9.8 83 25-132 69-151 (238)
113 PRK13719 conjugal transfer tra 80.1 3.5 7.5E-05 33.7 4.5 39 17-58 18-56 (217)
114 COG3284 AcoR Transcriptional a 79.1 24 0.00051 33.9 10.1 98 243-350 79-177 (606)
115 COG3887 Predicted signaling pr 78.2 5.1 0.00011 37.8 5.5 40 14-56 71-110 (655)
116 COG4191 Signal transduction hi 78.1 66 0.0014 30.8 13.6 97 14-135 85-182 (603)
117 PF09884 DUF2111: Uncharacteri 76.9 9.3 0.0002 25.5 4.9 47 305-356 37-83 (84)
118 PRK14538 putative bifunctional 75.6 5.7 0.00012 40.1 5.5 48 16-69 100-148 (838)
119 COG5388 Uncharacterized protei 73.0 27 0.00058 27.8 7.3 105 23-133 53-159 (209)
120 COG5388 Uncharacterized protei 71.2 25 0.00054 28.0 6.8 101 249-354 56-158 (209)
121 PF09884 DUF2111: Uncharacteri 69.4 20 0.00043 24.1 5.1 48 81-134 36-83 (84)
122 PRK13719 conjugal transfer tra 67.6 11 0.00023 30.9 4.4 37 242-281 20-56 (217)
123 PF10114 PocR: Sensory domain 53.5 1.1E+02 0.0023 24.0 9.3 96 15-130 9-104 (173)
124 PF02743 Cache_1: Cache domain 48.0 47 0.001 22.1 4.4 30 327-356 10-39 (81)
125 PF14827 Cache_3: Sensory doma 46.7 43 0.00093 24.3 4.4 74 252-355 40-113 (116)
126 COG0093 RplN Ribosomal protein 45.6 21 0.00045 25.8 2.4 28 321-348 69-96 (122)
127 COG0093 RplN Ribosomal protein 43.6 24 0.00052 25.5 2.4 29 98-127 69-97 (122)
128 PF02743 Cache_1: Cache domain 39.8 56 0.0012 21.7 3.8 31 105-136 11-41 (81)
129 PF09308 LuxQ-periplasm: LuxQ, 33.7 2.9E+02 0.0063 23.3 11.1 86 247-357 68-154 (238)
130 COG2964 Uncharacterized protei 30.3 86 0.0019 25.8 3.9 35 100-137 86-120 (220)
131 COG4048 Uncharacterized protei 29.4 1.9E+02 0.0042 20.6 4.9 47 305-357 55-101 (123)
132 PF14827 Cache_3: Sensory doma 29.4 80 0.0017 22.9 3.5 83 20-133 30-113 (116)
133 COG2964 Uncharacterized protei 28.7 1.7E+02 0.0036 24.2 5.2 29 330-358 91-119 (220)
134 PF12282 H_kinase_N: Signal tr 24.5 3.3E+02 0.0071 20.9 7.5 98 25-139 34-133 (145)
135 PF13953 PapC_C: PapC C-termin 24.0 56 0.0012 21.0 1.6 28 97-128 2-29 (68)
136 PF12282 H_kinase_N: Signal tr 22.6 3.6E+02 0.0077 20.6 7.5 98 247-360 33-132 (145)
No 1
>PRK13560 hypothetical protein; Provisional
Probab=99.97 E-value=2.6e-28 Score=243.52 Aligned_cols=260 Identities=15% Similarity=0.135 Sum_probs=203.5
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
++.++|+.+++++|++++++|.+ |+|+++|+++++++||++++++|+++..+.++.............+..+....+
T Consensus 201 ~~~~~l~~l~e~~~~~i~~~d~~---g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 277 (807)
T PRK13560 201 EALHFLQQLLDNIADPAFWKDED---AKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDADGSQII 277 (807)
T ss_pred HHHHHHHHHHhhCCCeEEEEcCC---CCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccCCceEE
Confidence 46678999999999999999999 999999999999999999999999988887665544443444555666667778
Q ss_pred EEeeEecCCCeEEEEEEE--EeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhh
Q 016138 95 NLLNYKKDGTPFWMLFKM--SLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSL 172 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~--~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 172 (394)
+..+.++||..+|+.+.. .|+.+ .+|.+.|++++++|||++|++
T Consensus 278 e~~~~~~dG~~~~~~~~~~~~~~~~-~~g~~~g~~~~~~DITerk~~--------------------------------- 323 (807)
T PRK13560 278 EAEFQNKDGRTRPVDVIFNHAEFDD-KENHCAGLVGAITDISGRRAA--------------------------------- 323 (807)
T ss_pred EEEEEcCCCCEEEEEEEecceEEEc-CCCCEEEEEEEEEechHHHHH---------------------------------
Confidence 888999999999776554 55677 899999999999999999996
Q ss_pred hhhhhhcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccc
Q 016138 173 LDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQ 252 (394)
Q Consensus 173 ~e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (394)
+..++.. ...++.+++++++
T Consensus 324 -------------------------e~~L~~s-----------------------------------e~~l~~l~~~~~~ 343 (807)
T PRK13560 324 -------------------------ERELLEK-----------------------------------EDMLRAIIEAAPI 343 (807)
T ss_pred -------------------------HHHHHHH-----------------------------------HHHHHHHHHhCcc
Confidence 1112111 1235567889999
Q ss_pred eEEEEcCCCCCcCEEEe-CHHHHHHhcCCchhhcCCcccccccCC---------------CchhHH--HHHHHHHhccCe
Q 016138 253 SFVLIDPHLPDMPMVYA-SDAFLKLTGYDRNEVVGQNCRFLNGVD---------------TDTTVL--YQIKESIQTEQA 314 (394)
Q Consensus 253 ~i~~~d~~~~dg~i~~~-N~~~~~~~G~~~~e~~g~~~~~l~~~~---------------~~~~~~--~~~~~~~~~~~~ 314 (394)
+++++|. +|.++++ |+++++++||+.++++|+++..+.+.. ..+... ..+...+..+..
T Consensus 344 ~i~~~d~---~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 420 (807)
T PRK13560 344 AAIGLDA---DGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACPMAKTIKGGKI 420 (807)
T ss_pred cEEEEcC---CCCEEEecCHHHHHHhCCCHHHHcCCCccccChhhhhhhhhchhhhcCCcCCcchhhhhhHHHHHhcCCc
Confidence 9999999 7999987 577888999999999998865443211 111111 112233455555
Q ss_pred ee-EEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHH
Q 016138 315 CT-VRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSA 374 (394)
Q Consensus 315 ~~-~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~ 374 (394)
+. .+++..+++|..+|+.....|+.+.+|.+.+++++++|||++|++|++|++++..++.
T Consensus 421 ~~~~e~~~~~~~g~~~~~~~~~~p~~d~~g~~~~~~~~~~DITerk~~E~~L~~~~~~~e~ 481 (807)
T PRK13560 421 FDGQEVLIEREDDGPADCSAYAEPLHDADGNIIGAIALLVDITERKQVEEQLLLANLIVEN 481 (807)
T ss_pred ccCceEEEEcCCCCeEEEEEEEeeeECCCCCEEEEEEEeehhhhHHHHHHHHHHHHHHHhc
Confidence 43 4777888999999999999999999999999999999999999999999987655543
No 2
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.97 E-value=1.6e-28 Score=252.08 Aligned_cols=260 Identities=13% Similarity=0.134 Sum_probs=221.8
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhC-CCee
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIE 93 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 93 (394)
.++++++.++++++++++++|.+ |+++++|+++++++||++++++|+++..+.+|++.......+.....++ ..+.
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 46678999999999999999999 9999999999999999999999999888888887766665555555443 3467
Q ss_pred EEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhh
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 173 (394)
.+.+..++||+.+|+..+..|+.+ .+|.+.+++++++|||++|++
T Consensus 357 ~e~~~~~~dG~~~~~~~~~~~~~~-~~g~~~~~i~~~~DITerk~~---------------------------------- 401 (1092)
T PRK09776 357 MEKRYYRRDGEVVWALLAVSLVRD-TDGTPLYFIAQIEDINELKRT---------------------------------- 401 (1092)
T ss_pred eeeEEEcCCCCEEEEEEEEEEEEC-CCCCEeeehhhHHhhHHHHHH----------------------------------
Confidence 788889999999999999999999 899999999999999999986
Q ss_pred hhhhhcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccce
Q 016138 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (394)
Q Consensus 174 e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (394)
+.+++... +.+..+++.++++
T Consensus 402 ------------------------e~~l~~~~-----------------------------------~~~~~~~~~~~~~ 422 (1092)
T PRK09776 402 ------------------------EQVNERLM-----------------------------------ERITLANEAGGIG 422 (1092)
T ss_pred ------------------------HHHHHHHH-----------------------------------HHHHHHHHhcCce
Confidence 22222111 1244556788899
Q ss_pred EEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCc-ccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEE
Q 016138 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQN-CRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (394)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~ 332 (394)
++.+|. ++.++++|+++++++||++++..+.. +....+|++.......+...+..+.++..+++.+++|| .+|+.
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 79999999999999999998844432 34456788887777788888888999999999999999 99999
Q ss_pred EEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHh
Q 016138 333 LHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 375 (394)
Q Consensus 333 ~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 375 (394)
....++.|.+|.+.+++++.+|||++|+++++|++++++++.+
T Consensus 499 ~~~~~~~d~~G~~~~~ig~~~DITerk~~e~~L~~~~~~l~~~ 541 (1092)
T PRK09776 499 ALANRVLNKDGEVERLLGINMDMTEVRQLNEALFQEKERLHIT 541 (1092)
T ss_pred EeeEEEECCCCCEEEEEeeeeehhHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999888765
No 3
>PRK13560 hypothetical protein; Provisional
Probab=99.96 E-value=1.3e-26 Score=231.31 Aligned_cols=260 Identities=12% Similarity=0.048 Sum_probs=201.0
Q ss_pred HHHHH-HHHHhhCCCeEEEEcCCCCCCc--EEEechhhHHhcCCCcchhcCCC--CccccCCCCChhHHH-------HHH
Q 016138 16 YTLWV-HEALDELPDSFTITDPSISGHP--IVFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTIM-------EIR 83 (394)
Q Consensus 16 ~~~~l-~~l~~~~~~~i~~~d~~~~d~~--i~~~N~a~~~~~G~~~~e~~g~~--~~~~~~~~~~~~~~~-------~~~ 83 (394)
+.+.+ +.+++++|.++|+++.+ +++. +.++++++.+++||.+.++++.. +..++||++...+.. .+.
T Consensus 65 ~~e~~~r~l~~~~p~~i~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~ 143 (807)
T PRK13560 65 CREQCERNLKANIPGGMFLFALD-GDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFANPFRSAETIA 143 (807)
T ss_pred HHHHHHHHHHhcCCceEEEEEEc-CccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhChhhHHHHHH
Confidence 33445 99999999999999887 2344 34488888899999888877644 445677877665442 233
Q ss_pred HHHHhCCCeeEEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhh
Q 016138 84 EAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSC 163 (394)
Q Consensus 84 ~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~ 163 (394)
.++..+.....+++++++||+ |+.+...|.++ .+|.+ .+.|+++|||++|++
T Consensus 144 ~~~~~~~~~~~e~r~~~~dg~--~~~~~~~~~~~-~~g~~-~~~g~~~DIT~rk~a------------------------ 195 (807)
T PRK13560 144 MALQSDDWQEEEGHFRCGDGR--FIDCCLRFERH-AHADD-QVDGFAEDITERKRA------------------------ 195 (807)
T ss_pred HHhccCcccceEEEEEeCCcc--EEEEEeeeeec-CCCce-EEEEEEEccchHHHH------------------------
Confidence 334445566788899999996 66677888888 77875 689999999999986
Q ss_pred hhhhhhhhhhhhhhhcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHH
Q 016138 164 RREVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSL 243 (394)
Q Consensus 164 ~~e~~~~~~~e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (394)
+..++.. ...+
T Consensus 196 ----------------------------------e~~l~~~-----------------------------------~~~l 206 (807)
T PRK13560 196 ----------------------------------EERIDEA-----------------------------------LHFL 206 (807)
T ss_pred ----------------------------------HHHHHHH-----------------------------------HHHH
Confidence 2222111 1235
Q ss_pred HHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEe
Q 016138 244 YISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYR 323 (394)
Q Consensus 244 ~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 323 (394)
+.+++++|++++++|. +|+++++|+++++++||++++++|+++..+.++.............+..+....++.++++
T Consensus 207 ~~l~e~~~~~i~~~d~---~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 283 (807)
T PRK13560 207 QQLLDNIADPAFWKDE---DAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDADGSQIIEAEFQN 283 (807)
T ss_pred HHHHhhCCCeEEEEcC---CCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccCCceEEEEEEEc
Confidence 6678999999999999 7999999999999999999999999988877665444443444555666777788888999
Q ss_pred cCCCeeEEEEE--eeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHhh
Q 016138 324 KDKSSFWNLLH--ISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIG 376 (394)
Q Consensus 324 ~~G~~~~~~~~--~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~ 376 (394)
++|..+|+.+. ..|+.+.+|.+.+++++++|||++|++|++|++++++++.+-
T Consensus 284 ~dG~~~~~~~~~~~~~~~~~~g~~~g~~~~~~DITerk~~e~~L~~se~~l~~l~ 338 (807)
T PRK13560 284 KDGRTRPVDVIFNHAEFDDKENHCAGLVGAITDISGRRAAERELLEKEDMLRAII 338 (807)
T ss_pred CCCCEEEEEEEecceEEEcCCCCEEEEEEEEEechHHHHHHHHHHHHHHHHHHHH
Confidence 99999976654 456678899999999999999999999999999999888763
No 4
>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=99.95 E-value=1e-25 Score=208.17 Aligned_cols=237 Identities=16% Similarity=0.095 Sum_probs=177.9
Q ss_pred HHHHHHHHHHhhCCCeEEEEcC-CCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCee
Q 016138 15 RYTLWVHEALDELPDSFTITDP-SISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~-~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (394)
.++++|+.++++++++++++|. + |+|+++|+++++++||++++++|+++..++++++.......+......+....
T Consensus 130 ~~e~r~~~l~e~~~~~i~~~d~~~---g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~ 206 (442)
T TIGR02040 130 EMETRYRVVLEVSSDAVLLVDMST---GRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSAAP 206 (442)
T ss_pred HHHHHHHHHHhhCCceEEEEECCC---CEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCCcc
Confidence 3457899999999999999998 6 99999999999999999999999998888887776666667777776666555
Q ss_pred EEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhh
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 173 (394)
.++. .++|...| .+..+++.. +|.. .+++.+.|||+++++
T Consensus 207 ~~~~--~~~~~~~~-~~~~~~~~~--~~~~-~~l~~~~dit~~~~~---------------------------------- 246 (442)
T TIGR02040 207 VRIL--LRRSQKRL-LVVVSVFRQ--DGES-LFLCQLSPAGATQPV---------------------------------- 246 (442)
T ss_pred eEEE--EcCCCeEE-EEEEEEEEe--CCce-EEEEEEcccchhhhh----------------------------------
Confidence 5444 34444444 345666655 4443 577888999998874
Q ss_pred hhhhhcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccce
Q 016138 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (394)
Q Consensus 174 e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (394)
+.... ..+..++++++++
T Consensus 247 ------------------------e~~~~--------------------------------------~~~~~l~e~~~d~ 264 (442)
T TIGR02040 247 ------------------------GDELS--------------------------------------ENLARLYHEAPDA 264 (442)
T ss_pred ------------------------hHHHH--------------------------------------HHHHHHHHhCCce
Confidence 10000 0255678999999
Q ss_pred EEEEcCCCCCcCEEEeCHHHHHHhcCC-chhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEE
Q 016138 254 FVLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (394)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~~~G~~-~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~ 332 (394)
|+++|. +|+|+++|++|++++||+ .++++|+++..+.++... .....+......+....++..+.+++|..+|+.
T Consensus 265 I~v~D~---~G~I~~~N~a~~~l~G~~~~~~l~G~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~ve 340 (442)
T TIGR02040 265 IVFSDA---DGTIRGANEAFLELTDSSSLEAVRGRTLDRWLGRGGV-DLRVLLSNVRRTGQVRLYATTLTGEFGAQTEVE 340 (442)
T ss_pred EEEEcC---CCcEEehhHHHHHHhCCCChHHHcCCCHHHHhCCCcc-cHHHHHHHHhhcCceEEEEEEEEcCCCCEEEEE
Confidence 999999 799999999999999997 578999997655543222 222222333344555556777889999999999
Q ss_pred EEeeeeecCCCCEEEEEEEEeecchhhhhh
Q 016138 333 LHISPIRNASGKIAYFAAVHTEEGCRNQDR 362 (394)
Q Consensus 333 ~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e 362 (394)
+++.|+.+.++ ..++++++|||+||+.+
T Consensus 341 ~s~~~i~~~~~--~~~~~v~rDITeR~~~~ 368 (442)
T TIGR02040 341 ISAAWVDQGER--PLIVLVIRDISRRLTMR 368 (442)
T ss_pred EEEEEeccCCc--eEEEEEEecchhhccCC
Confidence 99999986555 35788999999999884
No 5
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.95 E-value=5.8e-26 Score=233.25 Aligned_cols=253 Identities=15% Similarity=0.151 Sum_probs=207.1
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCC-CccccCCCCChhHHHHHHHHHHhCCCee
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN-GRMFQGPRTNRRTIMEIREAIREERPIE 93 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (394)
++.++++.+++..+.++|.+|.+ +.++++|+++++++||++++..+.. +....+|++.......+.+.+.++.++.
T Consensus 407 ~~~~~~~~~~~~~~~~i~~~d~~---~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~~ 483 (1092)
T PRK09776 407 RLMERITLANEAGGIGIWEWDLK---PNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQGRSPFK 483 (1092)
T ss_pred HHHHHHHHHHHhcCceEEEEecC---CCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHhcCCCee
Confidence 45677899999999999999999 9999999999999999998854433 4445677777777778888888888999
Q ss_pred EEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhh
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 173 (394)
.+++.+++|| .+|+.....|+.+ .+|++.+++++.+|||++|++
T Consensus 484 ~e~r~~~~dG-~~w~~~~~~~~~d-~~G~~~~~ig~~~DITerk~~---------------------------------- 527 (1092)
T PRK09776 484 LEFRIVVKDG-VRHIRALANRVLN-KDGEVERLLGINMDMTEVRQL---------------------------------- 527 (1092)
T ss_pred EEEEEEcCCc-eEEEEEeeEEEEC-CCCCEEEEEeeeeehhHHHHH----------------------------------
Confidence 9999999999 9999999999999 999999999999999999985
Q ss_pred hhhhhcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccce
Q 016138 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (394)
Q Consensus 174 e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (394)
+..++.. .+.++.++++++++
T Consensus 528 ------------------------e~~L~~~-----------------------------------~~~l~~~l~~~~~~ 548 (1092)
T PRK09776 528 ------------------------NEALFQE-----------------------------------KERLHITLDSIGEA 548 (1092)
T ss_pred ------------------------HHHHHHH-----------------------------------HHHHHHHHhccccE
Confidence 1111111 11345567889999
Q ss_pred EEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCC--chhHHHHHHHHHhccCe--eeEEEEEEecCCCee
Q 016138 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT--DTTVLYQIKESIQTEQA--CTVRILNYRKDKSSF 329 (394)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~--~~~~~~~~~~~~~~~~~--~~~e~~~~~~~G~~~ 329 (394)
++.+|. +|+++++|+++++++||+.++++|+++..+.++.+ .......+......+.. +..+....+++|..+
T Consensus 549 i~~~D~---~g~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~G~~~ 625 (1092)
T PRK09776 549 VVCTDM---AMKVTFMNPVAEKMTGWTQEEALGVPLLTVLHITFGDNGPLMENIYSCLTSRSAAYLEQDVVLHCRSGGSY 625 (1092)
T ss_pred EEEECC---CCeEEEEcHHHHHHhCCCHHHHcCCCHHHHcccccCCcchhhHHHHHHHhcCCCccccceEEEEeCCCcEE
Confidence 999999 79999999999999999999999999766554322 22222234444444443 456777789999999
Q ss_pred EEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHH
Q 016138 330 WNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLE 368 (394)
Q Consensus 330 ~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~ 368 (394)
|+..+..|+.+.+|++.+++++++|||++|+.|++|+..
T Consensus 626 ~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~L~~~ 664 (1092)
T PRK09776 626 DVHYSITPLSTLDGENIGSVLVIQDVTESRKMLRQLSYS 664 (1092)
T ss_pred EEEEEeeeeecCCCCEEEEEEEEEecchHHHHHHHHHhh
Confidence 999999999999999999999999999999999988653
No 6
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.94 E-value=1.5e-24 Score=215.84 Aligned_cols=244 Identities=18% Similarity=0.242 Sum_probs=195.1
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCC----Cee
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER----PIE 93 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~ 93 (394)
..+..+++.++.+++++|.+ |+|+++|+++++++||++++++|+++..+.+++........+......+. .+.
T Consensus 12 ~~~~~~le~~~~~i~~~d~~---g~i~~~N~~~~~l~G~s~eeliG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (799)
T PRK11359 12 GIFFPALEQNMMGAVLINEN---DEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNREGGKARVEGMS 88 (799)
T ss_pred hhHHHHHHhhcCcEEEEcCC---CeEEEEcHHHHHHhCCCHHHHcCCCHHHhcCccccccchHHHhhhhccCCccccccc
Confidence 35667899999999999998 99999999999999999999999998888877665544444444444332 234
Q ss_pred EEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhh
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 173 (394)
.+.+..++||..+|+.++..|+.. +|.+ +++++.+|||++++.
T Consensus 89 ~e~~~~~~dG~~~~v~~~~~~~~~--~g~~-~~~~~~~DiT~~~~~---------------------------------- 131 (799)
T PRK11359 89 RELQLEKKDGSKIWTRFALSKVSA--EGKV-YYLALVRDASVEMAQ---------------------------------- 131 (799)
T ss_pred eeeEEecCCcCEEEEEEEeeeecc--CCce-EEEEEEeeccchhhh----------------------------------
Confidence 577888999999999999988854 5664 578899999998774
Q ss_pred hhhhhcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccce
Q 016138 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (394)
Q Consensus 174 e~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 253 (394)
+...+ .+..++++++++
T Consensus 132 ------------------------~~~~~---------------------------------------~~~~~~~~~~~~ 148 (799)
T PRK11359 132 ------------------------KEQTR---------------------------------------QLIIAVDHLDRP 148 (799)
T ss_pred ------------------------HHHHH---------------------------------------HHHHHHhcCCCc
Confidence 11110 122346788999
Q ss_pred EEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCccccccc-CCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEE
Q 016138 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG-VDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (394)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~ 332 (394)
++++|. +|+++++|+++++++||+.++++|+++..+.+ +.........+...+..+..+..+++..+++|..+|+.
T Consensus 149 i~~~d~---~g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 225 (799)
T PRK11359 149 VIVLDP---ERRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWIK 225 (799)
T ss_pred EEEEcC---CCcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCcceeEEeCCCCCEEEEE
Confidence 999999 79999999999999999999999998766544 44445555556666777777888888899999999999
Q ss_pred EEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHH
Q 016138 333 LHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSL 367 (394)
Q Consensus 333 ~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~ 367 (394)
++..|+.+.+|.+.+++++++|||++|++++..+.
T Consensus 226 ~~~~~v~d~~g~~~~~~~~~~DITerk~~e~~~~~ 260 (799)
T PRK11359 226 ASISPVYDVLAHLQNLVMTFSDITEERQIRQLEGN 260 (799)
T ss_pred eeeeeeecCCCceeEEEEEeehhhhHHHHHHHHHH
Confidence 99999999999999999999999999988765443
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=99.93 E-value=2e-25 Score=210.30 Aligned_cols=246 Identities=20% Similarity=0.265 Sum_probs=186.9
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEe
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (394)
+.|+.+++++|++++++|.+ |+++++|+++++++||++++++|++...+.++.........+.+.+..+.++..+..
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 57889999999999999999 999999999999999999999999876666666666666777777777888888888
Q ss_pred eEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhhhhhh
Q 016138 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDR 177 (394)
Q Consensus 98 ~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~e~~~ 177 (394)
..+++|..+|+.....|+.+ .+|.+.+++++++|||++|++
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~-~~g~~~~~~~~~~DIt~~k~~-------------------------------------- 121 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLN-EAGETTHFLGMHRDITELHRL-------------------------------------- 121 (494)
T ss_pred ccCCCccchhhheeeEEEEC-CCCCEEEEEEehhhhhHHHHH--------------------------------------
Confidence 88899999999999999999 899999999999999999985
Q ss_pred hcccCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccceEEEE
Q 016138 178 VLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLI 257 (394)
Q Consensus 178 ~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~ 257 (394)
+..++.. ...+..++++++++++++
T Consensus 122 --------------------e~~l~~~-----------------------------------~~~~~~~~~~~~~~i~~~ 146 (494)
T TIGR02938 122 --------------------EQVVANQ-----------------------------------KLLIESVVDAAPVAFVLL 146 (494)
T ss_pred --------------------HHHHHHH-----------------------------------HHHHHHHHhcccceEEEE
Confidence 1111111 112556678999999999
Q ss_pred cCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCee-eEEEEEEecCCC-eeEEEEEe
Q 016138 258 DPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRILNYRKDKS-SFWNLLHI 335 (394)
Q Consensus 258 d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~~~~G~-~~~~~~~~ 335 (394)
|. +|+++++|+++++++|+...+..+..+....++..... +......+..+ ..+......+|. .+|+....
T Consensus 147 d~---~~~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (494)
T TIGR02938 147 DP---TGRVILDNQEYKKLATDLRVKEPAHTVLDLLREAWREA----LAENWPQQLAFSNREARFDRGGGRPARWLSCTG 219 (494)
T ss_pred cC---CCCEEEechhHHHhhchhhhhHHHHHHHHHhhHHhhhh----hhhcchhhhccccceeeeccCCCceeeEEEecC
Confidence 98 79999999999999999887776665444443332222 11111112222 223444444554 78999988
Q ss_pred eeeecCCCCE---------EEEEEEEeecchhhhhhHHHHH
Q 016138 336 SPIRNASGKI---------AYFAAVHTEEGCRNQDRHGLSL 367 (394)
Q Consensus 336 ~~i~d~~g~~---------~~~~~~~~DIT~~k~~e~~L~~ 367 (394)
.++.+..|.+ .+++++++|||++|++|++++.
T Consensus 220 ~~~~~~~~~~~~~~~~~~~~~~~~~~~DITe~k~~ee~l~~ 260 (494)
T TIGR02938 220 SVIGMESDCADSFFCAAEQPYLLLTIADISNLREEQERARL 260 (494)
T ss_pred ceEEeecchhhheeccCCCchheehHHHHHHHHHHHHHHHH
Confidence 8887766543 3456688999999999887653
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=99.92 E-value=7.3e-24 Score=195.86 Aligned_cols=250 Identities=17% Similarity=0.130 Sum_probs=178.5
Q ss_pred HHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCC-CeeEEEeeEec
Q 016138 23 ALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-PIEVNLLNYKK 101 (394)
Q Consensus 23 l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~~ 101 (394)
++++++++++++|.+ |+|++||.+++.++||+.++++|+++..+++|++.......+......+. .+..+.....+
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 367899999999999 99999999999999999999999999999888776665555555555554 45555555566
Q ss_pred CCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhhhhhhhccc
Q 016138 102 DGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLAL 181 (394)
Q Consensus 102 dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~~ 181 (394)
+|..+|+.++..++.+ + .+++++.+|||+++..
T Consensus 78 ~g~~~~~~~~~~~~~~---~--~~~~~i~rDi~~~~~~------------------------------------------ 110 (442)
T TIGR02040 78 SSFELPMRFILVRLGA---D--RGVLALGRDLRAVAEL------------------------------------------ 110 (442)
T ss_pred CCCccCeEEEEEEeCC---C--CeEEEEecccHHHHHH------------------------------------------
Confidence 7778888877776644 2 2678899999998763
Q ss_pred CCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccceEEEEcCCC
Q 016138 182 DSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPHL 261 (394)
Q Consensus 182 ~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~~ 261 (394)
+.++.......+.-. ..++.....++.++++++++++++|..
T Consensus 111 ----------------~~~l~~~~~~~e~~~---------------------~~l~~~e~r~~~l~e~~~~~i~~~d~~- 152 (442)
T TIGR02040 111 ----------------QQQLVAAQQAMERDY---------------------WTLREMETRYRVVLEVSSDAVLLVDMS- 152 (442)
T ss_pred ----------------HHHHHHHHHHHHHHH---------------------HHHHHHHHHHHHHHhhCCceEEEEECC-
Confidence 000000000000000 011222345778899999999999974
Q ss_pred CCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeecC
Q 016138 262 PDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNA 341 (394)
Q Consensus 262 ~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d~ 341 (394)
+|+|+++|+++++++||++++++|+++..+++|.+.......+......+.....++. .++|...| .+..+++..
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 5999999999999999999999999988888887777677777777766665554444 34444444 445556553
Q ss_pred CCCEEEEEEEEeecchhhhhhHHHH
Q 016138 342 SGKIAYFAAVHTEEGCRNQDRHGLS 366 (394)
Q Consensus 342 ~g~~~~~~~~~~DIT~~k~~e~~L~ 366 (394)
+|.. .+++.+.|||+++++++++.
T Consensus 228 ~~~~-~~l~~~~dit~~~~~e~~~~ 251 (442)
T TIGR02040 228 DGES-LFLCQLSPAGATQPVGDELS 251 (442)
T ss_pred CCce-EEEEEEcccchhhhhhHHHH
Confidence 3443 56778899999998877654
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=99.80 E-value=7.6e-19 Score=128.51 Aligned_cols=104 Identities=27% Similarity=0.431 Sum_probs=96.1
Q ss_pred CCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCCeEE
Q 016138 28 PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFW 107 (394)
Q Consensus 28 ~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 107 (394)
|++++++|++ |+|+++|+++++++||++++++|+++..++++.........+.+.+..+..+..+..+.+++|+.+|
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 7899999999 9999999999999999999999999999988888888889999999999999999999999999999
Q ss_pred EEEEEEeeeccCCCeeeEEEEEeccccc
Q 016138 108 MLFKMSLVFGKEDGRATHFVAVQVPIVS 135 (394)
Q Consensus 108 v~~~~~~i~~~~~g~~~~~~~~~~DITe 135 (394)
+.+++.|+.+ ++|++.+++++++|||+
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 99999999999999996
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=99.80 E-value=1.7e-18 Score=126.68 Aligned_cols=104 Identities=24% Similarity=0.431 Sum_probs=96.3
Q ss_pred cceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeE
Q 016138 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (394)
Q Consensus 251 ~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~ 330 (394)
|++++++|. +|+|+++|+++++++||++++++|+++..++++.........+.+.+..+..+..++.+.+++|+.+|
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 79999999999999999999999999999888888888889999999999999999999999999999
Q ss_pred EEEEeeeeecCCCCEEEEEEEEeecch
Q 016138 331 NLLHISPIRNASGKIAYFAAVHTEEGC 357 (394)
Q Consensus 331 ~~~~~~~i~d~~g~~~~~~~~~~DIT~ 357 (394)
+.+++.|+.+++|++.+++++++|||+
T Consensus 78 ~~~~~~~i~~~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 78 VEVSASPIRDEDGEITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEEEEEETTSSEEEEEEEEEEEHH
T ss_pred EEEEEEEEECCCCCEEEEEEEEEECCC
Confidence 999999999999999999999999996
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=99.75 E-value=1.1e-17 Score=123.66 Aligned_cols=110 Identities=26% Similarity=0.452 Sum_probs=99.4
Q ss_pred HhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCC
Q 016138 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDG 103 (394)
Q Consensus 24 ~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 103 (394)
|+++|++++++|.+ |+|+++|+++.+++|+++++++|+++.+++++.....+...+.+++.++.+...+..... +|
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 68999999999999 999999999999999999999999988888888888888889999999887776665544 99
Q ss_pred CeEEEEEEEEeeeccCCCeeeEEEEEecccccccc
Q 016138 104 TPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (394)
Q Consensus 104 ~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~ 138 (394)
..+|+.+++.|+++ .+|++.|++++++|||++|+
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 99999999999999999985
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=99.75 E-value=3.1e-17 Score=121.88 Aligned_cols=112 Identities=23% Similarity=0.366 Sum_probs=96.4
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCee-EEE
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE-VNL 96 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~e~ 96 (394)
++|+.+++++|++++++|.+ |+|+++|+++++++||++++++|+++.+++++++.......+.+.+..+.... .+.
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 47899999999999999998 99999999999999999999999999888887766666777888887776544 344
Q ss_pred eeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccc
Q 016138 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (394)
Q Consensus 97 ~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DI 133 (394)
....++|+.+|+.++.+|+.+ .+|++.|++++++||
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 444569999999999999999 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=99.74 E-value=3.9e-17 Score=120.73 Aligned_cols=110 Identities=21% Similarity=0.302 Sum_probs=100.1
Q ss_pred HhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCC
Q 016138 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDK 326 (394)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G 326 (394)
++++|++++++|. +|+|+++|+++.+++|++.++++|+++..+.++...+.....+.+++.++.+...+..... +|
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 5788999999999 8999999999999999999999999999888888888888899999998888877766554 99
Q ss_pred CeeEEEEEeeeeecCCCCEEEEEEEEeecchhhh
Q 016138 327 SSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQ 360 (394)
Q Consensus 327 ~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~ 360 (394)
..+|+.++..|+.+.+|++.|++++++|||++|+
T Consensus 77 ~~~~~~~~~~Pi~~~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 77 EERWFEVSISPIFDEDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp CEEEEEEEEEEEECTTTCEEEEEEEEEEECCHHH
T ss_pred CcEEEEEEEEEeEcCCCCEEEEEEEEEECchhhC
Confidence 9999999999999999999999999999999985
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=99.70 E-value=4.3e-16 Score=115.69 Aligned_cols=111 Identities=18% Similarity=0.311 Sum_probs=94.8
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCee-eEEEE
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRIL 320 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~~ 320 (394)
.++.++++++++++++|. +|+|+++|+++++++||++++++|+++..+.++++.......+...+..+... ..+..
T Consensus 2 ~~~~i~~~~~~~i~~~d~---~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (113)
T PF00989_consen 2 RYRAILENSPDGIFVIDE---DGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESGESFEVR 78 (113)
T ss_dssp HHHHHHHCSSSEEEEEET---TSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHECEEEEE
T ss_pred HHHHHHhcCCceEEEEeC---cCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCceeEEEE
Confidence 578899999999999998 79999999999999999999999999998888776666677777777766654 34454
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeec
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEE 355 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DI 355 (394)
...++|..+|+.+..+|+.+.+|.+.+++++++||
T Consensus 79 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~DI 113 (113)
T PF00989_consen 79 FRLRDGRPRWVEVRASPVRDEDGQIIGILVIFRDI 113 (113)
T ss_dssp EEETTSCEEEEEEEEEEEEETTEEEEEEEEEEEE-
T ss_pred EEecCCcEEEEEEEEEEEEeCCCCEEEEEEEEEeC
Confidence 55579999999999999999999999999999997
No 15
>PRK13559 hypothetical protein; Provisional
Probab=99.65 E-value=6.4e-15 Score=133.04 Aligned_cols=131 Identities=37% Similarity=0.674 Sum_probs=112.4
Q ss_pred HHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEE
Q 016138 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (394)
Q Consensus 241 ~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (394)
..+..++++++++++++|...++|.++++|+++++++||+.++++|+++..+.++...+.....+...+..+..+..+..
T Consensus 43 ~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 122 (361)
T PRK13559 43 RLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREIVVELL 122 (361)
T ss_pred hHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCceEEEEE
Confidence 34677899999999999975336789999999999999999999999988777766666666777778888888888888
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHH
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQ 371 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~ 371 (394)
..+++|..+|+.++..|+.+.+|.+.+++++++|||++|++|++.+...+.
T Consensus 123 ~~~~dG~~~~~~~~~~~i~d~~G~~~~~v~~~~DITerk~~e~~~~~~~~l 173 (361)
T PRK13559 123 NYRKDGEPFWNALHLGPVYGEDGRLLYFFGSQWDVTDIRAVRALEAHERRL 173 (361)
T ss_pred EEcCCCCEEEEEEEEEEEEcCCCCEEEeeeeeeehhcchhhHHHHHHHHHH
Confidence 889999999999999999999999999999999999999987665544433
No 16
>PRK13557 histidine kinase; Provisional
Probab=99.63 E-value=1.3e-14 Score=138.39 Aligned_cols=130 Identities=35% Similarity=0.733 Sum_probs=115.9
Q ss_pred HHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEE
Q 016138 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (394)
Q Consensus 240 ~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (394)
...|..++++++++|+++|....+|+|+|+|+++++++||+.++++|+++..+.+|++.......+...+..+..+..++
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 34578889999999999997544799999999999999999999999999888888877777778888888888888888
Q ss_pred EEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHH
Q 016138 320 LNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEM 369 (394)
Q Consensus 320 ~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~ 369 (394)
+..+++|..+|+.++..|+.+.+|.+.+++++.+|||+++++++++....
T Consensus 109 ~~~~~~G~~~~~~~~~~~i~~~~g~~~~~~~~~~dit~~~~~e~~l~~~~ 158 (540)
T PRK13557 109 LNYRKDGSSFWNALFVSPVYNDAGDLVYFFGSQLDVSRRRDAEDALRQAQ 158 (540)
T ss_pred EEEeCCCCEEEEEEEEEEeECCCCCEEEEEEEecChHHHHHHHHHHHHHH
Confidence 88899999999999999999999999999999999999999998876543
No 17
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.61 E-value=8.3e-15 Score=145.37 Aligned_cols=135 Identities=15% Similarity=0.051 Sum_probs=119.6
Q ss_pred cchhhhHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccC
Q 016138 234 PGMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ 313 (394)
Q Consensus 234 ~~~~~~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~ 313 (394)
..+......+..+++++|++++++|. +|+|+++|+++++++||+.++++|+++..+++++............+..+.
T Consensus 148 ~~l~~~~~~l~~il~~~~~~i~~~D~---~g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~ 224 (779)
T PRK11091 148 IELEQQSSLLRSFLDASPDLVYYRNE---DGEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETDEKVFRHNV 224 (779)
T ss_pred HHHHHHHHHHHHHHhcCcceEEEECC---CCcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHHHHHHhcCC
Confidence 34455566788999999999999999 799999999999999999999999999888887766666666677778888
Q ss_pred eeeEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHH
Q 016138 314 ACTVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQ 371 (394)
Q Consensus 314 ~~~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~ 371 (394)
++..+....+++|..+|+.++..|+.+.+|.+.+++++++|||++|++|++++++.+.
T Consensus 225 ~~~~e~~~~~~~G~~~~~~~~~~pi~~~~g~~~g~v~~~~DITe~k~~e~~l~~a~~~ 282 (779)
T PRK11091 225 SLTYEQWLDYPDGRKACFELRKVPFYDRVGKRHGLMGFGRDITERKRYQDALEKASRD 282 (779)
T ss_pred CeEEEEEEEcCCCCEEEEEEEeeeEEcCCCCEEEEEEEEeehhHHHHHHHHHHHHHHH
Confidence 8888999999999999999999999999999999999999999999999988876553
No 18
>PRK13559 hypothetical protein; Provisional
Probab=99.60 E-value=4e-14 Score=127.84 Aligned_cols=123 Identities=37% Similarity=0.676 Sum_probs=108.6
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEE
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVN 95 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 95 (394)
+...++.++++++++++++|.++++|.|+++|+++++++||+.++++|+++..+.++.........+...+..+..+..+
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 45678889999999999999864458999999999999999999999999877776666666667777788888888888
Q ss_pred EeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 96 LLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 96 ~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
....+++|..+|+.++..|+++ .+|.+.+++++++|||++|++
T Consensus 121 ~~~~~~dG~~~~~~~~~~~i~d-~~G~~~~~v~~~~DITerk~~ 163 (361)
T PRK13559 121 LLNYRKDGEPFWNALHLGPVYG-EDGRLLYFFGSQWDVTDIRAV 163 (361)
T ss_pred EEEEcCCCCEEEEEEEEEEEEc-CCCCEEEeeeeeeehhcchhh
Confidence 8888999999999999999999 899999999999999999985
No 19
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.58 E-value=6.4e-14 Score=136.61 Aligned_cols=133 Identities=36% Similarity=0.691 Sum_probs=117.8
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEE
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (394)
+..+++.++.++++.|...++|.++++|+++++++||++++++|+++..+.++.........+...+..+.++..+++.+
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 45678999999999985434799999999999999999999999998888777776666677777788888889999999
Q ss_pred ecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHh
Q 016138 323 RKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 375 (394)
Q Consensus 323 ~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 375 (394)
+++|..+|+.++..|+.+.+|.+.+++++++|||++|++|++|++.+++++.+
T Consensus 230 ~~dG~~~~~~~~~~pi~d~~G~~~~~vgi~~DITerk~~E~~L~~~~~~L~~l 282 (665)
T PRK13558 230 RKDGSTFWNQVDIAPIRDEDGTVTHYVGFQTDVTERKEAELALQRERRKLQRL 282 (665)
T ss_pred CCCCCEEEEEEEEEEEECCCCCEEEEEEEEEeCcHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999888777654
No 20
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.56 E-value=5e-14 Score=139.88 Aligned_cols=121 Identities=15% Similarity=0.191 Sum_probs=109.2
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
++.++++.+++++|++++++|.+ |+|+++|+++++++||+.++++|+++..+++++............+..+.++..
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 35567899999999999999999 999999999999999999999999988888776666666666777788888888
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
+....+++|..+|+.++..|+.+ .+|.+.|++++++|||++|++
T Consensus 229 e~~~~~~~G~~~~~~~~~~pi~~-~~g~~~g~v~~~~DITe~k~~ 272 (779)
T PRK11091 229 EQWLDYPDGRKACFELRKVPFYD-RVGKRHGLMGFGRDITERKRY 272 (779)
T ss_pred EEEEEcCCCCEEEEEEEeeeEEc-CCCCEEEEEEEEeehhHHHHH
Confidence 88889999999999999999999 899999999999999999987
No 21
>PRK13557 histidine kinase; Provisional
Probab=99.56 E-value=5.4e-14 Score=134.24 Aligned_cols=124 Identities=38% Similarity=0.695 Sum_probs=112.0
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
.....|+.++++++.+|+++|.+..||+|+|+|++|++++||+.++++|+++..+.+|+........+...+..+..+..
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 45678999999999999999975445999999999999999999999999988888887777777788888888888888
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
+++.++++|+.+|+..+..|+.+ .+|.+.+++++.+|||+++++
T Consensus 107 ~~~~~~~~G~~~~~~~~~~~i~~-~~g~~~~~~~~~~dit~~~~~ 150 (540)
T PRK13557 107 EILNYRKDGSSFWNALFVSPVYN-DAGDLVYFFGSQLDVSRRRDA 150 (540)
T ss_pred EEEEEeCCCCEEEEEEEEEEeEC-CCCCEEEEEEEecChHHHHHH
Confidence 88888999999999999999999 899999999999999999886
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=99.56 E-value=2.7e-14 Score=134.75 Aligned_cols=133 Identities=20% Similarity=0.353 Sum_probs=117.1
Q ss_pred HHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEE
Q 016138 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (394)
Q Consensus 241 ~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (394)
+.++.++++++++++++|. +|+++++|+++++++||++++++|++...+.++.........+...+..+.++..++.
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 3578889999999999999 7999999999999999999999999876666666666666677777777888888888
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHhh
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIG 376 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~ 376 (394)
..+++|..+|+.....|+.+.+|.+.+++++++|||++|+++++|++++..++.+.
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~~~g~~~~~~~~~~DIt~~k~~e~~l~~~~~~~~~~~ 136 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLNEAGETTHFLGMHRDITELHRLEQVVANQKLLIESVV 136 (494)
T ss_pred ccCCCccchhhheeeEEEECCCCCEEEEEEehhhhhHHHHHHHHHHHHHHHHHHHH
Confidence 88999999999999999999999999999999999999999999998888777653
No 23
>PRK10060 RNase II stability modulator; Provisional
Probab=99.55 E-value=1.2e-13 Score=133.67 Aligned_cols=122 Identities=12% Similarity=0.124 Sum_probs=98.3
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccc-cCCCchhHHHHHHHHHhccCeeeEEEEE
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN-GVDTDTTVLYQIKESIQTEQACTVRILN 321 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 321 (394)
+..+++.++++|+++|. +|+|+++|+++++++||+.++++|+++..++ +|.+.......+...+..+..+..+.+.
T Consensus 113 ~~~v~~~~~~gI~i~D~---~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 189 (663)
T PRK10060 113 AEQVVSEANSVIVILDS---RGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYEVERWI 189 (663)
T ss_pred HHHHHhhCCceEEEEeC---CCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceEEEEEE
Confidence 34467888999999999 7999999999999999999999999975554 4554455556667777888889999999
Q ss_pred EecCCCeeEEEEEeeeeecCCC-CEEEEEEEEeecchhhhhhHHHHHH
Q 016138 322 YRKDKSSFWNLLHISPIRNASG-KIAYFAAVHTEEGCRNQDRHGLSLE 368 (394)
Q Consensus 322 ~~~~G~~~~~~~~~~~i~d~~g-~~~~~~~~~~DIT~~k~~e~~L~~~ 368 (394)
.+++|..+|+..... +.+..| ...+++++++|||++|+++++|++.
T Consensus 190 ~~~~G~~~~~~~~~~-~~~~~g~~~~~~i~~~~DITe~k~~e~~l~~~ 236 (663)
T PRK10060 190 KTRKGQRLFLFRNKF-VHSGSGKNEIFLICSGTDITEERRAQERLRIL 236 (663)
T ss_pred EeCCCCEEEEEeeeE-EEcCCCCceEEEEEEEEechHHHHHHHHHHHH
Confidence 999999988766544 444444 3456788999999999999988764
No 24
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.49 E-value=6.3e-13 Score=129.70 Aligned_cols=120 Identities=40% Similarity=0.743 Sum_probs=107.1
Q ss_pred HHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEee
Q 016138 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (394)
Q Consensus 19 ~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 98 (394)
.++.+++.++.+++++|...+++.++|+|+++++++||++++++|+++..+.++.........+...+..+.++..+++.
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 45789999999999998644459999999999999999999999999887777776666667777788888888899999
Q ss_pred EecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 99 ~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
++++|..+|+.++..|+.+ .+|.+.+++++++|||++|++
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 899999999999999999996
No 25
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=99.47 E-value=1.4e-12 Score=116.07 Aligned_cols=234 Identities=18% Similarity=0.194 Sum_probs=165.3
Q ss_pred HHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEe
Q 016138 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYK 100 (394)
Q Consensus 21 ~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 100 (394)
+.+++.+++++++++.. ..|.++|..+..+++-....++|++...+.++...+... .+...........
T Consensus 4 ~~~l~~~~~~~~vi~~~---~~~~~~~~~a~~~~~~~~~~~i~~~~~~i~~~~~~~~v~--------~~~~~~~~~~~~~ 72 (560)
T COG3829 4 EGILKSILDGPVVIDKN---TGIDVANALALAKRQKNAEAVIGRPLREILETLGMERVE--------QSRDKELTERLKL 72 (560)
T ss_pred hhhhhhcccceEEEEcC---CceeeechHHHHhhhcceEEEecccceeeccccCcceee--------ccCccceeeeeec
Confidence 34899999999999988 899999999999999999999999877766554333221 2222222222223
Q ss_pred cCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccccccCcccccCCCCchhHHHhhhhhhhhhhhhhhhhhhhcc
Q 016138 101 KDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLA 180 (394)
Q Consensus 101 ~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~e~~~~~~ 180 (394)
+ + ...+.+...|+. +.|++.|+++++.|+++....
T Consensus 73 ~-~-~~~~~~~~~~~~--~~~~~~g~~~~~~~~~e~~~~----------------------------------------- 107 (560)
T COG3829 73 K-V-KRIVVVGKTPVD--EQGRVVGVLEVFLDISEALEL----------------------------------------- 107 (560)
T ss_pred c-c-eeEEEcCCceee--cCCceeeeehhhhhhHHHHHH-----------------------------------------
Confidence 3 2 444444555554 489999999999999985542
Q ss_pred cCCCCCCCccccchhhhHHHHHHhHhhhhhHHHhhhhccccccceeeccccCCcchhhhHHHHHHHHhcccceEEEEcCC
Q 016138 181 LDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPH 260 (394)
Q Consensus 181 ~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~d~~ 260 (394)
.+..+... ...+..+++.+.++++++|.
T Consensus 108 ----------------~~~~l~~~-----------------------------------~~~l~~il~~~~~~l~vvD~- 135 (560)
T COG3829 108 ----------------IEENLRQL-----------------------------------RQRLEAILDSIDDGLLVVDE- 135 (560)
T ss_pred ----------------HHHHHHHH-----------------------------------HHHHHHHHhhccCceEEEcC-
Confidence 00001111 12356678899999999999
Q ss_pred CCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeec
Q 016138 261 LPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (394)
Q Consensus 261 ~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d 340 (394)
+|.++++|+++.+++|++.++++|+++..+..... ......++..+.+.......+..++ . ..+..|+.
T Consensus 136 --~G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~----~s~~l~vl~~~kp~~~~~~~~~~~~--~--i~~~~pv~- 204 (560)
T COG3829 136 --DGIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGE----DSTLLEVLRTGKPIRDVVQTYNGNK--I--IVNVAPVY- 204 (560)
T ss_pred --CCcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccC----CceehhhhhcCCcceeeeeeecCCc--e--eEeeccEe-
Confidence 79999999999999999999999998876651111 1234556677777665544333222 2 34555665
Q ss_pred CCCCEEEEEEEEeecchhhhhhHHHHHHHHHHH
Q 016138 341 ASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLS 373 (394)
Q Consensus 341 ~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~ 373 (394)
.+|.+.|.+++.+|+++.+.+..++.+++..+.
T Consensus 205 ~~g~l~G~v~~~~~~~~l~~l~~~~~~~~~~~~ 237 (560)
T COG3829 205 ADGQLIGVVGISKDVSELERLTRELEESEGLLR 237 (560)
T ss_pred cCCcEEEEEEeecchHHHHHHHHHHHHHhhhhc
Confidence 677999999999999999999998888777666
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=99.47 E-value=6.7e-13 Score=94.14 Aligned_cols=86 Identities=24% Similarity=0.325 Sum_probs=74.3
Q ss_pred EEEeCHHHHHHhcCCchhhcCCc----ccccccCCCchhHHHHHHH-HHhccCeeeEEEEEEecCCCeeEEEEEeeeeec
Q 016138 266 MVYASDAFLKLTGYDRNEVVGQN----CRFLNGVDTDTTVLYQIKE-SIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (394)
Q Consensus 266 i~~~N~~~~~~~G~~~~e~~g~~----~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d 340 (394)
|+|+|+.+++++||+++++ +.. +..+.||++...+...+.. ....+..+..++++++++|+++|+..++.++.|
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 6778999999999999999 778888999999999999999999999999999
Q ss_pred CCCCEEEEEEEE
Q 016138 341 ASGKIAYFAAVH 352 (394)
Q Consensus 341 ~~g~~~~~~~~~ 352 (394)
.+|++..++|++
T Consensus 80 ~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 80 ENGKPIRIIGVI 91 (91)
T ss_dssp TTS-EEEEEEEE
T ss_pred CCCCEEEEEEEC
Confidence 999999999874
No 27
>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=99.45 E-value=6.2e-13 Score=94.34 Aligned_cols=86 Identities=26% Similarity=0.464 Sum_probs=73.8
Q ss_pred EEEechhhHHhcCCCcchhcCCC----CccccCCCCChhHHHHHHH-HHHhCCCeeEEEeeEecCCCeEEEEEEEEeeec
Q 016138 43 IVFASRGFLKMSGFSRAEIIGRN----GRMFQGPRTNRRTIMEIRE-AIREERPIEVNLLNYKKDGTPFWMLFKMSLVFG 117 (394)
Q Consensus 43 i~~~N~a~~~~~G~~~~e~~g~~----~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~dG~~~~v~~~~~~i~~ 117 (394)
|+|+|+.+++++||+++++ +.+ +..++||++...+...+.. ....+.++..++++++++|+.+|++.++.++++
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 7778999999999999998 677888999999999999999999999999999
Q ss_pred cCCCeeeEEEEEe
Q 016138 118 KEDGRATHFVAVQ 130 (394)
Q Consensus 118 ~~~g~~~~~~~~~ 130 (394)
.+|++..++|+.
T Consensus 80 -~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 80 -ENGKPIRIIGVI 91 (91)
T ss_dssp -TTS-EEEEEEEE
T ss_pred -CCCCEEEEEEEC
Confidence 999999999974
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=99.41 E-value=5e-12 Score=93.34 Aligned_cols=119 Identities=22% Similarity=0.320 Sum_probs=96.3
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhcc-CeeeEEEE
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE-QACTVRIL 320 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~e~~ 320 (394)
.+..++++++.+++++|. +|.++++|+++++++|++..+++|+.+..+.++.........+...+..+ .....+..
T Consensus 4 ~~~~~~~~~~~~~~~~d~---~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (124)
T TIGR00229 4 RYRAIFESSPDAIIVIDL---EGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEERR 80 (124)
T ss_pred HHHHHHhhCCceEEEEcC---CCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEee
Confidence 466788999999999999 79999999999999999999999998877766666555555555555533 23344555
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHH
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHG 364 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~ 364 (394)
+...+|..+|+.....|+. .+|...++++++.|||++++++++
T Consensus 81 ~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~dit~~~~~~~~ 123 (124)
T TIGR00229 81 VRRKDGSEIWVEVSVSPIR-TNGGELGVVGIVRDITERKQAEEA 123 (124)
T ss_pred eEcCCCCEEEEEEEEeehh-hCCCeeEEEEEeeehhHHHHHHhc
Confidence 5678999999999999998 788889999999999999887754
No 29
>PRK10060 RNase II stability modulator; Provisional
Probab=99.38 E-value=1.1e-11 Score=120.03 Aligned_cols=119 Identities=15% Similarity=0.205 Sum_probs=96.1
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCcccc-CCCCChhHHHHHHHHHHhCCCeeE
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQ-GPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
...+++.+++.++++|+++|.+ |+|+++|+++++++||+.++++|+++..++ ++.+.......+...+..+..+..
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 3456788999999999999999 999999999999999999999999975554 444445555667777888888899
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCC-eeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDG-RATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g-~~~~~~~~~~DITe~k~~ 139 (394)
+....+++|..+|+.... ++.+ .+| ...+++++.+|||++|++
T Consensus 186 e~~~~~~~G~~~~~~~~~-~~~~-~~g~~~~~~i~~~~DITe~k~~ 229 (663)
T PRK10060 186 ERWIKTRKGQRLFLFRNK-FVHS-GSGKNEIFLICSGTDITEERRA 229 (663)
T ss_pred EEEEEeCCCCEEEEEeee-EEEc-CCCCceEEEEEEEEechHHHHH
Confidence 999999999998876554 4444 344 345678899999999985
No 30
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=99.34 E-value=2.8e-11 Score=109.42 Aligned_cols=104 Identities=18% Similarity=0.207 Sum_probs=88.6
Q ss_pred EEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEEE
Q 016138 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLL 333 (394)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~ 333 (394)
+|++.-.. |.+|.||.+.+.+++||++++++|+.+..++|+.|...+.+.....+..|...++.+|+..++|.+.|++.
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 44443333 78999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeeeecC-CCCEEEEEEEEeecchh
Q 016138 334 HISPIRNA-SGKIAYFAAVHTEEGCR 358 (394)
Q Consensus 334 ~~~~i~d~-~g~~~~~~~~~~DIT~~ 358 (394)
.++.+.+. ++....++++..=|+..
T Consensus 354 qATVi~~tkn~q~q~IicVnYVlS~~ 379 (768)
T KOG3558|consen 354 QATVIYNTKNPQEQNIICVNYVLSNI 379 (768)
T ss_pred eeEEEecCCCCCcceEEEEEeeeccc
Confidence 99999874 34445666665555544
No 31
>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=99.32 E-value=2.8e-11 Score=89.28 Aligned_cols=117 Identities=21% Similarity=0.349 Sum_probs=93.9
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhC-CCeeEEE
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIEVNL 96 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~ 96 (394)
+.++.+++.++.+++++|.+ +.++++|+++.+++|++..+++|.++..+.++.........+...+..+ .....+.
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~---~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLE---GNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCceEEEEcCC---CcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 46778999999999999999 9999999999999999999999998777776665555555555555533 2233445
Q ss_pred eeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 97 ~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
.+..++|..+|+.....|+.. +|...++++++.|||+++++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~dit~~~~~ 120 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIRT--NGGELGVVGIVRDITERKQA 120 (124)
T ss_pred eeEcCCCCEEEEEEEEeehhh--CCCeeEEEEEeeehhHHHHH
Confidence 555789999999999998863 67788999999999999875
No 32
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.26 E-value=4.5e-11 Score=119.64 Aligned_cols=121 Identities=19% Similarity=0.299 Sum_probs=103.3
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccC-CCCChhHHHHHHHHHHhCCCeeE
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQG-PRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
....+..++++++.+++++|.+ |+++++|+++++++||+.++++|++...+.+ +.........+...+..+..+..
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 4456677899999999999999 9999999999999999999999998766554 44444455556666777777778
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~e 140 (394)
+.+..+++|..+|+.++..|+.+ .+|.+.+++++++|||++|+++
T Consensus 211 e~~~~~~dG~~~~~~~~~~~v~d-~~g~~~~~~~~~~DITerk~~e 255 (799)
T PRK11359 211 EFLLLTRTGEKIWIKASISPVYD-VLAHLQNLVMTFSDITEERQIR 255 (799)
T ss_pred eeEEeCCCCCEEEEEeeeeeeec-CCCceeEEEEEeehhhhHHHHH
Confidence 88888999999999999999999 8999999999999999999863
No 33
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=99.21 E-value=1.6e-10 Score=84.27 Aligned_cols=106 Identities=21% Similarity=0.272 Sum_probs=73.6
Q ss_pred HHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeE
Q 016138 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (394)
Q Consensus 20 l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (394)
|++++++++.++.++|.+ ++|.++|+++.++++..+.+ +|+++..+.++...+.....+ +.+..++....+...
T Consensus 1 L~~il~s~~~~i~~vD~~---~~I~~~n~~a~~~f~~~~~~-iGr~l~~~~~~~~~~~l~~~i-~~~~~~~~~~~~~~~- 74 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDRN---LRIRYFNPAAARLFNLSPSD-IGRPLFDIHPPLSYPNLKKII-EQVRSGKEEEFEIVI- 74 (106)
T ss_dssp HHHHHHHSSSEEEEEETT---SBEEEE-SCGC-SS---GGG-TTSBCCCSS-HHHHHHHHHHH-HHHHTTSBSEEEEEE-
T ss_pred ChHHHhcCCCCEEEEcCC---CeEEEeChhHhhhcCCChHH-CCCCHHHcCCccchHHHHHHH-HHHHcCCCceEEEEe-
Confidence 468999999999999999 99999999999999987654 799988887664444444434 444555543333332
Q ss_pred ecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccc
Q 016138 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (394)
Q Consensus 100 ~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DIT 134 (394)
..+| +|+..+..|+++ .+|+..|++.++.|||
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 477788999999 8999999999999998
No 34
>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=99.19 E-value=7.6e-10 Score=77.85 Aligned_cols=103 Identities=21% Similarity=0.404 Sum_probs=87.2
Q ss_pred CCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCCeE
Q 016138 27 LPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPF 106 (394)
Q Consensus 27 ~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~ 106 (394)
++.+++++|.+ +.++++|+++.+++|++..+++|.++..++++.........+......+.....+......+|..+
T Consensus 1 ~~~~i~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (103)
T cd00130 1 LPDGVIVLDLD---GRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVI 77 (103)
T ss_pred CCceEEEECCC---CcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEE
Confidence 46789999998 999999999999999999999999877777777766666666666666666677778888889999
Q ss_pred EEEEEEEeeeccCCCeeeEEEEEeccc
Q 016138 107 WMLFKMSLVFGKEDGRATHFVAVQVPI 133 (394)
Q Consensus 107 ~v~~~~~~i~~~~~g~~~~~~~~~~DI 133 (394)
|+.....|+.+ ..|...+++++.+||
T Consensus 78 ~~~~~~~~~~~-~~~~~~~~~~~~~di 103 (103)
T cd00130 78 WVLVSLTPIRD-EGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEEec-CCCCEEEEEEEEecC
Confidence 99999999988 788899999998886
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=99.15 E-value=1.7e-09 Score=76.02 Aligned_cols=102 Identities=23% Similarity=0.393 Sum_probs=86.9
Q ss_pred cceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeE
Q 016138 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (394)
Q Consensus 251 ~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~ 330 (394)
+++++++|. +|.++++|+++++++|++..+++|..+..+.++.+.......+......+.....++.....+|...|
T Consensus 2 ~~~i~~~d~---~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (103)
T cd00130 2 PDGVIVLDL---DGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIW 78 (103)
T ss_pred CceEEEECC---CCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEEE
Confidence 578899998 79999999999999999999999998877777777666666666666656667778888888899999
Q ss_pred EEEEeeeeecCCCCEEEEEEEEeec
Q 016138 331 NLLHISPIRNASGKIAYFAAVHTEE 355 (394)
Q Consensus 331 ~~~~~~~i~d~~g~~~~~~~~~~DI 355 (394)
+.+...++.+..|...+++++..||
T Consensus 79 ~~~~~~~~~~~~~~~~~~~~~~~di 103 (103)
T cd00130 79 VLVSLTPIRDEGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEecCCCCEEEEEEEEecC
Confidence 9999999998888999999998886
No 36
>PF12860 PAS_7: PAS fold
Probab=99.15 E-value=2.4e-10 Score=84.70 Aligned_cols=103 Identities=20% Similarity=0.344 Sum_probs=73.1
Q ss_pred HhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchh-cCCCCcccc---------CCCCChhHHHHHHHHHHhCCCee
Q 016138 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEI-IGRNGRMFQ---------GPRTNRRTIMEIREAIREERPIE 93 (394)
Q Consensus 24 ~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~-~g~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~ 93 (394)
+++++.||+++|.+ ++++++|++|.+++|++++.+ .|.++..+. .+.....................
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 57899999999999 999999999999999999887 788754433 11222222333333333333333
Q ss_pred EEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
.+ ....||. |+.++.+|+.+ | |++.+++|||+++++
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 3457775 77888999855 4 678899999999986
No 37
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=99.14 E-value=2e-09 Score=104.40 Aligned_cols=124 Identities=17% Similarity=0.166 Sum_probs=100.2
Q ss_pred HHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCe-eeEEE
Q 016138 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA-CTVRI 319 (394)
Q Consensus 241 ~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~e~ 319 (394)
..+..++++++++++++|. +|+++++|+++++++||++++++|+++..++++.. .....+...+..+.. ...++
T Consensus 262 ~~~~~i~~~~~~~i~~~d~---~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 336 (607)
T PRK11360 262 SLNELILESIADGVIAIDR---QGKITTMNPAAEVITGLQRHELVGKPYSELFPPNT--PFASPLLDTLEHGTEHVDLEI 336 (607)
T ss_pred HHHHHHHHhccCeEEEEcC---CCCEEEECHHHHHHhCCChHHhcCCcHHHHcCCch--hHHHHHHHHHhcCCCccceEE
Confidence 3566788999999999998 79999999999999999999999999877766532 223344445554443 34466
Q ss_pred EEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHH
Q 016138 320 LNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMR 370 (394)
Q Consensus 320 ~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~ 370 (394)
....++|... +.++..|+.+.+|.+.+++++++|||++|++|++++++.+
T Consensus 337 ~~~~~~~~~~-~~~~~~~i~~~~g~~~~~i~~~~Dite~~~~e~~l~~~~~ 386 (607)
T PRK11360 337 SFPGRDRTIE-LSVSTSLLHNTHGEMIGALVIFSDLTERKRLQRRVARQER 386 (607)
T ss_pred EEEcCCCcEE-EEEEEeeEEcCCCCEEEEEEEEeechHHHHHHHHHHHHHH
Confidence 6677788776 8899999999999999999999999999999999886544
No 38
>PF12860 PAS_7: PAS fold
Probab=99.13 E-value=6.3e-10 Score=82.47 Aligned_cols=105 Identities=19% Similarity=0.238 Sum_probs=73.4
Q ss_pred HhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhh-cCCcccccc---------cCCCchhHHHHHHHHHhccCeee
Q 016138 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEV-VGQNCRFLN---------GVDTDTTVLYQIKESIQTEQACT 316 (394)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~-~g~~~~~l~---------~~~~~~~~~~~~~~~~~~~~~~~ 316 (394)
+++++.||+++|. +|+++++|+++.+++|++++.+ .|.++..+. .+.+...................
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 4688999999999 8999999999999999999887 677753332 12222233333333333444444
Q ss_pred EEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhH
Q 016138 317 VRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRH 363 (394)
Q Consensus 317 ~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~ 363 (394)
.+ ...+|| +|+.+...|+.+ | |++.++.|||++|++|+
T Consensus 78 ~~--~~~~dg--r~l~~~~~~~~~--G---g~v~~~~DVT~~~~~E~ 115 (115)
T PF12860_consen 78 FE--LRLPDG--RWLEVRAQPLPD--G---GFVLTFTDVTERRRAEE 115 (115)
T ss_pred eE--EECCCC--EEEEEEeEECCC--C---CEEEEEEeCCHHHHhcC
Confidence 44 345666 466778888843 5 57889999999999874
No 39
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=99.13 E-value=1.1e-09 Score=98.38 Aligned_cols=118 Identities=16% Similarity=0.084 Sum_probs=90.7
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEE
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILN 321 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 321 (394)
.+..+++++++|++++|. +|+|+++|+++++++||+.++++|+++..+.++... ....+...+..+..+......
T Consensus 8 ~~~~il~~~~~gi~~~d~---~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 82 (348)
T PRK11073 8 DAGQILNSLINSILLLDD---DLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSL--NIELMRESLQAGQGFTDNEVT 82 (348)
T ss_pred hHHHHHhcCcCeEEEECC---CCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcchh--hHHHHHHHHHcCCcccccceE
Confidence 467789999999999999 799999999999999999999999998777654321 223444555555554443344
Q ss_pred EecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHH
Q 016138 322 YRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEM 369 (394)
Q Consensus 322 ~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~ 369 (394)
...+|..+|+.++..|+. . .+++..++|||++++.++++.+..
T Consensus 83 ~~~~g~~~~~~~~~~~~~--~---~~~~~~~~dit~~~~~~~~~~~~~ 125 (348)
T PRK11073 83 LVIDGRSHILSLTAQRLP--E---GMILLEMAPMDNQRRLSQEQLQHA 125 (348)
T ss_pred EEECCceEEEEEEEEEcc--C---ceeEEEEechhHHHHHHHHHHHHH
Confidence 567999999999999987 2 246777899999999887765443
No 40
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=99.09 E-value=6.4e-10 Score=81.08 Aligned_cols=106 Identities=15% Similarity=0.209 Sum_probs=73.1
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEE
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (394)
++.++++++.+++++|. +++|.+.|+++.++|+..+. .+|+++..+.++...+.....+ +.+..+.....+...
T Consensus 1 L~~il~s~~~~i~~vD~---~~~I~~~n~~a~~~f~~~~~-~iGr~l~~~~~~~~~~~l~~~i-~~~~~~~~~~~~~~~- 74 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDR---NLRIRYFNPAAARLFNLSPS-DIGRPLFDIHPPLSYPNLKKII-EQVRSGKEEEFEIVI- 74 (106)
T ss_dssp HHHHHHHSSSEEEEEET---TSBEEEE-SCGC-SS---GG-GTTSBCCCSS-HHHHHHHHHHH-HHHHTTSBSEEEEEE-
T ss_pred ChHHHhcCCCCEEEEcC---CCeEEEeChhHhhhcCCChH-HCCCCHHHcCCccchHHHHHHH-HHHHcCCCceEEEEe-
Confidence 45678999999999999 79999999999999998765 4799998887664444444444 444455543333333
Q ss_pred ecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecc
Q 016138 323 RKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEG 356 (394)
Q Consensus 323 ~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT 356 (394)
..+ ..|+.++..|+++.+|+..|++.++.|||
T Consensus 75 ~~~--~~~~~~~~~P~~~~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 75 PNG--GRWYLVRYRPYRDEDGEYAGAVITFQDIT 106 (106)
T ss_dssp EET--TEEEEEEEEEEE-TTS-EEEEEEEEEE-G
T ss_pred cCC--CEEEEEEEEEEECCCCCEEEEEEEEEecC
Confidence 233 35778899999999999999999999998
No 41
>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=99.09 E-value=3.2e-09 Score=77.31 Aligned_cols=102 Identities=17% Similarity=0.261 Sum_probs=86.2
Q ss_pred EEEcCCCCCCcEEEechh-hHHhcCCCcchhcCCCCccccCCCCChh-HHHHHHHHHHhCCCeeEEEeeEecCCCeEEEE
Q 016138 32 TITDPSISGHPIVFASRG-FLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAIREERPIEVNLLNYKKDGTPFWML 109 (394)
Q Consensus 32 ~~~d~~~~d~~i~~~N~a-~~~~~G~~~~e~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~v~ 109 (394)
...+.+ |+|+++... ...++||.++|++|+++..++||++... ........+..|.....-+|+..++|..+|+.
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 345666 999999999 6999999999999999999999999986 77788888899988777899999999999999
Q ss_pred EEEEeeeccCCCeeeEEEEEecccccc
Q 016138 110 FKMSLVFGKEDGRATHFVAVQVPIVSR 136 (394)
Q Consensus 110 ~~~~~i~~~~~g~~~~~~~~~~DITe~ 136 (394)
....++.++.++++..++++.+=|++.
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 999999875567888888887766654
No 42
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=99.07 E-value=1.9e-09 Score=96.23 Aligned_cols=112 Identities=13% Similarity=0.053 Sum_probs=86.1
Q ss_pred hHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEE
Q 016138 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (394)
Q Consensus 239 ~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (394)
....+..+++++|++++++|. +|+++++|+++++++|+++++.+|+++..+.++. .+...+..+.. ...
T Consensus 4 ~~~~l~~~~~~~~~~i~~~d~---~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~-------~~~~~l~~~~~-~~~ 72 (333)
T TIGR02966 4 LLSRFRAAAQALPDAVVVLDE---EGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHP-------EFVEYLAAGRF-SEP 72 (333)
T ss_pred HHHHHHHHHHhCcCcEEEECC---CCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCH-------HHHHHHHhccc-CCC
Confidence 345688899999999999999 7999999999999999999999999987765542 22233333222 223
Q ss_pred EEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHH
Q 016138 319 ILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLS 366 (394)
Q Consensus 319 ~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~ 366 (394)
.....++|..+|+.+...|+.+.. ++++++|||++++.++..+
T Consensus 73 ~~~~~~~~~~~~~~~~~~p~~~~~-----~~~~~~dit~~~~~~~~~~ 115 (333)
T TIGR02966 73 LELPSPINSERVLEIRIAPYGEEQ-----KLLVARDVTRLRRLEQMRR 115 (333)
T ss_pred eEeecCCCCceEEEEEEEEcCCCc-----eEEEEeCchHHHHHHHHHH
Confidence 445568889999999999987543 6788899999988776543
No 43
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=99.07 E-value=3.5e-08 Score=95.49 Aligned_cols=107 Identities=12% Similarity=0.146 Sum_probs=76.8
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEE
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (394)
+..++++++++|+++|. +|+|+++|+++++++|++.++++|+++..+++.. ..+..++..+.++.......
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 44578888999999999 7999999999999999999999999987665321 12334555555543332223
Q ss_pred ecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhh
Q 016138 323 RKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQ 360 (394)
Q Consensus 323 ~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~ 360 (394)
..+|..+++.+...|+.+..|. +++.+++|++..++
T Consensus 276 ~~~g~~~~~~v~~~Pi~~~~g~--~~v~~l~~~~~~~~ 311 (638)
T PRK11388 276 ESQGQFIDAVITLKPIIEGQGT--SFILLLHPVEQMRQ 311 (638)
T ss_pred ecCCceEEEEEEEEeecccCce--EEEEEehhhHHHHH
Confidence 4467777888999999754443 35666788877544
No 44
>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=99.04 E-value=5.8e-09 Score=75.97 Aligned_cols=95 Identities=18% Similarity=0.180 Sum_probs=82.3
Q ss_pred CcCEEEeCHH-HHHHhcCCchhhcCCcccccccCCCchh-HHHHHHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeec
Q 016138 263 DMPMVYASDA-FLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (394)
Q Consensus 263 dg~i~~~N~~-~~~~~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d 340 (394)
||+|+++.+. ...++||.++|++|+.+..+.||+|... ........+..|.....-+|++.++|.++|+...+.++.+
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 7778888889999888889999999999999999999987
Q ss_pred C-CCCEEEEEEEEeecch
Q 016138 341 A-SGKIAYFAAVHTEEGC 357 (394)
Q Consensus 341 ~-~g~~~~~~~~~~DIT~ 357 (394)
. .+++..++++-.=|++
T Consensus 91 ~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 91 PWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp TTTTCEEEEEEEEEEESC
T ss_pred CCCCCccEEEEEEEEecc
Confidence 5 5677777777665554
No 45
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=99.04 E-value=1.6e-09 Score=96.68 Aligned_cols=108 Identities=13% Similarity=0.085 Sum_probs=84.6
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
+..++|+.+++++|++++++|.+ |+|+++|+++++++||++++.+|+++..+.++. .+...+..+.. ..
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 45678999999999999999999 999999999999999999999999977665432 22333333322 22
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
......++|..+|+.+...|+.+ . + ++++++|||++++.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~p~~~-~-~----~~~~~~dit~~~~~ 110 (333)
T TIGR02966 72 PLELPSPINSERVLEIRIAPYGE-E-Q----KLLVARDVTRLRRL 110 (333)
T ss_pred CeEeecCCCCceEEEEEEEEcCC-C-c----eEEEEeCchHHHHH
Confidence 24445588899999999999876 3 2 67888999998885
No 46
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=99.02 E-value=3.1e-09 Score=95.54 Aligned_cols=111 Identities=14% Similarity=0.133 Sum_probs=87.1
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEe
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (394)
..+.+++++++++++++|.+ |+|+++|+++++++||+.++++|+++..++++... ....+...+..+..+.....
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 35688999999999999999 99999999999999999999999998777654321 22344556666555444444
Q ss_pred eEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 98 ~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
....+|..+|+.++..|+.. .+++..++|+|++++.
T Consensus 82 ~~~~~g~~~~~~~~~~~~~~------~~~~~~~~dit~~~~~ 117 (348)
T PRK11073 82 TLVIDGRSHILSLTAQRLPE------GMILLEMAPMDNQRRL 117 (348)
T ss_pred EEEECCceEEEEEEEEEccC------ceeEEEEechhHHHHH
Confidence 45679999999999999864 2467788999998874
No 47
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.99 E-value=3e-09 Score=94.78 Aligned_cols=123 Identities=24% Similarity=0.483 Sum_probs=102.9
Q ss_pred HHHHHHHHHhhCC--CeEEEE-cCCCCCCcEEEechhhHHhcCCCcchhcCCC--CccccCCCCChhHHHHHHHHHHhCC
Q 016138 16 YTLWVHEALDELP--DSFTIT-DPSISGHPIVFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTIMEIREAIREER 90 (394)
Q Consensus 16 ~~~~l~~l~~~~~--~~i~~~-d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (394)
.+..|+.++..+. +.-+++ +..--|.-|+|+|+.||++.||.+.|++.++ ..++++...+....+.+.+.+...+
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 4456677776554 444443 4433458899999999999999999999988 5566777777778889999999988
Q ss_pred CeeEEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 91 PIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 91 ~~~~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
.-.+|+.++.++.+++|+.+.+.||++ +...++-+++++.|||..|+-
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 889999999999999999999999999 999999999999999998874
No 48
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.94 E-value=1.2e-08 Score=98.92 Aligned_cols=117 Identities=15% Similarity=0.192 Sum_probs=95.4
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCC-eeE
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP-IEV 94 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 94 (394)
....++.++++++++++++|.+ ++++++|+++++++||++++++|+++..++++.. .....+...+..+.. ...
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 4456788999999999999998 9999999999999999999999999877776542 233444555555444 334
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
+..+..++|... +.++..|+.+ .+|++.|++++++|||+++++
T Consensus 335 ~~~~~~~~~~~~-~~~~~~~i~~-~~g~~~~~i~~~~Dite~~~~ 377 (607)
T PRK11360 335 EISFPGRDRTIE-LSVSTSLLHN-THGEMIGALVIFSDLTERKRL 377 (607)
T ss_pred EEEEEcCCCcEE-EEEEEeeEEc-CCCCEEEEEEEEeechHHHHH
Confidence 566667777766 8899999999 899999999999999999986
No 49
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.83 E-value=1.9e-07 Score=89.41 Aligned_cols=123 Identities=16% Similarity=0.159 Sum_probs=86.7
Q ss_pred hhhhHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCc---hhhcCCcccccccCCCchhHHHHHHHHHhcc
Q 016138 236 MGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR---NEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (394)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~---~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~ 312 (394)
+......++.+++++++||+++|. +|+|+++|+++++++|++. .+.+|+.+..+.++ ..+...+..+
T Consensus 216 i~~l~~~~~~il~~~~~gIi~~D~---~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~ 285 (542)
T PRK11086 216 ISTLFEQRQAMLQSIKEGVIAVDD---RGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPV-------SRLKEVLRTG 285 (542)
T ss_pred HHHHHHHHHHHHHHhcCcEEEECC---CCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCc-------hhHHHHHhcC
Confidence 334455678899999999999999 7999999999999998753 45666665444332 1233444555
Q ss_pred CeeeEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHH
Q 016138 313 QACTVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLS 373 (394)
Q Consensus 313 ~~~~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~ 373 (394)
.+..... ...+|. ++.+...|+.+ +|.+.|++.+++|+|+.++.++++.......+
T Consensus 286 ~~~~~~~--~~~~g~--~~~~~~~pi~~-~g~~~g~v~~~rDite~~~l~~~l~~~~~~~~ 341 (542)
T PRK11086 286 TPRRDEE--ININGR--LLLTNTVPVRV-NGEIIGAIATFRDKTEVRQLAQRLDGMVNYAD 341 (542)
T ss_pred CCccceE--EEECCE--EEEEEEEEEeE-CCEEEEEEEEEEEchHHHHHHHHHHHHHHHHH
Confidence 4433211 122443 45567789987 89999999999999999998888776554443
No 50
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.81 E-value=1.6e-08 Score=90.30 Aligned_cols=110 Identities=32% Similarity=0.656 Sum_probs=94.7
Q ss_pred ceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcc--cccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCee
Q 016138 252 QSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNC--RFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSF 329 (394)
Q Consensus 252 ~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~--~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~ 329 (394)
..+++.+.+.-|..|+|+|+.||++.||.+.|++.+.+ .+.+....+......+.+.+..-+.-.+|+.+..++..+.
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 45566666555789999999999999999999999975 5555555566777888888888888889999999999999
Q ss_pred EEEEEeeeeecCCCCEEEEEEEEeecchhhhh
Q 016138 330 WNLLHISPIRNASGKIAYFAAVHTEEGCRNQD 361 (394)
Q Consensus 330 ~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~ 361 (394)
|+.+...||+++...++-++++++|||..|+-
T Consensus 108 W~~vqiAPIrNe~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 108 WLLVQIAPIRNEKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred EEEEEeecccCCCceEEEEEeecccchhhcCC
Confidence 99999999999999999999999999999873
No 51
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.79 E-value=1.3e-07 Score=79.79 Aligned_cols=114 Identities=15% Similarity=0.242 Sum_probs=91.5
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
...++|..++..+.+|++.+|.. |.|+.+|..+.+++|.+.++++|++...+..-.+.-. +.+.+........
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 35568999999999999999999 9999999999999999999999999766655443322 2334444433333
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
+. +..++.+-++++.+.+.. +.|-+.|++++..|+|++.+.
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 237788888999999999 999999999999999999885
No 52
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.78 E-value=7e-08 Score=86.73 Aligned_cols=112 Identities=17% Similarity=0.367 Sum_probs=86.1
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
+..+.|+.+++.+.++++++|.+ |.++++|.++..++|+++++++|++..+++....+ ....+++..+++...
T Consensus 114 ~~~~~l~~il~~~~~~l~vvD~~---G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~~----s~~l~vl~~~kp~~~ 186 (560)
T COG3829 114 QLRQRLEAILDSIDDGLLVVDED---GIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGED----STLLEVLRTGKPIRD 186 (560)
T ss_pred HHHHHHHHHHhhccCceEEEcCC---CcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccCC----ceehhhhhcCCccee
Confidence 45678999999999999999999 99999999999999999999999997766511111 233466777777655
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
....+..++. ..+..|++. +|.+.|.++++.|+++.+..
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 4443333222 345667776 78999999999999988775
No 53
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.77 E-value=1.7e-06 Score=70.44 Aligned_cols=115 Identities=23% Similarity=0.273 Sum_probs=83.9
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchh-HHHHH-HHHHhccCeeeEEEE
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQI-KESIQTEQACTVRIL 320 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~-~~~~~~~~~~~~e~~ 320 (394)
+..++++.+++++.+|. +|.+.++|+++++++|++..+..+.....+........ ..... ............+..
T Consensus 114 ~~~~~~~~~~~~~~~d~---~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (232)
T COG2202 114 LRALLEASPDGIWVLDE---DGRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLEIEYR 190 (232)
T ss_pred HHHHHhhCCceEEEEeC---CCCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCcceEEE
Confidence 44567888899999998 79999999999999999987777776544443322221 11122 222233445777888
Q ss_pred EEecCCCe-eEEEEEeeeeecCCCCEEEEEEEEeecchhhhh
Q 016138 321 NYRKDKSS-FWNLLHISPIRNASGKIAYFAAVHTEEGCRNQD 361 (394)
Q Consensus 321 ~~~~~G~~-~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~ 361 (394)
...++|.. .|......+... .|.+..+.....|++++++.
T Consensus 191 ~~~~~g~~~~~~~~~~~~~~~-~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 191 VRRKDGERVRWILSRISPVRD-DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred EEecCCCEEEEEEeeeeEecC-CCceEEEEEEEechHHHhhc
Confidence 88999996 888777777764 78888899999999998864
No 54
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=98.74 E-value=4.3e-06 Score=80.11 Aligned_cols=120 Identities=10% Similarity=0.045 Sum_probs=83.1
Q ss_pred HHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCc--hhhcCCcccccccCCCchhHHHHHHHHHhccCeeeE
Q 016138 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR--NEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTV 317 (394)
Q Consensus 240 ~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~--~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 317 (394)
...+..+++++++|++++|. +|+|+++|+++++++|++. ++++|+++..+.++.... ..... ......
T Consensus 221 ~~~~~~il~~~~egii~~D~---~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~~------~~~~~-~~~~~~ 290 (545)
T PRK15053 221 VRQQEALFSSVYEGLIAVDP---HGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADFF------TEQID-EKRQDV 290 (545)
T ss_pred HHHHHHHHHHhCceEEEECC---CCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchhh------hhhcC-Ccccce
Confidence 34567789999999999999 7999999999999999975 468999877666543111 11111 111111
Q ss_pred EEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHh
Q 016138 318 RILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 375 (394)
Q Consensus 318 e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 375 (394)
. ...+| ..+.++..|+.. +|.+.|++.+++|+|+.++.+.++...+...+.+
T Consensus 291 ~---~~~~~--~~~~~~~~~i~~-~~~~~G~v~~~~d~te~~~l~~~l~~~~~~~e~l 342 (545)
T PRK15053 291 V---ANFNG--LSVIANREAIRS-GDDLLGAIISFRSKDEISTLNAQLTQIKQYVESL 342 (545)
T ss_pred E---EEECC--EEEEEEeeeEEE-CCeEEEEEEEEEchHHHHHHHHHHHHHHHHHHHH
Confidence 1 12234 334567778764 5677899999999999998888877666555544
No 55
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.72 E-value=2.7e-07 Score=77.85 Aligned_cols=120 Identities=13% Similarity=0.174 Sum_probs=94.1
Q ss_pred HHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEE
Q 016138 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (394)
Q Consensus 241 ~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (394)
..++.++..+.||++-+|. .|+|+.+|..+.+++|.+.++++|++..++..-.+.-. +...+........+.
T Consensus 111 ~kL~SvlayMtDGViATdR---rG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~----~~dL~e~~~s~lld~- 182 (459)
T COG5002 111 RKLDSVLAYMTDGVIATDR---RGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYT----FEDLVEKNDSLLLDS- 182 (459)
T ss_pred HHHHHHHHHHcCceEeecC---CCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCcccee----HHHHHhcCCcEEEee-
Confidence 3577788888999999999 59999999999999999999999999876655443322 223333333333332
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHH
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMR 370 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~ 370 (394)
...++.+-+.++.+.+..+.|-+.|++++.+|+|++.+.|++.++.-.
T Consensus 183 --~~~~E~~~lrv~Fs~i~rEsGfisGlIaVlhDvTEqek~e~ErRefva 230 (459)
T COG5002 183 --SDEEEGYVLRVNFSVIQRESGFISGLIAVLHDVTEQEKVERERREFVA 230 (459)
T ss_pred --cCCCccEEEEEEEEEEeecccccceeEEEEecccHHHHHHHHHHHHHH
Confidence 237788889999999999999999999999999999999988876443
No 56
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.69 E-value=9.6e-08 Score=89.57 Aligned_cols=110 Identities=14% Similarity=0.139 Sum_probs=81.7
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
+....+.++++++++||+++|.+ |+|+++|+++++++|++.++++|+++..+++... +.+.+..+.+...
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 45667999999999999999999 9999999999999999999999999877765432 2334444443211
Q ss_pred EEeeEecCCCeEEEEEEEEeee--ccCCCee--eEEEEEecccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVF--GKEDGRA--THFVAVQVPIVSRKH 138 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~--~~~~g~~--~~~~~~~~DITe~k~ 138 (394)
. .....+|..++ +...|+. + ++|.. .|.+.+++|+++..+
T Consensus 147 ~-~~v~~~g~~~~--v~~~PI~~~d-~~g~~~~~GaVivlrd~~~l~~ 190 (520)
T PRK10820 147 N-EHVVINGQDFL--MEITPVYLQD-ENDQHVLVGAVVMLRSTARMGR 190 (520)
T ss_pred e-EEEEECCEEEE--EEEEeeeecC-CCCceeEEEEEEEeccHHHHHH
Confidence 1 22344676655 4567876 5 55553 899999999997643
No 57
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=98.54 E-value=2.2e-06 Score=73.31 Aligned_cols=100 Identities=12% Similarity=0.095 Sum_probs=73.0
Q ss_pred CcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeecCC
Q 016138 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNAS 342 (394)
Q Consensus 263 dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d~~ 342 (394)
|..+++......+++||++.+++++.+...++.-|.......-...+..|....--+|+..+.|.+.|+....+.+.+..
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 78999999999999999999999999888887777666665555666667666666777889999999988877776654
Q ss_pred CC-EEEEEEE--Eeecchhhhhh
Q 016138 343 GK-IAYFAAV--HTEEGCRNQDR 362 (394)
Q Consensus 343 g~-~~~~~~~--~~DIT~~k~~e 362 (394)
.. ...++.+ +.-+.|-|..+
T Consensus 314 SSR~~fivSvnyVls~~EyK~Lq 336 (598)
T KOG3559|consen 314 SSRPHFIVSVNYVLSELEYKELQ 336 (598)
T ss_pred cCCcceEEeeeeeeehhhhhhhe
Confidence 33 3333222 33455555543
No 58
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.54 E-value=2e-07 Score=86.34 Aligned_cols=106 Identities=13% Similarity=0.149 Sum_probs=74.5
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
...++|+.+++++|++++++|.+ |+|+++|+++++++||+.++++|+++..+..+++ +.. .+.... ...
T Consensus 95 ~~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~---~~~----~~~~~~-~~~ 163 (430)
T PRK11006 95 NLIKRFRSGAESLPDAVVLTTEE---GNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPE---FTQ----YLKTRD-FSR 163 (430)
T ss_pred HHHHHHHHHHHhCCCeEEEEcCC---CceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHH---HHH----HHHhcc-cCC
Confidence 45678999999999999999999 9999999999999999999999998766554321 111 111111 111
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
.......+|. ++.+...|..+ + +++.+++|||++++.
T Consensus 164 ~~~~~~~~~~--~~~~~~~~~~~---~---~~~~~~~dit~~~~~ 200 (430)
T PRK11006 164 PLTLVLNNGR--HLEIRVMPYTE---G---QLLMVARDVTQMHQL 200 (430)
T ss_pred CeEEEcCCCC--EEEEEEEEcCC---C---cEEEEEehhhHHHHH
Confidence 2222344554 55666667644 2 356788999999886
No 59
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.53 E-value=7e-07 Score=83.84 Aligned_cols=106 Identities=12% Similarity=0.091 Sum_probs=77.5
Q ss_pred HHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEE
Q 016138 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (394)
Q Consensus 241 ~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (394)
..+..+++++++||+++|. +|+|+++|++++++||++.++++|+++..+.+... +...+..+.+.... .
T Consensus 80 ~~L~aIL~sm~eGVi~vD~---~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~-------l~~~le~~~~~~~~-~ 148 (520)
T PRK10820 80 RALSALLEALPEPVLSIDM---KGKVELANPASCQLFGQSEEKLRNHTAAQLINGFN-------FLRWLESEPQDSHN-E 148 (520)
T ss_pred HHHHHHHHhCCCcEEEECC---CCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcch-------HHHHHHcCCCccce-E
Confidence 3577889999999999999 79999999999999999999999999887766432 22334444431111 1
Q ss_pred EEecCCCeeEEEEEeeeee--cCCCCE--EEEEEEEeecchhh
Q 016138 321 NYRKDKSSFWNLLHISPIR--NASGKI--AYFAAVHTEEGCRN 359 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~--d~~g~~--~~~~~~~~DIT~~k 359 (394)
....+|..++ +...|+. +++|.. .|.+.+++|+++..
T Consensus 149 ~v~~~g~~~~--v~~~PI~~~d~~g~~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 149 HVVINGQDFL--MEITPVYLQDENDQHVLVGAVVMLRSTARMG 189 (520)
T ss_pred EEEECCEEEE--EEEEeeeecCCCCceeEEEEEEEeccHHHHH
Confidence 2344566554 5567776 666654 79999999998753
No 60
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.53 E-value=3.7e-07 Score=84.59 Aligned_cols=110 Identities=13% Similarity=0.090 Sum_probs=75.0
Q ss_pred hHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEE
Q 016138 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (394)
Q Consensus 239 ~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (394)
....++.+++++|++++++|. +|+|+++|+++++++||+.++++|+++..+..+.+ .... +... .....
T Consensus 96 ~~~~~~~~~~~~~~~i~~~d~---~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~---~~~~----~~~~-~~~~~ 164 (430)
T PRK11006 96 LIKRFRSGAESLPDAVVLTTE---EGNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPE---FTQY----LKTR-DFSRP 164 (430)
T ss_pred HHHHHHHHHHhCCCeEEEEcC---CCceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHH---HHHH----HHhc-ccCCC
Confidence 344678889999999999999 79999999999999999999999998766554321 1111 1111 11112
Q ss_pred EEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHH
Q 016138 319 ILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLS 366 (394)
Q Consensus 319 ~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~ 366 (394)
......+|. ++.+...|..+ + +++.+.+|||++++.++..+
T Consensus 165 ~~~~~~~~~--~~~~~~~~~~~--~---~~~~~~~dit~~~~~e~~~~ 205 (430)
T PRK11006 165 LTLVLNNGR--HLEIRVMPYTE--G---QLLMVARDVTQMHQLEGARR 205 (430)
T ss_pred eEEEcCCCC--EEEEEEEEcCC--C---cEEEEEehhhHHHHHHHHHH
Confidence 223344454 45556666542 3 25678899999998886554
No 61
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=98.52 E-value=2.6e-06 Score=76.82 Aligned_cols=127 Identities=17% Similarity=0.150 Sum_probs=91.7
Q ss_pred chhhhHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCch--hhcCCcccccccCCCchhHHHHHHHHHhcc
Q 016138 235 GMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRN--EVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (394)
Q Consensus 235 ~~~~~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~--e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~ 312 (394)
++..+.+...+.++++..|++.+|. .|.|..+|.++++|+|+... +++|++...+.+|+.+ +...++.+
T Consensus 209 EIa~l~~er~A~l~si~EGviAvd~---~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~------l~~vl~~~ 279 (537)
T COG3290 209 EIATLLEERQAMLQSIKEGVIAVDK---KGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSD------LPEVLETG 279 (537)
T ss_pred HHHHHHHHHHHHHHHhhceEEEECC---CCeEeehhHHHHHHhcccCcCcccccccceEeeccccC------cHHHHhcC
Confidence 3344445567889999999999999 69999999999999999764 7899998888877322 12223444
Q ss_pred CeeeEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHh
Q 016138 313 QACTVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAI 375 (394)
Q Consensus 313 ~~~~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~ 375 (394)
.+..-+. .+-+| .++..+..|+. .+|+++|++.++||=|+-++.-++|...+.-.+++
T Consensus 280 ~~~~~~e--~~~ng--~~~i~nr~pI~-~~~~~~GaI~tFRdktei~~L~eqLt~vr~ya~aL 337 (537)
T COG3290 280 KPQHDEE--IRING--RLLVANRVPIR-SGGQIVGAIITFRDKTEIKKLTEQLTGVRQYAEAL 337 (537)
T ss_pred Ccccchh--hhcCC--eEEEEEeccEE-ECCEEeEEEEEEecHHHHHHHHHHHHHHHHHHHHH
Confidence 4432221 12233 35667888887 57899999999999999998888877655554443
No 62
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.50 E-value=2.1e-07 Score=60.67 Aligned_cols=43 Identities=23% Similarity=0.421 Sum_probs=36.0
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCc
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGR 67 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~ 67 (394)
++|+.+++++|.||+++| + ++|+++|+++++++||+ ..|+...
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 63
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.36 E-value=1.1e-05 Score=65.53 Aligned_cols=119 Identities=24% Similarity=0.365 Sum_probs=88.4
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChh-HHHHHHHHH-HhCCCee
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAI-REERPIE 93 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~~ 93 (394)
...++..+++..+.+++++|.+ +.++++|+++.+++|++..+..+.....+........ ......... .......
T Consensus 110 ~~~~~~~~~~~~~~~~~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 186 (232)
T COG2202 110 SEERLRALLEASPDGIWVLDED---GRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLE 186 (232)
T ss_pred HHHHHHHHHhhCCceEEEEeCC---CCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCcc
Confidence 3344889999999999999998 9999999999999999988877777555444332221 122222222 2333467
Q ss_pred EEEeeEecCCCe-EEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 94 VNLLNYKKDGTP-FWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 94 ~e~~~~~~dG~~-~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
.+.....++|.. .|+.....+... .|.+.++.+...|+|++++.
T Consensus 187 ~~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 187 IEYRVRRKDGERVRWILSRISPVRD--DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred eEEEEEecCCCEEEEEEeeeeEecC--CCceEEEEEEEechHHHhhc
Confidence 788888899996 888777777754 68889999999999998763
No 64
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=98.34 E-value=2e-06 Score=76.37 Aligned_cols=102 Identities=18% Similarity=0.143 Sum_probs=84.5
Q ss_pred EEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEEE
Q 016138 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLL 333 (394)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~ 333 (394)
|+-+..+. |+..+.+......++||...|+.|+.-..++|.+|.........+.++.|...-..+|..+++|++.|+..
T Consensus 284 i~rtKhkl-Dfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~qtk~grw~wvqs 362 (712)
T KOG3560|consen 284 ILRTKHKL-DFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQTKAGRWAWVQS 362 (712)
T ss_pred hhhccccc-ccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCCcceEEEEEeecCCcEEEeec
Confidence 33343333 77788888889999999999999998888999888877778888999999998889999999999999999
Q ss_pred EeeeeecCCCCEEEEEEEEeecch
Q 016138 334 HISPIRNASGKIAYFAAVHTEEGC 357 (394)
Q Consensus 334 ~~~~i~d~~g~~~~~~~~~~DIT~ 357 (394)
++..++ .+|++-.++.+-+-.++
T Consensus 363 sarlly-kngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 363 SARLLY-KNGKPDLVIDTHRGLGD 385 (712)
T ss_pred cceeee-ecCCCCEEEecCCCccc
Confidence 988776 68888777776666655
No 65
>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=98.32 E-value=1.5e-05 Score=60.12 Aligned_cols=113 Identities=11% Similarity=0.096 Sum_probs=87.4
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEe
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (394)
..++.++. .|.+|+..+.. +|-.++|.|.++.+|++++-++++++|...-..+.........+.++...|-...+.=.
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 34455555 99999988876 56899999999999999999999999987766666666666777777777766555555
Q ss_pred eEecCCCeEEEEE-EEEeeeccCCCeeeEEEEEeccc
Q 016138 98 NYKKDGTPFWMLF-KMSLVFGKEDGRATHFVAVQVPI 133 (394)
Q Consensus 98 ~~~~dG~~~~v~~-~~~~i~~~~~g~~~~~~~~~~DI 133 (394)
.+.+.|..++++- .+-.+.| ++|...|.-.++.+-
T Consensus 110 Riss~Grrf~ie~a~vW~l~D-~~g~~~GqAa~F~~W 145 (148)
T PF08670_consen 110 RISSTGRRFRIERATVWNLID-EDGNYCGQAAMFSNW 145 (148)
T ss_pred EEcCCCCeEEEeceEEEEEEc-CCCCEEEEEEEEeee
Confidence 6788999988754 4555777 899988887776653
No 66
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.32 E-value=4.6e-06 Score=79.87 Aligned_cols=109 Identities=10% Similarity=0.140 Sum_probs=78.4
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCc---chhcCCCCccccCCCCChhHHHHHHHHHHhCCC
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR---AEIIGRNGRMFQGPRTNRRTIMEIREAIREERP 91 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~---~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (394)
+..+.+++++++++++|+++|.+ |+|+++|+++++++|++. .+.+|.....+.++ ..+...+..+.+
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 34566789999999999999999 999999999999998763 45566664444332 223445555554
Q ss_pred eeEEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 92 IEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 92 ~~~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
..... ...+|. ++.+...|+.+ +|.+.|++++++|+|+.++.
T Consensus 288 ~~~~~--~~~~g~--~~~~~~~pi~~--~g~~~g~v~~~rDite~~~l 329 (542)
T PRK11086 288 RRDEE--ININGR--LLLTNTVPVRV--NGEIIGAIATFRDKTEVRQL 329 (542)
T ss_pred ccceE--EEECCE--EEEEEEEEEeE--CCEEEEEEEEEEEchHHHHH
Confidence 43221 223454 44556789987 88999999999999998875
No 67
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=98.26 E-value=5.4e-07 Score=78.00 Aligned_cols=107 Identities=21% Similarity=0.325 Sum_probs=92.0
Q ss_pred HHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccC-CCchhHHHHHHHHHhccCeeeEEE
Q 016138 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGV-DTDTTVLYQIKESIQTEQACTVRI 319 (394)
Q Consensus 241 ~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~-~~~~~~~~~~~~~~~~~~~~~~e~ 319 (394)
..+...++....+|-++|. |..|.|+||+|+.|+||-..|++|+...++... ..+..+.+.+...++.|..+.++.
T Consensus 157 nalFaaLD~c~eAiEI~~d---dhViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~~ 233 (775)
T KOG1229|consen 157 NALFAALDECDEAIEICDD---DHVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGEE 233 (775)
T ss_pred HHHHHHHhhhhhhheeccc---hhHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccchH
Confidence 3456778888889999998 789999999999999999999999998777543 345567788889999999999999
Q ss_pred EEEecCCCeeEEEEEeeeeecCCCCEEEEEE
Q 016138 320 LNYRKDKSSFWNLLHISPIRNASGKIAYFAA 350 (394)
Q Consensus 320 ~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~ 350 (394)
..+++.|......+..+|+....|++..++.
T Consensus 234 ~aRRksgdS~dqh~~itP~~gqggkirhfvs 264 (775)
T KOG1229|consen 234 EARRKSGDSCDQHFIITPFAGQGGKIRHFVS 264 (775)
T ss_pred HHhhccCCcccceEEEeeecCCCCceeeehh
Confidence 9999999988888899999999999888765
No 68
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=98.16 E-value=2.6e-06 Score=78.11 Aligned_cols=105 Identities=11% Similarity=0.256 Sum_probs=90.1
Q ss_pred EEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCCeEEEEE
Q 016138 31 FTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLF 110 (394)
Q Consensus 31 i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~v~~ 110 (394)
+|+..... |.+|+|+.+.+.+++||.+++++|+++-.++|..+...+.+.....+..|......+|+..++|.+.|++.
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 44443321 38999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeeeccCCCeeeEEEEEecccccc
Q 016138 111 KMSLVFGKEDGRATHFVAVQVPIVSR 136 (394)
Q Consensus 111 ~~~~i~~~~~g~~~~~~~~~~DITe~ 136 (394)
.++.+.+..+++...++++..=|+..
T Consensus 354 qATVi~~tkn~q~q~IicVnYVlS~~ 379 (768)
T KOG3558|consen 354 QATVIYNTKNPQEQNIICVNYVLSNI 379 (768)
T ss_pred eeEEEecCCCCCcceEEEEEeeeccc
Confidence 99999885566667777776666655
No 69
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=98.09 E-value=2e-06 Score=74.66 Aligned_cols=106 Identities=23% Similarity=0.362 Sum_probs=89.7
Q ss_pred HHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCC-CChhHHHHHHHHHHhCCCeeEEEe
Q 016138 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPR-TNRRTIMEIREAIREERPIEVNLL 97 (394)
Q Consensus 19 ~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~e~~ 97 (394)
-+-+.++....+|-++|.+ ..|.|||++|+.|+||-+.|++|++..++...+ ....+...+..++..|+.+.++..
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 3556788889999999988 899999999999999999999999977775433 344567788889999999999988
Q ss_pred eEecCCCeEEEEEEEEeeeccCCCeeeEEEE
Q 016138 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVA 128 (394)
Q Consensus 98 ~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~ 128 (394)
.+++.|...-..+..+|+.. ..|++..++.
T Consensus 235 aRRksgdS~dqh~~itP~~g-qggkirhfvs 264 (775)
T KOG1229|consen 235 ARRKSGDSCDQHFIITPFAG-QGGKIRHFVS 264 (775)
T ss_pred HhhccCCcccceEEEeeecC-CCCceeeehh
Confidence 89999988877888999999 8898887753
No 70
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.09 E-value=2.4e-05 Score=76.08 Aligned_cols=109 Identities=12% Similarity=0.217 Sum_probs=79.6
Q ss_pred HHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEe
Q 016138 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (394)
Q Consensus 18 ~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (394)
..+..++++++++++++|.+ |+|+++|+++++++|++.++++|+++..+++.. ..+..++..+.+......
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 34556999999999999999 999999999999999999999999977766321 123445556655433223
Q ss_pred eEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccccc
Q 016138 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (394)
Q Consensus 98 ~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~ 138 (394)
....+|..+++.++..|+.+ ..|. +++.+.+|++..++
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 33456777788899999976 4553 35666788887544
No 71
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.08 E-value=9.3e-06 Score=52.77 Aligned_cols=42 Identities=21% Similarity=0.401 Sum_probs=34.2
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCccc
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCR 290 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~ 290 (394)
.++.+++++|+||+++| . ++|+++|+++++++||+ ..|+.+.
T Consensus 2 ~~~~l~~~~~~~i~i~d-~---~~i~~~N~~~~~l~g~~---~~~~~~~ 43 (64)
T PF13188_consen 2 RYRSLFDNSPDGILIID-G---GRIIYVNPAFEELFGYS---LEGEDIG 43 (64)
T ss_dssp HHHHHHCCSSSEEEEEE-T---SBEEEE-HHHHHHHCS----HTCCCHH
T ss_pred HHHHHHHcCccceEEEE-C---CChHHhhHHHHHHhCCC---CCCCCHH
Confidence 57789999999999999 5 59999999999999998 5555543
No 72
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=98.06 E-value=5.2e-05 Score=69.27 Aligned_cols=114 Identities=11% Similarity=0.039 Sum_probs=80.9
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
+..+.++.+++..+.|++.+|.+ |+|.-+|+++++|+|.+.++++|.+...+.+ .+..-+...-..+.+..-
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---GCITTVNPSAEQILGKPFDQLLGQSLSAIAP-----ELEEVFAEAGAAARTDKR 438 (712)
T ss_pred HHHHHHHHHHhcCceeEEEEcCC---CeeEeecchHHHHhcCChhHhhcchhhhhhh-----HHHHHHHHhhhhcCCCcc
Confidence 45677899999999999999999 9999999999999999999999998655432 122222222223333222
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
....+.+.|+.+.+.+..+.... ++| .|++.++-|||+...+
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 23334566777777766665544 322 4789999999998876
No 73
>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=97.97 E-value=0.00025 Score=53.64 Aligned_cols=110 Identities=14% Similarity=0.062 Sum_probs=82.3
Q ss_pred HHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEe
Q 016138 244 YISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYR 323 (394)
Q Consensus 244 ~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 323 (394)
..++ ++|++|+..+... |-.++|.|.++.++++++-+++.+.+......+.........+.++...|-.....-.-..
T Consensus 35 ~~L~-~ap~ailsh~~~~-dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG~~~~y~GiRis 112 (148)
T PF08670_consen 35 KALW-HAPFAILSHGTKA-DPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQGYIDNYSGIRIS 112 (148)
T ss_pred HHHH-cCCCEEEEcCCCC-CCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhCCccCCCeEEEc
Confidence 3344 4899999888763 7899999999999999999999999987666666666666666667666655444334457
Q ss_pred cCCCeeEEE-EEeeeeecCCCCEEEEEEEEeec
Q 016138 324 KDKSSFWNL-LHISPIRNASGKIAYFAAVHTEE 355 (394)
Q Consensus 324 ~~G~~~~~~-~~~~~i~d~~g~~~~~~~~~~DI 355 (394)
+.|+.++++ ..+=.+.|++|...|.-.++.+-
T Consensus 113 s~Grrf~ie~a~vW~l~D~~g~~~GqAa~F~~W 145 (148)
T PF08670_consen 113 STGRRFRIERATVWNLIDEDGNYCGQAAMFSNW 145 (148)
T ss_pred CCCCeEEEeceEEEEEEcCCCCEEEEEEEEeee
Confidence 889888775 34445778999998887777653
No 74
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.97 E-value=3.4e-05 Score=73.98 Aligned_cols=107 Identities=14% Similarity=0.093 Sum_probs=75.0
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCc--chhcCCCCccccCCCCChhHHHHHHHHHHhCCCee
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR--AEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~--~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (394)
....++.+++++++|++++|.+ |+|+++|+++++++|++. ++++|++...++++... . ..... .....
T Consensus 220 ~~~~~~~il~~~~egii~~D~~---g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~---~---~~~~~-~~~~~ 289 (545)
T PRK15053 220 VVRQQEALFSSVYEGLIAVDPH---GYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADF---F---TEQID-EKRQD 289 (545)
T ss_pred HHHHHHHHHHHhCceEEEECCC---CeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchh---h---hhhcC-Ccccc
Confidence 3456788999999999999999 999999999999999975 46899987666543311 1 11111 11111
Q ss_pred EEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
. ....+|. .+..+..|+.. +|.+.|.+.+++|+|+.++.
T Consensus 290 ~---~~~~~~~--~~~~~~~~i~~--~~~~~G~v~~~~d~te~~~l 328 (545)
T PRK15053 290 V---VANFNGL--SVIANREAIRS--GDDLLGAIISFRSKDEISTL 328 (545)
T ss_pred e---EEEECCE--EEEEEeeeEEE--CCeEEEEEEEEEchHHHHHH
Confidence 1 1223443 34466788877 67788999999999998764
No 75
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.93 E-value=4e-05 Score=69.42 Aligned_cols=110 Identities=13% Similarity=0.169 Sum_probs=84.9
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcc--hhcCCCCccccCCCCChhHHHHHHHHHHhCCCe
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA--EIIGRNGRMFQGPRTNRRTIMEIREAIREERPI 92 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~--e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (394)
+.-+...++++++..|++.+|+. |.|+.+|.++++|+|+... +.+|++...+++|+.. +...+..+++.
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 44556678999999999999999 9999999999999999865 6899998888876322 22335555553
Q ss_pred eEEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 93 ~~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
..+. .+-+|. ++-.+..|+.. +|++.|++.++||=|+-++.
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 233554 55677899987 89999999999999998875
No 76
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.89 E-value=0.00018 Score=75.75 Aligned_cols=134 Identities=6% Similarity=-0.125 Sum_probs=73.7
Q ss_pred hhHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHH--HHHHhccCee
Q 016138 238 FISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQI--KESIQTEQAC 315 (394)
Q Consensus 238 ~~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~--~~~~~~~~~~ 315 (394)
.....+..+++++|++++++|. +|+|+++|+++++++|++.....+.......++. ........ ..........
T Consensus 573 ~~~~~~~~i~~~~~~~i~~~d~---~g~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~ 648 (1197)
T PRK09959 573 NQISFRKALSDSLPNPTYVVNW---QGNVISHNSAFEHYFTADYYKNAMLPLENSDSPF-KDVFSNAHEVTAETKENRTI 648 (1197)
T ss_pred HHHHHHHHHHhhCCCcEEEEcC---CCcEEEehHHHHHHhCcccccccccccccccCch-hhhHhHHHHHHHHHhhcccc
Confidence 3344567889999999999999 7999999999999999875433222211111110 11110100 1111111111
Q ss_pred eEEEEEEecCCCeeEEEE-EeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHhh
Q 016138 316 TVRILNYRKDKSSFWNLL-HISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIG 376 (394)
Q Consensus 316 ~~e~~~~~~~G~~~~~~~-~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~ 376 (394)
........+|...++.. ...+.....+...++++.+.|||++++.+++|+...+++....
T Consensus 649 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dite~~~~~~~l~~~~~~~~~~~ 709 (1197)
T PRK09959 649 -YTQVFEIDNGIEKRCINHWHTLCNLPASDHAVYICGWQDITETRDLIHALEVERNKAINAT 709 (1197)
T ss_pred -ceeeEeeecCccceeeeeeeeeeccCCCCceEEEEEEEehhHHHHHHHHHHHHHHHHHHHH
Confidence 11122233443222221 1222222334445678889999999999998887766655443
No 77
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.87 E-value=0.00011 Score=67.15 Aligned_cols=112 Identities=8% Similarity=0.004 Sum_probs=76.5
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhcc-CeeeEEEE
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE-QACTVRIL 320 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~e~~ 320 (394)
.+...++..+.|++.+|. +|++.-+|+++++|+|.+.++++|.++..+.+ .+...+...-..+ .....++.
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-----ELEEVFAEAGAAARTDKRVEVK 442 (712)
T ss_pred HHHHHHhcCceeEEEEcC---CCeeEeecchHHHHhcCChhHhhcchhhhhhh-----HHHHHHHHhhhhcCCCccceee
Confidence 466789999999999999 79999999999999999999999998554322 1222222211122 22333443
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHH
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHG 364 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~ 364 (394)
+ ...|+.+.+.+..+....++| .|++.++.|||+...+|+.
T Consensus 443 ~-~r~g~~rtl~Vq~t~~~~d~~--~gyVvt~DDITdLV~AQRs 483 (712)
T COG5000 443 L-AREGEERTLNVQATREPEDNG--NGYVVTFDDITDLVIAQRS 483 (712)
T ss_pred c-ccCCCceeeeeeeeecccccC--CceEEEecchHHHHHHHHH
Confidence 3 455666666766665543333 3688999999999887753
No 78
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.80 E-value=0.00058 Score=57.34 Aligned_cols=111 Identities=14% Similarity=0.170 Sum_probs=82.6
Q ss_pred HHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeee-EEEEEEe
Q 016138 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT-VRILNYR 323 (394)
Q Consensus 245 ~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~-~e~~~~~ 323 (394)
.++++.+.+++++|. ++.|.|+|++++.+||.+...+.|..+..+++.. .....-+.+....+.++. .++.+.
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 457888999999999 7999999999999999999999999987776543 334455666666666643 333333
Q ss_pred cCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHH
Q 016138 324 KDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHG 364 (394)
Q Consensus 324 ~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~ 364 (394)
.+|....++..+.|+....|. ++..++-+....+..++
T Consensus 85 ~~g~~~~v~~~v~~v~~~~G~---vlle~~~~~~~~ridre 122 (363)
T COG3852 85 ILGRSHIVDLTVAPVPEEPGS---VLLEFHPRDMQRRLDRE 122 (363)
T ss_pred ecCccceEEEEEeeccCCCCe---EEEEechhHHHhHhhHH
Confidence 789999999999999887775 34555655555544433
No 79
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=97.74 E-value=0.00011 Score=63.33 Aligned_cols=113 Identities=16% Similarity=0.196 Sum_probs=91.5
Q ss_pred HHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEE
Q 016138 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNL 96 (394)
Q Consensus 17 ~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 96 (394)
.+.+.+++++.|.-+-.+|.+ +++.|+|+. .++|-.++. .+|+++.. .||+........+...+++|..-..++
T Consensus 289 ~~e~naif~~lP~Ditfvdk~---diV~ffs~~-~rif~rt~s-viGr~v~~-chpPksv~iv~ki~~~fksG~kd~~ef 362 (409)
T COG2461 289 LEELNAIFKHLPVDITFVDKN---DIVRFFSGG-ERIFPRTPS-VIGRRVQL-CHPPKSVHIVEKILKDFKSGEKDFAEF 362 (409)
T ss_pred HHHHHHHHhhCCCceEEeccc---ceEEecCCc-ceecccChH-hhCCcccC-CCCCchHHHHHHHHHHhhcCCcchHHH
Confidence 467889999999888889998 899999998 888888875 47998764 456666677788888899888777777
Q ss_pred eeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 97 ~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
. .+..+. .+.++..+++| ++|+..|.+-+..|||.-+..
T Consensus 363 w-~~~~~~--~i~i~Y~av~d-e~ge~~g~le~~qdi~~i~~l 401 (409)
T COG2461 363 W-INMGDK--FIHIRYFAVKD-EEGEYLGTLEVVQDITRIKEL 401 (409)
T ss_pred h-ccCCCc--eEEEEEEEEEc-CCCceeeeehhhhhhHHHHhc
Confidence 6 344443 45667899999 999999999999999998875
No 80
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.69 E-value=0.00068 Score=71.46 Aligned_cols=42 Identities=10% Similarity=0.063 Sum_probs=37.2
Q ss_pred HHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcch
Q 016138 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAE 60 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e 60 (394)
...+++.+++++|.+++++|.+ |+|+++|+++++++|++...
T Consensus 574 ~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~~~g~~~~~ 615 (1197)
T PRK09959 574 QISFRKALSDSLPNPTYVVNWQ---GNVISHNSAFEHYFTADYYK 615 (1197)
T ss_pred HHHHHHHHHhhCCCcEEEEcCC---CcEEEehHHHHHHhCccccc
Confidence 4456789999999999999999 99999999999999987543
No 81
>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=97.62 E-value=0.00019 Score=45.03 Aligned_cols=58 Identities=22% Similarity=0.382 Sum_probs=47.6
Q ss_pred HHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHH
Q 016138 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTI 79 (394)
Q Consensus 19 ~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~ 79 (394)
+++.+++.++.++++++.. +.+.++|+.+..++|++..++.|..+..+.++.+.....
T Consensus 2 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 59 (67)
T smart00091 2 RLRAILESLPDGIFVLDLD---GRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQ 59 (67)
T ss_pred hHHHHHhhCCceEEEEcCC---CeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHH
Confidence 3567889999999999988 999999999999999999999888766666665544333
No 82
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.59 E-value=0.00041 Score=58.21 Aligned_cols=107 Identities=12% Similarity=0.109 Sum_probs=82.3
Q ss_pred HHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCee-EEEeeE
Q 016138 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE-VNLLNY 99 (394)
Q Consensus 21 ~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~e~~~~ 99 (394)
..++++.+.+++++|.+ +.|.|+|++++.+||.+..-+.|.+...+++.. ......+.+....+.++. ++..+
T Consensus 10 ~~~Ln~~~~pVl~vd~~---~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~g--s~ll~ll~q~~~~~~~~~~~~v~l- 83 (363)
T COG3852 10 GAILNNLINPVLLVDDE---LAIHYANPAAEQLLAVSARRLAGTRLSELLPFG--SLLLSLLDQVLERGQPVTEYEVTL- 83 (363)
T ss_pred HhHHhccCCceEEEcCC---CcEEecCHHHHHHHHHHHHHHhcCChHHHcCCC--cHHHHHHHHHHHhcCCcccceeee-
Confidence 36899999999999998 999999999999999999999999887776543 234567777777776654 33333
Q ss_pred ecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccc
Q 016138 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRK 137 (394)
Q Consensus 100 ~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k 137 (394)
..+|....++..+.|+.. ..|.+ +..+.-+....
T Consensus 84 ~~~g~~~~v~~~v~~v~~-~~G~v---lle~~~~~~~~ 117 (363)
T COG3852 84 VILGRSHIVDLTVAPVPE-EPGSV---LLEFHPRDMQR 117 (363)
T ss_pred eecCccceEEEEEeeccC-CCCeE---EEEechhHHHh
Confidence 379999999999999987 67754 44445444443
No 83
>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=97.54 E-value=0.0011 Score=47.81 Aligned_cols=67 Identities=19% Similarity=0.107 Sum_probs=54.2
Q ss_pred HHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCC-CChhHHHHHHHHHHhCC
Q 016138 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPR-TNRRTIMEIREAIREER 90 (394)
Q Consensus 21 ~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~-~~~~~~~~~~~~~~~~~ 90 (394)
..-++..|.|++-+|.+ |+|+..|.+-..+.|++++.++|+++..-+.|. ..+.+...+.+....|.
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 35689999999999999 999999999999999999999999955444444 44557777777666554
No 84
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=97.49 E-value=0.00035 Score=60.40 Aligned_cols=115 Identities=7% Similarity=0.069 Sum_probs=91.1
Q ss_pred HHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEE
Q 016138 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (394)
Q Consensus 240 ~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (394)
...+++++...|.-|-.+|. ++++.|.|+. .++|-.++. ++|++.... ||.-.......+...+.+|..-..++
T Consensus 289 ~~e~naif~~lP~Ditfvdk---~diV~ffs~~-~rif~rt~s-viGr~v~~c-hpPksv~iv~ki~~~fksG~kd~~ef 362 (409)
T COG2461 289 LEELNAIFKHLPVDITFVDK---NDIVRFFSGG-ERIFPRTPS-VIGRRVQLC-HPPKSVHIVEKILKDFKSGEKDFAEF 362 (409)
T ss_pred HHHHHHHHhhCCCceEEecc---cceEEecCCc-ceecccChH-hhCCcccCC-CCCchHHHHHHHHHHhhcCCcchHHH
Confidence 45688899999977888888 6899999998 888888776 579887654 45556667778888888888777777
Q ss_pred EEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhH
Q 016138 320 LNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRH 363 (394)
Q Consensus 320 ~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~ 363 (394)
+. +..+ ..+.++..++.|++|+-.|++-+++|||..|+.+-
T Consensus 363 w~-~~~~--~~i~i~Y~av~de~ge~~g~le~~qdi~~i~~l~g 403 (409)
T COG2461 363 WI-NMGD--KFIHIRYFAVKDEEGEYLGTLEVVQDITRIKELEG 403 (409)
T ss_pred hc-cCCC--ceEEEEEEEEEcCCCceeeeehhhhhhHHHHhccc
Confidence 62 2222 34567889999999999999999999999987653
No 85
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=97.46 E-value=0.00097 Score=63.30 Aligned_cols=79 Identities=14% Similarity=0.093 Sum_probs=63.5
Q ss_pred CCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCee---eEEEEEEecCCCeeEEEEEeeee
Q 016138 262 PDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC---TVRILNYRKDKSSFWNLLHISPI 338 (394)
Q Consensus 262 ~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~---~~e~~~~~~~G~~~~~~~~~~~i 338 (394)
+.+.|..|..++..++||-+.++||+.+..+.|++|...........++.++.. .-.+|+...+|.++.++...+-+
T Consensus 339 ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ldTeWSsF 418 (1114)
T KOG3753|consen 339 PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVRLDTEWSSF 418 (1114)
T ss_pred CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEEEechhhhc
Confidence 478899999999999999999999999999999999888887777777765443 34677888999998777655444
Q ss_pred ec
Q 016138 339 RN 340 (394)
Q Consensus 339 ~d 340 (394)
.+
T Consensus 419 VN 420 (1114)
T KOG3753|consen 419 VN 420 (1114)
T ss_pred cC
Confidence 33
No 86
>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=97.35 E-value=0.00079 Score=42.05 Aligned_cols=59 Identities=24% Similarity=0.308 Sum_probs=47.0
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHH
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQ 304 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~ 304 (394)
+..+++.+++++++++. ++.+.++|+.+.+++|++..++.|..+..+.++.+.......
T Consensus 3 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 61 (67)
T smart00091 3 LRAILESLPDGIFVLDL---DGRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEA 61 (67)
T ss_pred HHHHHhhCCceEEEEcC---CCeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHH
Confidence 44567888999999998 689999999999999999999988877666666655444433
No 87
>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=97.21 E-value=0.0032 Score=45.58 Aligned_cols=64 Identities=14% Similarity=0.098 Sum_probs=50.4
Q ss_pred HhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccC-CCchhHHHHHHHHHhccC
Q 016138 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGV-DTDTTVLYQIKESIQTEQ 313 (394)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~-~~~~~~~~~~~~~~~~~~ 313 (394)
++..|-|++-+|. +|+|+..|.+-.++.|++++.++|+++..-..| -..+.+...+.+....|.
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 6888999999999 799999999999999999999999996443334 344556666666555444
No 88
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=97.04 E-value=0.0017 Score=55.96 Aligned_cols=89 Identities=17% Similarity=0.165 Sum_probs=64.0
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCC-ee
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP-IE 93 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~ 93 (394)
|....+.++++++|++++.+|.. |.+..+|+|+++++|.+.+.+.|.+...++....-.+ .+.++.. ..
T Consensus 77 R~hl~L~aLL~al~~pVlsvd~k---g~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~~-------~l~~~~~~~~ 146 (511)
T COG3283 77 REHLALSALLEALPEPVLSVDMK---GKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFLR-------WLEGEPQRSH 146 (511)
T ss_pred hHhHHHHHHHHhCCCceEEeccc---CceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHHH-------HHhcCCCcCC
Confidence 45566899999999999999999 9999999999999999999999999776665443332 2333321 22
Q ss_pred EEEeeEecCCCeEEEEEEEEeeec
Q 016138 94 VNLLNYKKDGTPFWMLFKMSLVFG 117 (394)
Q Consensus 94 ~e~~~~~~dG~~~~v~~~~~~i~~ 117 (394)
.+. ..-+|..+..+ ++|+..
T Consensus 147 ~~~--V~~~gq~~lme--itPv~~ 166 (511)
T COG3283 147 NEH--VVINGQNFLME--ITPVYL 166 (511)
T ss_pred Cce--EEEcchhheee--ccceee
Confidence 222 23467766555 566655
No 89
>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=96.93 E-value=0.0068 Score=33.46 Aligned_cols=41 Identities=32% Similarity=0.428 Sum_probs=34.8
Q ss_pred EEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchh
Q 016138 318 RILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCR 358 (394)
Q Consensus 318 e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~ 358 (394)
++.....+|..+|+.....++.+..|.+.+++++..|||++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~di~~~ 43 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRDEDGEVEGILGVVRDITER 43 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEECCCCCEEEEEEEEEeccCC
Confidence 44566788999999999999998889999999999999863
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=96.83 E-value=0.008 Score=33.16 Aligned_cols=41 Identities=29% Similarity=0.448 Sum_probs=34.7
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~ 136 (394)
++.....+|..+|+.....++.+ ..|.+.+++++..|||++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~di~~~ 43 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRD-EDGEVEGILGVVRDITER 43 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEEC-CCCCEEEEEEEEEeccCC
Confidence 34556788999999999999988 789999999999999863
No 91
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=96.81 E-value=0.045 Score=55.85 Aligned_cols=120 Identities=7% Similarity=-0.022 Sum_probs=74.9
Q ss_pred hhhhHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCee
Q 016138 236 MGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (394)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 315 (394)
+.......+.+++++|.++++++.. +|.+++.|+.+..++|+...+.. . .+...+... ..
T Consensus 329 L~e~e~~~r~iv~~~p~gi~i~~~~--~g~~~~~N~~a~~~~~l~~~~~~-------------~----~~~~~~~~~-~~ 388 (924)
T PRK10841 329 LEEHEQFNRKIVASAPVGICILRTS--DGTNILSNELAHNYLNMLTHEDR-------------Q----RLTQIICGQ-QV 388 (924)
T ss_pred HHHHHHHHHHHHHhCCccEEEEEcC--CCcEEEehHHHHHHhccCChhHH-------------H----HHHHHHhcc-cc
Confidence 3444556778999999999999875 79999999999999886443211 0 111111111 11
Q ss_pred eEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHhhhHHH
Q 016138 316 TVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIGAIKV 380 (394)
Q Consensus 316 ~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~~~~~ 380 (394)
.. ......++....+.. .+... .+.. ..++++.|||+++++|++|++..+.++..++.+.
T Consensus 389 ~~-~~~~~~~~~~~~i~~--~~~~~-~~~~-~~i~~~~Dit~r~~~e~~L~~~~~~~e~a~~~k~ 448 (924)
T PRK10841 389 NF-VDVLTSNNTNLQISF--VHSRY-RNEN-VAICVLVDVSARVKMEESLQEMAQAAEQASQSKS 448 (924)
T ss_pred ce-eeEEcCCCcEEEEEE--Eeeee-cCce-EEEEEEEEhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 112233444433333 22222 2232 3678889999999999999998888887766554
No 92
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=96.63 E-value=0.0058 Score=52.80 Aligned_cols=56 Identities=16% Similarity=0.084 Sum_probs=48.9
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchh
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT 300 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~ 300 (394)
.+++++++.|++++.+|. .|.+..+|++++++||.+++++.|.+...++...+...
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 69999999999999999999999999877776654433
No 93
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=96.57 E-value=0.0086 Score=54.08 Aligned_cols=96 Identities=14% Similarity=0.163 Sum_probs=79.9
Q ss_pred CCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCCeEEEEEEEEeeeccC
Q 016138 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKE 119 (394)
Q Consensus 40 d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~~i~~~~ 119 (394)
|+..+.+......++||...|+.|++.-.++|-++.--......+.+++|..--.-++..+++|++.||..+...++-
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 366777888889999999999999998788887776555567778888888877788889999999999988888876
Q ss_pred CCeeeEEEEEeccccccc
Q 016138 120 DGRATHFVAVQVPIVSRK 137 (394)
Q Consensus 120 ~g~~~~~~~~~~DITe~k 137 (394)
+|++-.++.+.+-.++..
T Consensus 370 ngkPD~vi~thr~l~DeE 387 (712)
T KOG3560|consen 370 NGKPDLVIDTHRGLGDEE 387 (712)
T ss_pred cCCCCEEEecCCCccchH
Confidence 899998988888777643
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=96.25 E-value=0.081 Score=40.19 Aligned_cols=101 Identities=14% Similarity=0.152 Sum_probs=79.2
Q ss_pred hhCCCeEEEEcCCC-CCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCC
Q 016138 25 DELPDSFTITDPSI-SGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDG 103 (394)
Q Consensus 25 ~~~~~~i~~~d~~~-~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 103 (394)
..+|.. ++++... .+.++..+=...++++|+ |+.|+++..++.+.........+..++..+.+..........+|
T Consensus 35 ~~Lp~i-~ile~~~~~~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~~g 110 (137)
T PF07310_consen 35 RLLPHI-FILEVDDPGDFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVRARGRAEDADG 110 (137)
T ss_pred HHhCCe-EEEEEeCCCceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEEEEEEEecCCC
Confidence 344443 3344332 246778889999999997 45799998888888887788888888888888888888788899
Q ss_pred CeEEEEEEEEeeeccCCCeeeEEEEEe
Q 016138 104 TPFWMLFKMSLVFGKEDGRATHFVAVQ 130 (394)
Q Consensus 104 ~~~~v~~~~~~i~~~~~g~~~~~~~~~ 130 (394)
....++...-|+.+ .+|.+..++|..
T Consensus 111 ~~~~~e~l~LPL~~-~~~~v~rilG~~ 136 (137)
T PF07310_consen 111 RYLEYERLLLPLRS-DGGTVDRILGAL 136 (137)
T ss_pred CeeEEEEEEcccCC-CCCCccEEEEec
Confidence 99999999999999 888888888764
No 95
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=95.93 E-value=0.15 Score=38.77 Aligned_cols=87 Identities=14% Similarity=0.138 Sum_probs=74.9
Q ss_pred CcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeecCC
Q 016138 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNAS 342 (394)
Q Consensus 263 dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d~~ 342 (394)
+.++-.+-...++++|+ ++.|+++.+++.+.........+..++..+.+..........+|....++...-|+.+.+
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 34666788999999997 456999988888888888888889999999998888888889999999999999999999
Q ss_pred CCEEEEEEEE
Q 016138 343 GKIAYFAAVH 352 (394)
Q Consensus 343 g~~~~~~~~~ 352 (394)
|.+..++|..
T Consensus 127 ~~v~rilG~~ 136 (137)
T PF07310_consen 127 GTVDRILGAL 136 (137)
T ss_pred CCccEEEEec
Confidence 9988888864
No 96
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=95.47 E-value=0.033 Score=48.51 Aligned_cols=86 Identities=8% Similarity=0.038 Sum_probs=66.2
Q ss_pred CeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCCeEEE
Q 016138 29 DSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWM 108 (394)
Q Consensus 29 ~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~v 108 (394)
..++....| .+++|......+++||++.+++++..-..++..+...........+..|....--++++.+.|...|+
T Consensus 226 mFmfraslD---lkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwv 302 (598)
T KOG3559|consen 226 MFMFRASLD---LKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWV 302 (598)
T ss_pred eEEEEeecc---eEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceEEE
Confidence 345556666 89999999999999999999999996666666666555566666666676555567778899999999
Q ss_pred EEEEEeeec
Q 016138 109 LFKMSLVFG 117 (394)
Q Consensus 109 ~~~~~~i~~ 117 (394)
......+.+
T Consensus 303 qsyat~vHn 311 (598)
T KOG3559|consen 303 QSYATFVHN 311 (598)
T ss_pred EEeeEEEec
Confidence 877766655
No 97
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=95.34 E-value=0.26 Score=49.97 Aligned_cols=114 Identities=8% Similarity=-0.046 Sum_probs=68.3
Q ss_pred hhhhHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCee
Q 016138 236 MGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (394)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 315 (394)
+.......+.+++++|+|++++|.. +|+++++|+++.+++|+..-.-+ ..+ .......+.
T Consensus 338 L~~~~~l~~~Ii~~lp~Gilv~D~~--~~~Ii~~N~aA~~ll~~~~l~~i----~~~---------~~~~~~~i~----- 397 (894)
T PRK10618 338 LRILRALNEEIVSNLPLGLLVYDFE--SNRTVISNKIADHLLPHLNLQKI----TTM---------AEQHQGVIQ----- 397 (894)
T ss_pred HHHHHHHHHHHHHhCCceEEEEECC--CCeEEEEhHHHHHHhCccchhhH----HHH---------HHhcchhhh-----
Confidence 3444556778999999999999975 69999999999999975321100 000 000000000
Q ss_pred eEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHHHHHHHHHHhhhHHH
Q 016138 316 TVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLSLEMRQLSAIGAIKV 380 (394)
Q Consensus 316 ~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~~~~~~l~~~~~~~~ 380 (394)
...++...++....... ...+.+.+++|+++++..+++|++++++++...+.+.
T Consensus 398 ------~~i~~~~~eir~~~~~~-----~~~~~l~~l~d~~~~~~~~~~L~~a~~~le~~~~~k~ 451 (894)
T PRK10618 398 ------ATINNELYEIRMFRSQL-----APRTQLFLLRDQDREVLVNKKLQQAQREYEKNQQARK 451 (894)
T ss_pred ------hhccCceeEEEEeeccc-----cCceEEEEEeehHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 01122222222221111 1234677889999999999999888887776655443
No 98
>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=95.21 E-value=0.12 Score=37.87 Aligned_cols=51 Identities=16% Similarity=0.071 Sum_probs=40.0
Q ss_pred eeeEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhhhhHHHH
Q 016138 314 ACTVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQDRHGLS 366 (394)
Q Consensus 314 ~~~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~~e~~L~ 366 (394)
.+..-+....++|+ .+..+...++|++|+++|++++-.|+|....+++-|.
T Consensus 67 ~~~~nY~~~~~~Gk--~lrSsT~~Ird~~g~~iG~LCIN~D~s~~~~~~~~L~ 117 (118)
T PF08348_consen 67 DYIINYKTKTKDGK--ILRSSTFFIRDENGKLIGALCINFDISALEQAQNFLD 117 (118)
T ss_pred CccccccccCCCCC--EEEEEEEEEECCCCCEEEEEEEEeccHHHHHHHHHHc
Confidence 34445555678884 4578889999999999999999999999887765553
No 99
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=95.04 E-value=0.018 Score=55.81 Aligned_cols=94 Identities=15% Similarity=0.162 Sum_probs=71.7
Q ss_pred CcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccC-eeeEEEEEEecCCCeeEEEEEeeeeecC
Q 016138 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ-ACTVRILNYRKDKSSFWNLLHISPIRNA 341 (394)
Q Consensus 263 dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~~~G~~~~~~~~~~~i~d~ 341 (394)
+|.++++-..+-.+.||...++.|+.+....|+++.......+........ ....-++.+.++|.+.|.........+.
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 799999999999999999999999999888999988877777766554333 3445667788999999988777666543
Q ss_pred -CCCEEEEEEEEeecc
Q 016138 342 -SGKIAYFAAVHTEEG 356 (394)
Q Consensus 342 -~g~~~~~~~~~~DIT 356 (394)
..++.+++++-.-+.
T Consensus 461 ~s~~~~~~~~~ns~~~ 476 (803)
T KOG3561|consen 461 GSDEVEYIVCTNSNVP 476 (803)
T ss_pred Cccccceeeecccccc
Confidence 345566666655554
No 100
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=94.85 E-value=0.018 Score=55.77 Aligned_cols=57 Identities=18% Similarity=0.241 Sum_probs=47.4
Q ss_pred HHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHH
Q 016138 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQ 304 (394)
Q Consensus 245 ~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~ 304 (394)
.+|+.+...++++.- +|+|+||+.....++||..++++|+.+..+.||.+....+..
T Consensus 99 LmLeAlDGF~fvV~c---dG~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~q 155 (803)
T KOG3561|consen 99 LILEALDGFLFVVNC---DGRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPREQ 155 (803)
T ss_pred HHHHHhcCeEEEEec---CceEEEEecchHHhhCcCHHHHhcchHHHhcCccccCccccc
Confidence 456666666777777 899999999999999999999999999988898876655443
No 101
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=93.54 E-value=2 Score=44.22 Aligned_cols=99 Identities=10% Similarity=0.050 Sum_probs=59.8
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
.+.+.++.+++.+|.++++++.. +|.++++|+.+..++|+...+.. ..+...+... ....
T Consensus 331 e~e~~~r~iv~~~p~gi~i~~~~--~g~~~~~N~~a~~~~~l~~~~~~-----------------~~~~~~~~~~-~~~~ 390 (924)
T PRK10841 331 EHEQFNRKIVASAPVGICILRTS--DGTNILSNELAHNYLNMLTHEDR-----------------QRLTQIICGQ-QVNF 390 (924)
T ss_pred HHHHHHHHHHHhCCccEEEEEcC--CCcEEEehHHHHHHhccCChhHH-----------------HHHHHHHhcc-ccce
Confidence 35567889999999999999854 39999999999999987543210 1111111111 1111
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
......++....+. ..+... .+.. ..++++.|||+++++
T Consensus 391 -~~~~~~~~~~~~i~--~~~~~~--~~~~-~~i~~~~Dit~r~~~ 429 (924)
T PRK10841 391 -VDVLTSNNTNLQIS--FVHSRY--RNEN-VAICVLVDVSARVKM 429 (924)
T ss_pred -eeEEcCCCcEEEEE--EEeeee--cCce-EEEEEEEEhhHHHHH
Confidence 11223455544333 333333 2332 467889999999986
No 102
>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=92.90 E-value=0.71 Score=33.86 Aligned_cols=93 Identities=18% Similarity=0.193 Sum_probs=57.7
Q ss_pred CCeEEEEcCCCCCCcEEEe-chhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCCeE
Q 016138 28 PDSFTITDPSISGHPIVFA-SRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPF 106 (394)
Q Consensus 28 ~~~i~~~d~~~~d~~i~~~-N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~ 106 (394)
..-|++.|...|+..|+++ |.. ++|.. +|-+...+ ....+..... ...+...+....++|+
T Consensus 19 ~~EVVLHDl~~~~~sIv~I~Ng~---vsgR~----vGdp~t~~--------~l~~l~~~~~-~~~~~~nY~~~~~~Gk-- 80 (118)
T PF08348_consen 19 NCEVVLHDLSDPEHSIVAIANGH---VSGRK----VGDPITDL--------ALELLKEKQY-EEDYIINYKTKTKDGK-- 80 (118)
T ss_pred CeEEEEEECCCCCCEEEEEECCC---ccCCc----cCCchhHH--------HHHHHhcccc-CCCccccccccCCCCC--
Confidence 3457778887777888887 542 22222 23222211 1122211111 2334455566778895
Q ss_pred EEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 107 WMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 107 ~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
.+..+...+++ ++|++.|++|+-.|+|....+
T Consensus 81 ~lrSsT~~Ird-~~g~~iG~LCIN~D~s~~~~~ 112 (118)
T PF08348_consen 81 ILRSSTFFIRD-ENGKLIGALCINFDISALEQA 112 (118)
T ss_pred EEEEEEEEEEC-CCCCEEEEEEEEeccHHHHHH
Confidence 46677889999 999999999999999987663
No 103
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=92.90 E-value=1.4 Score=41.64 Aligned_cols=43 Identities=21% Similarity=0.296 Sum_probs=33.7
Q ss_pred HhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCC-chhhcCCccccc
Q 016138 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFL 292 (394)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~-~~e~~g~~~~~l 292 (394)
.+..+.+.+++|. +|+++-.|+++..+++.+ ...++|.+...+
T Consensus 228 ~d~~~~~~lavd~---~grvl~at~aA~~~La~~~~~~l~g~p~~~~ 271 (606)
T COG3284 228 LDSQSEALLAVDQ---DGRVLGATRAARQLLALTDRQRLIGQPVEDF 271 (606)
T ss_pred cCcccceeeeecC---cchhhhccHHHHHhhccchhhHhhcCCcccc
Confidence 3455678889999 899999999999999988 456667665443
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=91.96 E-value=0.19 Score=36.45 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=35.2
Q ss_pred eEEEEcCCCCCCcEEEechhhHHhcCCC---cchhcCCCCccccCCCC
Q 016138 30 SFTITDPSISGHPIVFASRGFLKMSGFS---RAEIIGRNGRMFQGPRT 74 (394)
Q Consensus 30 ~i~~~d~~~~d~~i~~~N~a~~~~~G~~---~~e~~g~~~~~~~~~~~ 74 (394)
.++++|.+ +++|++++..+..++|.+ .++++|+++..++.+..
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 45667765 499999999999999999 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=90.92 E-value=0.33 Score=35.18 Aligned_cols=43 Identities=28% Similarity=0.517 Sum_probs=35.6
Q ss_pred eEEEEcCCCCCcCEEEeCHHHHHHhcCC---chhhcCCcccccccCCC
Q 016138 253 SFVLIDPHLPDMPMVYASDAFLKLTGYD---RNEVVGQNCRFLNGVDT 297 (394)
Q Consensus 253 ~i~~~d~~~~dg~i~~~N~~~~~~~G~~---~~e~~g~~~~~l~~~~~ 297 (394)
.++.+|.. +++|+.++.+...++|.+ .++++|+++..++.+..
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 45667775 799999999999999999 89999999988876554
No 106
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=90.77 E-value=0.66 Score=45.13 Aligned_cols=90 Identities=9% Similarity=0.092 Sum_probs=66.1
Q ss_pred CCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCe---eEEEeeEecCCCeEEEEEEEEee
Q 016138 39 SGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPI---EVNLLNYKKDGTPFWMLFKMSLV 115 (394)
Q Consensus 39 ~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~e~~~~~~dG~~~~v~~~~~~i 115 (394)
+.+.|..|..++..++||-+.++||+++..++|+++..-..+....++..++.. ...+++...+|.++.++...+.+
T Consensus 339 ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ldTeWSsF 418 (1114)
T KOG3753|consen 339 PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVRLDTEWSSF 418 (1114)
T ss_pred CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEEEechhhhc
Confidence 448889999999999999999999999999999998877777777777655432 34567778899988776655555
Q ss_pred eccCCCeeeEEEE
Q 016138 116 FGKEDGRATHFVA 128 (394)
Q Consensus 116 ~~~~~g~~~~~~~ 128 (394)
.+.-.-++..++|
T Consensus 419 VNPWSRKieFVvG 431 (1114)
T KOG3753|consen 419 VNPWSRKIEFVVG 431 (1114)
T ss_pred cChhhhheeeeee
Confidence 4412334444444
No 107
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=90.40 E-value=2.9 Score=39.34 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=32.5
Q ss_pred hHHHHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhc
Q 016138 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTG 278 (394)
Q Consensus 239 ~~~~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G 278 (394)
....+..++.++|.||+++|. ++.+.|+||-+..+|+
T Consensus 73 ~~~~~~~al~nmPiGii~~~e---~~~veW~Npf~~~if~ 109 (655)
T COG3887 73 AEKSLEEALTNMPIGIILFNE---TNKVEWVNPFASKIFN 109 (655)
T ss_pred HHHHHHHHHHhCCceEEEEcC---CCceEEecHHHHHhcC
Confidence 344677889999999999997 7999999999999986
No 108
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=89.12 E-value=1.6 Score=37.54 Aligned_cols=83 Identities=12% Similarity=0.173 Sum_probs=53.3
Q ss_pred ccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCee
Q 016138 250 IKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSF 329 (394)
Q Consensus 250 ~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~ 329 (394)
...++++..+. +.+.+|+|..+..++||+.++++......+.. ..+.....+.. . ......+.+..++|+|..+
T Consensus 296 nlgmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~dIV~e--Gl~qW~~dL~~-~-s~~E~~grlviKTK~~g~i 369 (401)
T PF06785_consen 296 NLGMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFSDIVQE--GLAQWETDLQL-L-SRQERSGRLVIKTKNGGNI 369 (401)
T ss_pred ccceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcchHHHHh--hHHHHHHHHHh-h-hhhhhhceEEEEecCCCce
Confidence 44577777776 78999999999999999999987543222221 11222222221 1 2333456677789999888
Q ss_pred EEEEEeeee
Q 016138 330 WNLLHISPI 338 (394)
Q Consensus 330 ~~~~~~~~i 338 (394)
++.+....+
T Consensus 370 pf~ycL~ii 378 (401)
T PF06785_consen 370 PFYYCLGII 378 (401)
T ss_pred eeEEEEeec
Confidence 776655544
No 109
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=88.86 E-value=2.8 Score=42.80 Aligned_cols=41 Identities=12% Similarity=0.056 Sum_probs=35.3
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCC
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFS 57 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~ 57 (394)
...+.++.+++++|.|++++|.. +++|+++|+++.+++|+.
T Consensus 340 ~~~~l~~~Ii~~lp~Gilv~D~~--~~~Ii~~N~aA~~ll~~~ 380 (894)
T PRK10618 340 ILRALNEEIVSNLPLGLLVYDFE--SNRTVISNKIADHLLPHL 380 (894)
T ss_pred HHHHHHHHHHHhCCceEEEEECC--CCeEEEEhHHHHHHhCcc
Confidence 45567889999999999999965 289999999999999753
No 110
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=87.57 E-value=0.92 Score=38.84 Aligned_cols=90 Identities=12% Similarity=0.235 Sum_probs=57.8
Q ss_pred HHHHHhh----CCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEE
Q 016138 20 VHEALDE----LPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVN 95 (394)
Q Consensus 20 l~~l~~~----~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 95 (394)
.+.++|+ ...+++|+.+. +.+.+|+|.-+..++||+.++++......+.. ....+...+.. . ........
T Consensus 285 cRrLfDsLreEnlgmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~dIV~e--Gl~qW~~dL~~-~-s~~E~~gr 358 (401)
T PF06785_consen 285 CRRLFDSLREENLGMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFSDIVQE--GLAQWETDLQL-L-SRQERSGR 358 (401)
T ss_pred HHHHHhhhcccccceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcchHHHHh--hHHHHHHHHHh-h-hhhhhhce
Confidence 4445554 45678888887 38999999999999999999987654332221 11222222221 1 22234456
Q ss_pred EeeEecCCCeEEEEEEEEee
Q 016138 96 LLNYKKDGTPFWMLFKMSLV 115 (394)
Q Consensus 96 ~~~~~~dG~~~~v~~~~~~i 115 (394)
+.+.+|+|...++......+
T Consensus 359 lviKTK~~g~ipf~ycL~ii 378 (401)
T PF06785_consen 359 LVIKTKNGGNIPFYYCLGII 378 (401)
T ss_pred EEEEecCCCceeeEEEEeec
Confidence 77788999988887766655
No 111
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=84.80 E-value=7.6 Score=39.23 Aligned_cols=45 Identities=11% Similarity=-0.035 Sum_probs=36.1
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccc
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRF 291 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~ 291 (394)
.-..++...|.|++++|.. +|.|.|+|+.|.+++| .+ ++|++...
T Consensus 103 ~~~~~l~~~p~gi~~~~~~--~~~i~W~N~~~~~~~~--~~-~~g~~i~~ 147 (838)
T PRK14538 103 IGEEVLNELPIGIVLIDIS--SKEIQWLNPYANFILK--NP-EINTPLAQ 147 (838)
T ss_pred HHHHHHHhCCceEEEEeCC--CCEEEEECHHHHHHhC--cc-ccCCcHHH
Confidence 3446788899999999932 6999999999999987 23 78888764
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=82.53 E-value=21 Score=29.72 Aligned_cols=83 Identities=12% Similarity=0.154 Sum_probs=51.8
Q ss_pred hhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecCCC
Q 016138 25 DELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGT 104 (394)
Q Consensus 25 ~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~ 104 (394)
+++|+.-++.+.+ + ++|.++-..++|.+... ...+.+....+..|.+.. ....+.
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 4567777888776 3 56777778888876543 344445555555565432 344666
Q ss_pred eEEEEEEEEeeeccCCCeeeEEEEEecc
Q 016138 105 PFWMLFKMSLVFGKEDGRATHFVAVQVP 132 (394)
Q Consensus 105 ~~~v~~~~~~i~~~~~g~~~~~~~~~~D 132 (394)
.+.+.++-+|+.+...|++.|++.++.-
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 7788899999988789999998766543
No 113
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=80.10 E-value=3.5 Score=33.69 Aligned_cols=39 Identities=18% Similarity=0.065 Sum_probs=34.4
Q ss_pred HHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCc
Q 016138 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR 58 (394)
Q Consensus 17 ~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~ 58 (394)
.+-+..+++..|.++++-+.+ |.++++|.+|.+.+.-+-
T Consensus 18 ~~~~~~~i~~~~~P~CiR~~~---g~fi~~N~~F~~~f~~~~ 56 (217)
T PRK13719 18 PESLTAFIDDYSYPACIRNES---GKFIFYNTLFLKEFLGQL 56 (217)
T ss_pred HHHHHHHHHcCCCCeEEECCC---CCeeecchHHHHHHHhcC
Confidence 346778999999999999999 999999999999987654
No 114
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=79.15 E-value=24 Score=33.92 Aligned_cols=98 Identities=11% Similarity=0.020 Sum_probs=52.0
Q ss_pred HHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCch-hhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEE
Q 016138 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRN-EVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILN 321 (394)
Q Consensus 243 ~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~-e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 321 (394)
+...+...+..++++|. +|.++..+-.-......+.- =..|..|.+-... -..+-.++..+.+....-.-
T Consensus 79 L~~~v~~~~~~vLLtD~---~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~G------TNgIGTcLve~~aVtI~~~q 149 (606)
T COG3284 79 LFQAVAGSGCCVLLTDA---DGVILERRGDPRDDEDFRKAGLWLGAVWSEPREG------TNGIGTCLVEGEAVTIHGDQ 149 (606)
T ss_pred HHHHhcCCCeEEEEEcC---ceeEEEeecChhhhhhhhhhcccccccccccccc------ccchhhhhccCcceEEehhh
Confidence 34445667789999999 79998766542222211111 1223333322111 12334444455554332111
Q ss_pred EecCCCeeEEEEEeeeeecCCCCEEEEEE
Q 016138 322 YRKDKSSFWNLLHISPIRNASGKIAYFAA 350 (394)
Q Consensus 322 ~~~~G~~~~~~~~~~~i~d~~g~~~~~~~ 350 (394)
+-.-....+.+++.||+|+.|++.|++.
T Consensus 150 -HF~~~~~~lsCsAaPI~D~qG~L~gVLD 177 (606)
T COG3284 150 -HFIQAHHGLSCSAAPIFDEQGELVGVLD 177 (606)
T ss_pred -hHhhcccCceeeeeccccCCCcEEEEEE
Confidence 1112234567999999999999887653
No 115
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=78.24 E-value=5.1 Score=37.81 Aligned_cols=40 Identities=13% Similarity=0.107 Sum_probs=34.9
Q ss_pred hHHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCC
Q 016138 14 NRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGF 56 (394)
Q Consensus 14 ~r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~ 56 (394)
.+...-++.++.++|.||++++.+ +++.|+||-+..+|+-
T Consensus 71 ~~~~~~~~~al~nmPiGii~~~e~---~~veW~Npf~~~if~~ 110 (655)
T COG3887 71 YQAEKSLEEALTNMPIGIILFNET---NKVEWVNPFASKIFNK 110 (655)
T ss_pred HHHHHHHHHHHHhCCceEEEEcCC---CceEEecHHHHHhcCh
Confidence 355667889999999999999977 9999999999999863
No 116
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=78.12 E-value=66 Score=30.83 Aligned_cols=97 Identities=15% Similarity=0.140 Sum_probs=59.0
Q ss_pred hHHHHHHHHHHhhCC-CeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCe
Q 016138 14 NRYTLWVHEALDELP-DSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPI 92 (394)
Q Consensus 14 ~r~~~~l~~l~~~~~-~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (394)
.+.+..|+.+-..+. ..+|++|++ |..+-++.. + .+..++|.++. +...+.+++.++...
T Consensus 85 ~~~n~~L~~in~~a~ss~iYlid~~---G~~iaASNw-----~-~p~SFVG~nya----------fRpYf~~Am~gg~~r 145 (603)
T COG4191 85 AAANRYLEQINEAAGSSAIYLIDPT---GLTLAASNW-----N-LPTSFVGRNYA----------FRPYFQDAMAGGSGR 145 (603)
T ss_pred HHHHHHHHHHHhhccCCeEEEECCC---CcEEeeccC-----C-CCCcccccCcc----------cHHHHHHHHhcCCce
Confidence 356667777766654 678999999 766654421 1 23456666532 356677788877654
Q ss_pred eEEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccc
Q 016138 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVS 135 (394)
Q Consensus 93 ~~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe 135 (394)
.+-+-. -.|.+=+ +...|+.+ +|.++|++++=.|+..
T Consensus 146 ~yalGt--ts~~pGy--y~a~pV~~--~~~ilGvivvKvdl~~ 182 (603)
T COG4191 146 FYALGT--TSGRPGY--YLAAPVDD--GGGILGVIVVKVDLDR 182 (603)
T ss_pred eEeecc--ccCCCce--eEeeeecc--CCceeEEEEEEEehHH
Confidence 433322 2333322 23789988 5669999988666543
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=76.91 E-value=9.3 Score=25.55 Aligned_cols=47 Identities=13% Similarity=0.148 Sum_probs=34.1
Q ss_pred HHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecc
Q 016138 305 IKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEG 356 (394)
Q Consensus 305 ~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT 356 (394)
+.+++..+... +.....|.+.=+-+...|+.+.+|++++.+|+ .|+|
T Consensus 37 Le~vl~~g~v~----r~~P~~G~Y~G~PViV~PI~~~~g~viaAiGv-VD~t 83 (84)
T PF09884_consen 37 LEEVLETGKVI----RVTPIEGPYKGVPVIVAPIKDEDGEVIAAIGV-VDLT 83 (84)
T ss_pred HHHHHHcCCEE----EeccCCcccCCeeEEEEEEEcCCCCEEEEEEE-EEcc
Confidence 44555555433 33456677777778899999999999999997 4776
No 118
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=75.60 E-value=5.7 Score=40.06 Aligned_cols=48 Identities=19% Similarity=0.101 Sum_probs=38.5
Q ss_pred HHHHHHHHHhhCCCeEEEEc-CCCCCCcEEEechhhHHhcCCCcchhcCCCCccc
Q 016138 16 YTLWVHEALDELPDSFTITD-PSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMF 69 (394)
Q Consensus 16 ~~~~l~~l~~~~~~~i~~~d-~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~ 69 (394)
...--..++..+|.|++++| .+ |+|+|+|+.|..++| .+ ++|++...+
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 33445678999999999999 56 999999999999988 22 789886643
No 119
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=73.01 E-value=27 Score=27.83 Aligned_cols=105 Identities=16% Similarity=0.210 Sum_probs=71.6
Q ss_pred HHhhCCCeEEEEcCCCCCCc--EEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEe
Q 016138 23 ALDELPDSFTITDPSISGHP--IVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYK 100 (394)
Q Consensus 23 l~~~~~~~i~~~d~~~~d~~--i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 100 (394)
+-...++.+++ ..++ +|. +.-+-...|.+|| .|+-|.++..+..+.+.......+..+.....++-+......
T Consensus 53 l~slL~d~FiL-~~~~-~G~~~FRLAGTriC~LfG---RELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~s 127 (209)
T COG5388 53 LKSLLPDVFIL-ERDG-RGKLPFRLAGTRICDLFG---RELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGRS 127 (209)
T ss_pred HHhhcCceEEE-eccC-CCCceEEecccchhhhhc---hhhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchhh
Confidence 45556665444 3331 143 3445566677777 578888888888777776666666666666666666666667
Q ss_pred cCCCeEEEEEEEEeeeccCCCeeeEEEEEeccc
Q 016138 101 KDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (394)
Q Consensus 101 ~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DI 133 (394)
..|...-+++-..|+.. ..|+-..++|...-+
T Consensus 128 ~~G~sl~fEmLl~PL~~-~~g~~~R~LGais~~ 159 (209)
T COG5388 128 HGGRSLGFEMLLAPLQG-ASGETDRFLGAISPI 159 (209)
T ss_pred ccCcccceeeeeecccC-CCCCccchhhhcccc
Confidence 78888889999999998 888866677765544
No 120
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=71.19 E-value=25 Score=28.00 Aligned_cols=101 Identities=15% Similarity=0.127 Sum_probs=72.6
Q ss_pred cccceEEEEcCCCCCcCEE--EeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCC
Q 016138 249 RIKQSFVLIDPHLPDMPMV--YASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDK 326 (394)
Q Consensus 249 ~~~~~i~~~d~~~~dg~i~--~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G 326 (394)
..++-+++.+.. +|.+. .+-...|.+|| .|+-|..+..+..+.+.......+..+.....+.-.........|
T Consensus 56 lL~d~FiL~~~~--~G~~~FRLAGTriC~LfG---RELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~s~~G 130 (209)
T COG5388 56 LLPDVFILERDG--RGKLPFRLAGTRICDLFG---RELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGRSHGG 130 (209)
T ss_pred hcCceEEEeccC--CCCceEEecccchhhhhc---hhhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchhhccC
Confidence 345655555443 45544 46667788887 578888887787777777777777777777777766666667788
Q ss_pred CeeEEEEEeeeeecCCCCEEEEEEEEee
Q 016138 327 SSFWNLLHISPIRNASGKIAYFAAVHTE 354 (394)
Q Consensus 327 ~~~~~~~~~~~i~d~~g~~~~~~~~~~D 354 (394)
...-+++-..|+....|+-..++|.+.-
T Consensus 131 ~sl~fEmLl~PL~~~~g~~~R~LGais~ 158 (209)
T COG5388 131 RSLGFEMLLAPLQGASGETDRFLGAISP 158 (209)
T ss_pred cccceeeeeecccCCCCCccchhhhccc
Confidence 8888999999999888885556665443
No 121
>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=69.42 E-value=20 Score=24.05 Aligned_cols=48 Identities=17% Similarity=0.169 Sum_probs=33.3
Q ss_pred HHHHHHHhCCCeeEEEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEecccc
Q 016138 81 EIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (394)
Q Consensus 81 ~~~~~~~~~~~~~~e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DIT 134 (394)
-+.+++..++.. +..-..|.+.=+-+...|+++ .+|++++.+|+ .|+|
T Consensus 36 VLe~vl~~g~v~----r~~P~~G~Y~G~PViV~PI~~-~~g~viaAiGv-VD~t 83 (84)
T PF09884_consen 36 VLEEVLETGKVI----RVTPIEGPYKGVPVIVAPIKD-EDGEVIAAIGV-VDLT 83 (84)
T ss_pred HHHHHHHcCCEE----EeccCCcccCCeeEEEEEEEc-CCCCEEEEEEE-EEcc
Confidence 345666666532 223456766666777999999 88999999997 4655
No 122
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=67.59 E-value=11 Score=30.92 Aligned_cols=37 Identities=14% Similarity=0.042 Sum_probs=31.8
Q ss_pred HHHHHHhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCc
Q 016138 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR 281 (394)
Q Consensus 242 ~~~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~ 281 (394)
.+..++...|.++++-+. +|.+++.|.+|.+.|.-+-
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 466678889999999999 7999999999999987543
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=53.50 E-value=1.1e+02 Score=24.05 Aligned_cols=96 Identities=14% Similarity=0.085 Sum_probs=53.7
Q ss_pred HHHHHHHHHHhhCCCeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeE
Q 016138 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (394)
Q Consensus 15 r~~~~l~~l~~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (394)
...+.+....+.+..++.++|.+ |..+.....+..+..+-+..-.|... -. ........++...++++.
T Consensus 9 ~lq~i~~~fs~~tgl~~~i~d~~---G~~l~~~~~~~~fC~~~~~~~~~~~~------C~-~~~~~~~~~a~~~~~~~i- 77 (173)
T PF10114_consen 9 ELQEIQDSFSKATGLSIVIVDPD---GNPLTQPSNFCPFCKLIRSSPEGRER------CR-ESDRRLAEQAMKKGEPYI- 77 (173)
T ss_pred HHHHHHHHHHHHHCCcEEEEeCC---CCEEeeCCCchhhhhHHhcCCccccc------CH-HHHHHHHHHhhccCCCEE-
Confidence 45566777888889999999999 88885554555554433322222210 00 001112223444444433
Q ss_pred EEeeEecCCCeEEEEEEEEeeeccCCCeeeEEEEEe
Q 016138 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQ 130 (394)
Q Consensus 95 e~~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~ 130 (394)
+....|-..| +.|+.- +|+..|++...
T Consensus 78 ---~~C~~GL~~~----~~PI~~--~g~~iG~i~~G 104 (173)
T PF10114_consen 78 ---YRCHAGLVDI----AVPIIV--DGEYIGYIICG 104 (173)
T ss_pred ---EEcCcCceee----eeeEEE--CCEEEEEEEEE
Confidence 3345564333 678887 88999988554
No 124
>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=47.95 E-value=47 Score=22.07 Aligned_cols=30 Identities=17% Similarity=0.123 Sum_probs=23.2
Q ss_pred CeeEEEEEeeeeecCCCCEEEEEEEEeecc
Q 016138 327 SSFWNLLHISPIRNASGKIAYFAAVHTEEG 356 (394)
Q Consensus 327 ~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT 356 (394)
...++-....|+++.+|+++|++++-.++.
T Consensus 10 ~~~~vi~~s~pi~~~~g~~~Gvv~~di~l~ 39 (81)
T PF02743_consen 10 TGQPVITISVPIYDDDGKIIGVVGIDISLD 39 (81)
T ss_dssp TTEEEEEEEEEEEETTTEEEEEEEEEEEHH
T ss_pred CCcEEEEEEEEEECCCCCEEEEEEEEeccc
Confidence 345677888999999999999988755543
No 125
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=46.74 E-value=43 Score=24.35 Aligned_cols=74 Identities=18% Similarity=0.237 Sum_probs=42.4
Q ss_pred ceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCCCeeEE
Q 016138 252 QSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWN 331 (394)
Q Consensus 252 ~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G~~~~~ 331 (394)
+-++++|. +|.+++.+. .+.+|+++.. .+ ...++ .|..+... ..|..-+.
T Consensus 40 ~~i~v~D~---~g~~l~~s~----------~~~iG~~~~~----~~-------~~~aL-~G~~~~~~-----~~~~~~~~ 89 (116)
T PF14827_consen 40 DYIVVTDR---DGIVLAHSD----------PERIGDRYSD----ED-------VRKAL-QGKSYTSV-----SQGTGGPS 89 (116)
T ss_dssp SEEEEECT---TSBECE-SS----------CCCTTSB-SS----CC-------HCHHC-CT--EEEE-----EECTTCEE
T ss_pred eEEEEEcC---CCCEEEcCC----------hHHcCCcccC----CC-------hhhhh-cCCceEEe-----eecCCceE
Confidence 46788998 688776542 3456766432 11 22334 45554443 22333455
Q ss_pred EEEeeeeecCCCCEEEEEEEEeec
Q 016138 332 LLHISPIRNASGKIAYFAAVHTEE 355 (394)
Q Consensus 332 ~~~~~~i~d~~g~~~~~~~~~~DI 355 (394)
.....|+.|.+|+++|++.+...+
T Consensus 90 ~~~~~PV~d~~g~viG~V~VG~~~ 113 (116)
T PF14827_consen 90 LRAFAPVYDSDGKVIGVVSVGVSL 113 (116)
T ss_dssp EEEEEEEE-TTS-EEEEEEEEEEH
T ss_pred EEEEEeeECCCCcEEEEEEEEEEc
Confidence 677899999999999999887654
No 126
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=45.63 E-value=21 Score=25.78 Aligned_cols=28 Identities=21% Similarity=-0.060 Sum_probs=25.0
Q ss_pred EEecCCCeeEEEEEeeeeecCCCCEEEE
Q 016138 321 NYRKDKSSFWNLLHISPIRNASGKIAYF 348 (394)
Q Consensus 321 ~~~~~G~~~~~~~~~~~i~d~~g~~~~~ 348 (394)
++++||.++.++-++..+.+.+|++.|.
T Consensus 69 ~rR~DGs~i~FddNA~Viin~~g~P~Gt 96 (122)
T COG0093 69 VRRPDGSYIKFDDNAAVIINPDGEPRGT 96 (122)
T ss_pred eEcCCCCEEEeCCceEEEECCCCCcccc
Confidence 4689999999999999999999998873
No 127
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=43.61 E-value=24 Score=25.51 Aligned_cols=29 Identities=14% Similarity=0.135 Sum_probs=25.1
Q ss_pred eEecCCCeEEEEEEEEeeeccCCCeeeEEE
Q 016138 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFV 127 (394)
Q Consensus 98 ~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~ 127 (394)
++++||+++-|+-++..+.+ ++|++.|.-
T Consensus 69 ~rR~DGs~i~FddNA~Viin-~~g~P~Gtr 97 (122)
T COG0093 69 VRRPDGSYIKFDDNAAVIIN-PDGEPRGTR 97 (122)
T ss_pred eEcCCCCEEEeCCceEEEEC-CCCCcccce
Confidence 46789999999999999999 899998753
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=39.84 E-value=56 Score=21.67 Aligned_cols=31 Identities=10% Similarity=0.193 Sum_probs=23.8
Q ss_pred eEEEEEEEEeeeccCCCeeeEEEEEecccccc
Q 016138 105 PFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (394)
Q Consensus 105 ~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~ 136 (394)
..|+-....|+++ .+|++.|++++-.++...
T Consensus 11 ~~~vi~~s~pi~~-~~g~~~Gvv~~di~l~~l 41 (81)
T PF02743_consen 11 GQPVITISVPIYD-DDGKIIGVVGIDISLDQL 41 (81)
T ss_dssp TEEEEEEEEEEEE-TTTEEEEEEEEEEEHHHH
T ss_pred CcEEEEEEEEEEC-CCCCEEEEEEEEecccee
Confidence 3466677899999 999999999876555443
No 129
>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=33.66 E-value=2.9e+02 Score=23.26 Aligned_cols=86 Identities=10% Similarity=0.086 Sum_probs=51.7
Q ss_pred HhcccceEEEEcCCCCCcCEEEeCHHHHHHhcCCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEecCC
Q 016138 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDK 326 (394)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~G 326 (394)
.+++||--++.+. +| ++|..+-..++|.+... ...+......+..|...- ....+
T Consensus 68 p~~~pDfRFi~~~---~~--~~WdDgN~~FYGi~~~~------------------L~~ls~~~~~~~~W~~i~--~~s~~ 122 (238)
T PF09308_consen 68 PSNAPDFRFISSH---DG--VIWDDGNAPFYGISESS------------------LQHLSQKVAFSNNWHYIQ--TPSSM 122 (238)
T ss_dssp CCCS-SEEEEEET---TC--EEEE-SHHHHCT--HHH------------------HHHHHHHT-STTS-EEEE--EEETT
T ss_pred ccCCCCEEEEEeC---CC--cEEeCCCCcccCcCHHH------------------HHHHhhcccccCceeEEE--ecCCC
Confidence 4567888888887 33 44666666777765543 234445555566676542 24566
Q ss_pred CeeEEEEEeeeeecC-CCCEEEEEEEEeecch
Q 016138 327 SSFWNLLHISPIRNA-SGKIAYFAAVHTEEGC 357 (394)
Q Consensus 327 ~~~~~~~~~~~i~d~-~g~~~~~~~~~~DIT~ 357 (394)
..+++.++-+|+.+. .|+++|++.++.-...
T Consensus 123 g~~~lLvRR~pIi~~~tGEVlG~Ly~gvVLNn 154 (238)
T PF09308_consen 123 GNRYLLVRRTPIIDPKTGEVLGYLYIGVVLNN 154 (238)
T ss_dssp CEEEEEEEEEEEE-TTTSBEEEEEEEEEE-TT
T ss_pred CceEEEEeecceeeCCCCeEEEEEEEEEEEcC
Confidence 778888999999885 6999998766654433
No 130
>COG2964 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=30.34 E-value=86 Score=25.82 Aligned_cols=35 Identities=14% Similarity=0.257 Sum_probs=27.5
Q ss_pred ecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccccccc
Q 016138 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRK 137 (394)
Q Consensus 100 ~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k 137 (394)
.++|. .+..+...+++ ..|+++|++|+-.|++-..
T Consensus 86 ~~~g~--~ikSsS~~Irn-~~g~~iGmLCIN~d~s~l~ 120 (220)
T COG2964 86 AKDGR--LIKSSSIFIRN-KEGRIIGMLCINMDLSLLV 120 (220)
T ss_pred CCCCc--eeeeeEEEEEc-CCCCEEEEEEEecchhhhh
Confidence 34554 45667778899 9999999999999999433
No 131
>COG4048 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.44 E-value=1.9e+02 Score=20.62 Aligned_cols=47 Identities=9% Similarity=0.114 Sum_probs=30.2
Q ss_pred HHHHHhccCeeeEEEEEEecCCCeeEEEEEeeeeecCCCCEEEEEEEEeecch
Q 016138 305 IKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNASGKIAYFAAVHTEEGC 357 (394)
Q Consensus 305 ~~~~~~~~~~~~~e~~~~~~~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~ 357 (394)
+..+++.|.... -....|-+.=..+...|+. ++|++++.+|+ .|+|.
T Consensus 55 Leevle~gevvr----~vP~~GpY~G~pVVV~Pik-~~g~viaAiGi-VDlt~ 101 (123)
T COG4048 55 LEEVLEKGEVVR----EVPIIGPYRGLPVVVAPIK-DEGEVIAAIGI-VDLTA 101 (123)
T ss_pred HHHHHhhCceee----eCCCCCccCCceEEEEEec-cCCeEEEEEEe-eehhh
Confidence 345555555432 2234455555667788998 68999999887 47764
No 132
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=29.43 E-value=80 Score=22.90 Aligned_cols=83 Identities=22% Similarity=0.253 Sum_probs=43.7
Q ss_pred HHHHHhhCC-CeEEEEcCCCCCCcEEEechhhHHhcCCCcchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEee
Q 016138 20 VHEALDELP-DSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (394)
Q Consensus 20 l~~l~~~~~-~~i~~~d~~~~d~~i~~~N~a~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 98 (394)
++.+..... +-++++|.+ |.+++-+ ..+.+|+++.. . + ...++ .|+++...
T Consensus 30 ~~~~~~~~~~~~i~v~D~~---g~~l~~s----------~~~~iG~~~~~---~-~-------~~~aL-~G~~~~~~--- 81 (116)
T PF14827_consen 30 LEQLRKESDIDYIVVTDRD---GIVLAHS----------DPERIGDRYSD---E-D-------VRKAL-QGKSYTSV--- 81 (116)
T ss_dssp HHHHHHHCT-SEEEEECTT---SBECE-S----------SCCCTTSB-SS---C-C-------HCHHC-CT--EEEE---
T ss_pred HHHHHhhcCCeEEEEEcCC---CCEEEcC----------ChHHcCCcccC---C-C-------hhhhh-cCCceEEe---
Confidence 344444433 457888988 7766643 23446766432 0 0 22344 45544332
Q ss_pred EecCCCeEEEEEEEEeeeccCCCeeeEEEEEeccc
Q 016138 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (394)
Q Consensus 99 ~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~~~~DI 133 (394)
...++ -+......|+++ .+|+++|++.+...+
T Consensus 82 ~~~~~--~~~~~~~~PV~d-~~g~viG~V~VG~~~ 113 (116)
T PF14827_consen 82 SQGTG--GPSLRAFAPVYD-SDGKVIGVVSVGVSL 113 (116)
T ss_dssp EECTT--CEEEEEEEEEE--TTS-EEEEEEEEEEH
T ss_pred eecCC--ceEEEEEEeeEC-CCCcEEEEEEEEEEc
Confidence 22233 234455889998 899999999876543
No 133
>COG2964 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=28.75 E-value=1.7e+02 Score=24.23 Aligned_cols=29 Identities=17% Similarity=0.079 Sum_probs=24.8
Q ss_pred EEEEEeeeeecCCCCEEEEEEEEeecchh
Q 016138 330 WNLLHISPIRNASGKIAYFAAVHTEEGCR 358 (394)
Q Consensus 330 ~~~~~~~~i~d~~g~~~~~~~~~~DIT~~ 358 (394)
.+..+...++|..|+++|++|+-.|++-.
T Consensus 91 ~ikSsS~~Irn~~g~~iGmLCIN~d~s~l 119 (220)
T COG2964 91 LIKSSSIFIRNKEGRIIGMLCINMDLSLL 119 (220)
T ss_pred eeeeeEEEEEcCCCCEEEEEEEecchhhh
Confidence 45677788999999999999999999953
No 134
>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=24.48 E-value=3.3e+02 Score=20.86 Aligned_cols=98 Identities=7% Similarity=0.024 Sum_probs=39.2
Q ss_pred hhCCCeEEEEcCCCCCCcEEEechhhHHhcCCC--cchhcCCCCccccCCCCChhHHHHHHHHHHhCCCeeEEEeeEecC
Q 016138 25 DELPDSFTITDPSISGHPIVFASRGFLKMSGFS--RAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKD 102 (394)
Q Consensus 25 ~~~~~~i~~~d~~~~d~~i~~~N~a~~~~~G~~--~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~d 102 (394)
..+...+|+-+.+ +.++-+-. +.--++.+ .++++|+... .. ....+.+++.+|.+....-. . .
T Consensus 34 s~aDl~l~v~~~~---~~~vvvA~-~rP~t~~t~y~~dvVG~~~~----~~----~ep~v~~a~~tg~~~~~~~~-~--~ 98 (145)
T PF12282_consen 34 SFADLFLWVPTKD---GNAVVVAQ-ARPSTAPTLYPDDVVGKVAL----RE----NEPAVDRALETGRPVRGGRA-V--W 98 (145)
T ss_dssp HTSEEEEEEE-TT---S-EEEEEE-E--SSS--S--S--TT-EE-----GG----GSHHHHHHHH---------------
T ss_pred hcCCEEEEEEcCC---CCEEEEEE-eCCCCCCCCCCCCCCCCccC----cc----ccHHHHHHHHhCCceecCCc-c--c
Confidence 3344456666666 54333322 22233322 3456676432 11 22455667777765432111 1 1
Q ss_pred CCeEEEEEEEEeeeccCCCeeeEEEEEeccccccccc
Q 016138 103 GTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (394)
Q Consensus 103 G~~~~v~~~~~~i~~~~~g~~~~~~~~~~DITe~k~~ 139 (394)
-....+..++.||++ +|++++++..-.++...+..
T Consensus 99 ~~~~~v~~~~~PI~~--~~~vIaVl~~~~~~~~~~~~ 133 (145)
T PF12282_consen 99 QGGVPVRQEVVPIRR--NGRVIAVLIRETNLSASRTP 133 (145)
T ss_dssp ------EEEEEEEEE--TTEEEEEEEEE--GGGS---
T ss_pred cCCceeEEEEEEEEE--CCEEEEEEEEEcccccccCC
Confidence 122367788999999 67999998877777766553
No 135
>PF13953 PapC_C: PapC C-terminal domain; PDB: 3L48_E 2XET_A 3RFZ_E 2KT6_A.
Probab=24.02 E-value=56 Score=21.05 Aligned_cols=28 Identities=29% Similarity=0.306 Sum_probs=15.1
Q ss_pred eeEecCCCeEEEEEEEEeeeccCCCeeeEEEE
Q 016138 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVA 128 (394)
Q Consensus 97 ~~~~~dG~~~~v~~~~~~i~~~~~g~~~~~~~ 128 (394)
.+..++|.+.++ ...+.+ .+|..+++++
T Consensus 2 ~l~~~~G~~lPf---GA~v~~-~~g~~~g~Vg 29 (68)
T PF13953_consen 2 TLRDADGKPLPF---GASVSD-EDGNNIGIVG 29 (68)
T ss_dssp EEEETTSEE--T---T-EEEE-TTSSEEEEB-
T ss_pred EEEcCCCCcCCC---CcEEEc-CCCCEEEEEc
Confidence 345677877776 344446 6777776653
No 136
>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=22.58 E-value=3.6e+02 Score=20.64 Aligned_cols=98 Identities=14% Similarity=0.092 Sum_probs=37.6
Q ss_pred HhcccceEEEEcCCCCCcCEEEeCHHHHHHhc--CCchhhcCCcccccccCCCchhHHHHHHHHHhccCeeeEEEEEEec
Q 016138 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTG--YDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRK 324 (394)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~~~G--~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 324 (394)
+..+..-+++-.. ++.++.+-.+ .--++ .-.++++|+.... ... ..+.+++..|.+....-. .
T Consensus 33 Ls~aDl~l~v~~~---~~~~vvvA~~-rP~t~~t~y~~dvVG~~~~~----~~e----p~v~~a~~tg~~~~~~~~---~ 97 (145)
T PF12282_consen 33 LSFADLFLWVPTK---DGNAVVVAQA-RPSTAPTLYPDDVVGKVALR----ENE----PAVDRALETGRPVRGGRA---V 97 (145)
T ss_dssp HHTSEEEEEEE-T---TS-EEEEEEE---SSS--S--S--TT-EE-G----GGS----HHHHHHHH--------------
T ss_pred hhcCCEEEEEEcC---CCCEEEEEEe-CCCCCCCCCCCCCCCCccCc----ccc----HHHHHHHHhCCceecCCc---c
Confidence 4444455666655 5544433221 11122 2235567765422 122 345566666665443211 1
Q ss_pred CCCeeEEEEEeeeeecCCCCEEEEEEEEeecchhhh
Q 016138 325 DKSSFWNLLHISPIRNASGKIAYFAAVHTEEGCRNQ 360 (394)
Q Consensus 325 ~G~~~~~~~~~~~i~d~~g~~~~~~~~~~DIT~~k~ 360 (394)
......+...+.||++. |++++++..-.++...+.
T Consensus 98 ~~~~~~v~~~~~PI~~~-~~vIaVl~~~~~~~~~~~ 132 (145)
T PF12282_consen 98 WQGGVPVRQEVVPIRRN-GRVIAVLIRETNLSASRT 132 (145)
T ss_dssp -------EEEEEEEEET-TEEEEEEEEE--GGGS--
T ss_pred ccCCceeEEEEEEEEEC-CEEEEEEEEEcccccccC
Confidence 12223678899999976 488888876666665543
Done!