Query 019110
Match_columns 346
No_of_seqs 331 out of 1357
Neff 11.2
Searched_HMMs 46136
Date Fri Mar 29 06:46:10 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/019110.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/019110hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13560 hypothetical protein; 99.9 2.4E-25 5.1E-30 213.7 21.6 240 5-345 192-452 (807)
2 PRK09776 putative diguanylate 99.9 2.8E-25 6.1E-30 219.4 17.5 230 15-345 280-511 (1092)
3 TIGR02040 PpsR-CrtJ transcript 99.9 4.9E-24 1.1E-28 189.8 21.5 221 15-343 130-351 (442)
4 PRK09776 putative diguanylate 99.9 8.8E-24 1.9E-28 208.8 19.4 238 6-345 399-641 (1092)
5 PRK13560 hypothetical protein; 99.9 1.5E-22 3.3E-27 194.4 20.7 235 9-345 59-307 (807)
6 PRK11359 cyclic-di-GMP phospho 99.9 6.1E-22 1.3E-26 189.8 21.4 223 17-345 11-238 (799)
7 TIGR02040 PpsR-CrtJ transcript 99.9 1.5E-21 3.2E-26 173.9 18.3 226 23-340 1-227 (442)
8 TIGR02938 nifL_nitrog nitrogen 99.9 2.5E-22 5.4E-27 182.2 12.5 223 18-344 4-228 (494)
9 PF13426 PAS_9: PAS domain; PD 99.8 3.4E-18 7.4E-23 120.8 11.6 104 28-135 1-104 (104)
10 PF13426 PAS_9: PAS domain; PD 99.7 5E-17 1.1E-21 114.8 10.8 92 251-345 1-92 (104)
11 PF08448 PAS_4: PAS fold; Int 99.7 4.7E-17 1E-21 116.2 10.1 110 24-138 1-110 (110)
12 PF00989 PAS: PAS fold; Inter 99.7 7.7E-17 1.7E-21 115.7 11.3 112 18-133 1-113 (113)
13 PF00989 PAS: PAS fold; Inter 99.7 1.6E-15 3.4E-20 108.8 10.9 102 241-345 1-103 (113)
14 PRK10060 RNase II stability mo 99.6 1.4E-15 3.1E-20 141.5 11.3 165 16-185 109-276 (663)
15 PRK11091 aerobic respiration c 99.6 3.6E-14 7.8E-19 135.6 14.4 124 15-142 152-275 (779)
16 PRK13559 hypothetical protein; 99.6 6.2E-14 1.3E-18 122.0 14.1 125 15-140 40-164 (361)
17 PRK13557 histidine kinase; Pro 99.5 4.7E-14 1E-18 129.7 12.6 128 15-143 27-154 (540)
18 PF08447 PAS_3: PAS fold; Int 99.5 3.6E-14 7.8E-19 97.4 7.9 80 266-346 1-85 (91)
19 PF08448 PAS_4: PAS fold; Int 99.5 8.9E-14 1.9E-18 99.1 10.0 95 247-345 1-95 (110)
20 PRK13558 bacterio-opsin activa 99.5 7.2E-13 1.6E-17 124.5 12.7 125 19-144 149-273 (665)
21 PF08447 PAS_3: PAS fold; Int 99.4 1.4E-12 2.9E-17 89.5 8.4 86 43-130 1-91 (91)
22 KOG3558 Hypoxia-inducible fact 99.4 4E-12 8.7E-17 111.1 12.7 88 254-342 275-362 (768)
23 PRK13557 histidine kinase; Pro 99.4 3E-12 6.4E-17 117.8 12.3 106 240-345 29-134 (540)
24 PRK13559 hypothetical protein; 99.3 1.3E-11 2.8E-16 107.5 12.5 105 241-345 43-147 (361)
25 TIGR00229 sensory_box PAS doma 99.3 2.3E-11 4.9E-16 86.7 11.1 117 18-139 3-120 (124)
26 PRK10060 RNase II stability mo 99.3 2.6E-11 5.7E-16 113.3 10.8 97 243-343 113-210 (663)
27 PRK11091 aerobic respiration c 99.2 1.3E-11 2.7E-16 118.3 7.8 109 234-345 148-256 (779)
28 PRK11359 cyclic-di-GMP phospho 99.2 5.9E-11 1.3E-15 114.3 11.6 122 15-140 133-255 (799)
29 PF14598 PAS_11: PAS domain; P 99.2 2.4E-10 5.3E-15 80.5 10.8 87 254-343 5-93 (111)
30 PF13596 PAS_10: PAS domain; P 99.1 3.7E-10 7.9E-15 79.6 8.9 106 20-134 1-106 (106)
31 TIGR02938 nifL_nitrog nitrogen 99.1 1.5E-10 3.4E-15 105.1 8.3 102 241-345 4-105 (494)
32 cd00130 PAS PAS domain; PAS mo 99.1 2E-09 4.4E-14 73.0 12.1 103 27-133 1-103 (103)
33 PRK13558 bacterio-opsin activa 99.1 7E-10 1.5E-14 104.5 12.3 103 243-345 150-252 (665)
34 COG3829 RocR Transcriptional r 99.1 3.9E-10 8.4E-15 97.6 9.0 186 21-320 4-189 (560)
35 PF14598 PAS_11: PAS domain; P 99.1 2.2E-09 4.8E-14 75.7 10.8 97 40-136 11-109 (111)
36 PF12860 PAS_7: PAS fold 99.1 6.8E-10 1.5E-14 79.6 8.2 104 24-140 1-114 (115)
37 cd00130 PAS PAS domain; PAS mo 99.0 4.1E-09 8.9E-14 71.5 10.9 91 251-344 2-92 (103)
38 PRK11388 DNA-binding transcrip 99.0 1.4E-08 3.1E-13 94.7 16.8 93 243-344 205-297 (638)
39 TIGR02966 phoR_proteo phosphat 99.0 1.8E-09 3.9E-14 92.9 10.0 108 15-139 3-110 (333)
40 TIGR00229 sensory_box PAS doma 99.0 4.6E-09 1E-13 74.5 10.3 100 241-344 3-103 (124)
41 PRK11360 sensory histidine kin 99.0 5.8E-09 1.2E-13 97.4 11.7 122 15-143 259-381 (607)
42 PRK11073 glnL nitrogen regulat 98.9 7.5E-09 1.6E-13 89.7 9.1 113 18-141 7-119 (348)
43 KOG0501 K+-channel KCNQ [Inorg 98.8 2.2E-08 4.7E-13 86.7 9.8 121 18-139 14-139 (971)
44 TIGR02966 phoR_proteo phosphat 98.8 2.3E-08 5E-13 86.0 9.1 93 238-341 3-95 (333)
45 PRK11073 glnL nitrogen regulat 98.8 4E-08 8.7E-13 85.2 9.2 94 241-339 7-100 (348)
46 COG5002 VicK Signal transducti 98.8 8.6E-08 1.9E-12 78.3 10.1 118 15-143 108-225 (459)
47 PF13596 PAS_10: PAS domain; P 98.7 7.9E-08 1.7E-12 67.7 8.2 95 243-345 1-95 (106)
48 PRK11006 phoR phosphate regulo 98.7 3.9E-08 8.5E-13 87.8 6.8 112 9-140 90-201 (430)
49 COG3829 RocR Transcriptional r 98.7 2.5E-07 5.4E-12 80.6 11.0 112 15-139 114-225 (560)
50 PRK10820 DNA-binding transcrip 98.5 3.4E-07 7.3E-12 83.0 8.7 109 15-137 77-189 (520)
51 KOG0501 K+-channel KCNQ [Inorg 98.5 3E-07 6.5E-12 79.9 6.9 94 253-346 29-124 (971)
52 KOG1229 3'5'-cyclic nucleotide 98.5 6.3E-08 1.4E-12 81.1 2.6 103 240-345 156-259 (775)
53 PRK11360 sensory histidine kin 98.4 1.3E-06 2.8E-11 81.7 10.3 99 241-345 262-361 (607)
54 PF13188 PAS_8: PAS domain; PD 98.4 3.7E-07 8E-12 57.6 4.5 42 18-66 1-42 (64)
55 KOG3559 Transcriptional regula 98.4 4.4E-06 9.5E-11 69.3 10.5 85 253-340 227-311 (598)
56 COG2202 AtoS FOG: PAS/PAC doma 98.4 1.2E-05 2.5E-10 63.0 12.8 120 15-139 109-231 (232)
57 COG2202 AtoS FOG: PAS/PAC doma 98.3 2.9E-05 6.3E-10 60.7 14.6 95 243-340 114-211 (232)
58 KOG3560 Aryl-hydrocarbon recep 98.3 6.3E-06 1.4E-10 71.0 10.5 86 253-339 283-368 (712)
59 PRK10820 DNA-binding transcrip 98.3 2.4E-06 5.3E-11 77.5 8.3 92 240-344 79-172 (520)
60 PF12860 PAS_7: PAS fold 98.3 6.3E-06 1.4E-10 58.9 8.1 87 247-340 1-97 (115)
61 PF13188 PAS_8: PAS domain; PD 98.3 1.8E-06 4E-11 54.3 4.6 42 242-290 2-43 (64)
62 PRK11086 sensory histidine kin 98.2 8E-06 1.7E-10 75.4 8.7 112 15-142 218-332 (542)
63 PF08670 MEKHLA: MEKHLA domain 98.1 8.1E-05 1.8E-09 54.5 10.4 112 18-132 32-144 (148)
64 KOG3558 Hypoxia-inducible fact 98.0 6.9E-06 1.5E-10 73.0 4.6 105 31-136 275-379 (768)
65 PRK11006 phoR phosphate regulo 98.0 1.4E-05 3.1E-10 71.4 6.2 53 239-294 96-148 (430)
66 PF08670 MEKHLA: MEKHLA domain 97.9 0.00016 3.6E-09 52.9 9.7 102 243-345 33-135 (148)
67 TIGR02373 photo_yellow photoac 97.9 0.00012 2.5E-09 51.2 8.4 63 247-312 22-85 (124)
68 COG5000 NtrY Signal transducti 97.9 9.4E-05 2E-09 65.6 9.7 113 15-139 367-480 (712)
69 KOG1229 3'5'-cyclic nucleotide 97.9 6.3E-06 1.4E-10 69.5 2.0 104 21-128 160-264 (775)
70 PRK11388 DNA-binding transcrip 97.9 0.00011 2.4E-09 69.0 10.3 108 19-138 204-311 (638)
71 smart00091 PAS PAS domain. PAS 97.8 8.2E-05 1.8E-09 45.3 6.1 60 243-305 3-62 (67)
72 PRK15053 dpiB sensor histidine 97.7 8.1E-05 1.8E-09 68.8 7.3 108 17-141 221-330 (545)
73 COG3852 NtrB Signal transducti 97.7 0.00016 3.5E-09 58.7 7.4 95 245-345 11-106 (363)
74 COG3290 CitA Signal transducti 97.7 0.0003 6.4E-09 61.9 9.0 109 16-139 213-323 (537)
75 TIGR02373 photo_yellow photoac 97.7 0.00076 1.6E-08 47.2 9.2 66 22-90 20-86 (124)
76 PRK09959 hybrid sensory histid 97.6 0.00072 1.6E-08 68.7 12.9 43 15-60 573-615 (1197)
77 KOG3753 Circadian clock protei 97.6 0.00047 1E-08 63.3 10.0 85 254-339 332-419 (1114)
78 smart00091 PAS PAS domain. PAS 97.5 0.00027 5.9E-09 42.8 5.4 57 19-78 2-58 (67)
79 COG2461 Uncharacterized conser 97.5 0.00028 6.1E-09 59.1 6.5 113 17-139 289-401 (409)
80 PRK11086 sensory histidine kin 97.2 0.00084 1.8E-08 62.0 7.1 91 240-345 220-313 (542)
81 COG3852 NtrB Signal transducti 97.2 0.0017 3.6E-08 53.0 7.6 109 21-139 10-119 (363)
82 COG5002 VicK Signal transducti 97.2 0.0017 3.7E-08 53.9 7.4 96 240-345 110-205 (459)
83 PRK15053 dpiB sensor histidine 97.1 0.0023 5E-08 59.3 8.3 51 242-295 223-275 (545)
84 COG3283 TyrR Transcriptional r 97.0 0.0017 3.7E-08 54.3 5.8 55 242-299 81-135 (511)
85 COG3290 CitA Signal transducti 96.8 0.018 3.9E-07 51.1 10.6 51 243-296 217-269 (537)
86 KOG3560 Aryl-hydrocarbon recep 96.7 0.0065 1.4E-07 53.2 7.1 94 40-135 292-385 (712)
87 smart00086 PAC Motif C-termina 96.6 0.012 2.7E-07 31.2 6.0 41 95-136 3-43 (43)
88 PF07310 PAS_5: PAS domain; I 96.6 0.042 9.1E-07 40.4 10.0 102 24-130 34-136 (137)
89 KOG3561 Aryl-hydrocarbon recep 96.3 0.0021 4.6E-08 59.9 2.2 62 240-304 93-155 (803)
90 COG3283 TyrR Transcriptional r 96.1 0.01 2.2E-07 49.8 4.7 56 15-73 77-132 (511)
91 COG5000 NtrY Signal transducti 95.8 0.04 8.7E-07 49.6 7.4 90 240-338 369-459 (712)
92 PF07310 PAS_5: PAS domain; I 95.8 0.12 2.5E-06 38.0 8.9 80 263-345 50-129 (137)
93 COG2461 Uncharacterized conser 95.7 0.039 8.6E-07 46.7 6.8 98 239-345 288-385 (409)
94 PF08446 PAS_2: PAS fold; Int 95.3 0.039 8.3E-07 38.8 4.6 44 253-298 17-63 (110)
95 PRK09959 hybrid sensory histid 94.9 0.13 2.8E-06 52.7 9.0 47 235-284 570-616 (1197)
96 KOG3561 Aryl-hydrocarbon recep 94.8 0.025 5.4E-07 53.1 3.3 78 263-340 381-459 (803)
97 KOG3559 Transcriptional regula 94.6 0.043 9.3E-07 46.4 3.9 78 40-117 234-311 (598)
98 PF06785 UPF0242: Uncharacteri 94.2 0.23 5E-06 41.1 7.0 90 243-338 285-378 (401)
99 PRK10841 hybrid sensory kinase 94.2 1.2 2.7E-05 44.2 13.5 42 15-58 331-372 (924)
100 PF08446 PAS_2: PAS fold; Int 92.8 0.13 2.8E-06 36.1 3.2 43 30-74 17-62 (110)
101 COG3284 AcoR Transcriptional a 92.5 1.5 3.2E-05 40.3 9.9 43 247-292 228-271 (606)
102 KOG3753 Circadian clock protei 91.8 0.65 1.4E-05 43.8 7.0 86 31-117 332-420 (1114)
103 PRK10618 phosphotransfer inter 87.3 1.3 2.8E-05 43.6 5.8 41 15-57 340-380 (894)
104 smart00086 PAC Motif C-termina 87.0 2.3 4.9E-05 21.5 4.6 28 318-345 3-30 (43)
105 PRK13719 conjugal transfer tra 85.2 1.8 3.8E-05 34.2 4.5 49 8-59 7-57 (217)
106 PF06785 UPF0242: Uncharacteri 83.0 1.6 3.4E-05 36.4 3.5 90 20-115 289-378 (401)
107 PRK13719 conjugal transfer tra 81.4 2.6 5.7E-05 33.3 4.1 37 242-281 20-56 (217)
108 PRK10618 phosphotransfer inter 79.9 2.2 4.7E-05 42.2 3.9 43 236-280 338-380 (894)
109 PF08348 PAS_6: YheO-like PAS 78.6 4 8.6E-05 29.0 3.9 45 92-139 68-112 (118)
110 PRK14538 putative bifunctional 77.7 3.4 7.3E-05 40.3 4.4 49 15-68 99-147 (838)
111 COG3887 Predicted signaling pr 76.3 6.6 0.00014 36.0 5.5 41 12-55 69-109 (655)
112 COG5388 Uncharacterized protei 76.1 20 0.00043 27.7 7.1 107 22-134 52-160 (209)
113 PRK14538 putative bifunctional 74.1 4.2 9.1E-05 39.6 4.0 46 241-292 102-148 (838)
114 COG3887 Predicted signaling pr 72.1 6.4 0.00014 36.1 4.3 37 239-278 73-109 (655)
115 COG5388 Uncharacterized protei 59.0 84 0.0018 24.4 7.5 95 245-344 52-148 (209)
116 PRK10841 hybrid sensory kinase 51.9 21 0.00045 35.8 4.3 45 236-282 329-373 (924)
117 COG3284 AcoR Transcriptional a 51.3 24 0.00053 32.8 4.2 92 245-346 81-173 (606)
118 COG0093 RplN Ribosomal protein 50.9 18 0.00039 25.3 2.6 26 320-345 68-93 (122)
119 PF09884 DUF2111: Uncharacteri 44.8 50 0.0011 21.6 3.7 47 82-134 37-83 (84)
120 PF09308 LuxQ-periplasm: LuxQ, 33.9 2.6E+02 0.0057 22.8 9.3 82 25-131 69-150 (238)
121 PF10114 PocR: Sensory domain 26.7 2.8E+02 0.0062 20.9 7.8 97 15-131 9-105 (173)
122 PF02743 Cache_1: Cache domain 26.0 80 0.0017 20.2 2.7 30 106-136 12-41 (81)
123 PF07411 DUF1508: Domain of un 25.2 51 0.0011 19.1 1.4 11 319-329 8-18 (49)
124 PRK08571 rpl14p 50S ribosomal 23.3 1E+02 0.0022 22.4 2.9 28 319-346 78-105 (132)
125 COG4191 Signal transduction hi 23.1 6.5E+02 0.014 23.9 12.9 96 14-134 85-181 (603)
126 COG4863 Uncharacterized protei 22.3 1.2E+02 0.0027 26.4 3.6 42 251-292 256-297 (439)
127 PTZ00054 60S ribosomal protein 21.2 1.1E+02 0.0025 22.4 2.8 28 319-346 85-112 (139)
128 PF14827 Cache_3: Sensory doma 21.0 1.2E+02 0.0027 21.2 3.0 27 106-133 87-113 (116)
129 TIGR03673 rpl14p_arch 50S ribo 20.6 1.2E+02 0.0025 22.1 2.7 28 319-346 77-104 (131)
No 1
>PRK13560 hypothetical protein; Provisional
Probab=99.94 E-value=2.4e-25 Score=213.71 Aligned_cols=240 Identities=14% Similarity=0.138 Sum_probs=184.6
Q ss_pred hhhhHHHHHhhhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHH
Q 019110 5 LGLIEQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIRE 84 (346)
Q Consensus 5 ~~~~e~~~~~~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~ 84 (346)
.++.|++++ +++++++.+++++|+++++.|.+ |+++++|+++++++||++++++|+++.++.++............
T Consensus 192 rk~ae~~l~-~~~~~l~~l~e~~~~~i~~~d~~---g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~ 267 (807)
T PRK13560 192 RKRAEERID-EALHFLQQLLDNIADPAFWKDED---AKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAA 267 (807)
T ss_pred HHHHHHHHH-HHHHHHHHHHhhCCCeEEEEcCC---CCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHH
Confidence 345566665 77889999999999999999996 99999999999999999999999998888766544443344445
Q ss_pred HHhcCCceEEEEEeeeCCCCeEEEEeee--cccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccc
Q 019110 85 AIREERPIEVNLLNYKKDGTPFWMLFKM--SLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGS 162 (346)
Q Consensus 85 ~~~~~~~~~~e~~~~~~dg~~~~~~~~~--~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~ 162 (346)
.+..+....++.+++++||..+|+.+.. .|+.+ .+|.+.+++++++|||++|+++++
T Consensus 268 ~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~~~~~~-~~g~~~g~~~~~~DITerk~~e~~-------------------- 326 (807)
T PRK13560 268 KFDADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDD-KENHCAGLVGAITDISGRRAAERE-------------------- 326 (807)
T ss_pred HhccCCceEEEEEEEcCCCCEEEEEEEecceEEEc-CCCCEEEEEEEEEechHHHHHHHH--------------------
Confidence 5556667778888999999999766654 45677 789999999999999999998111
Q ss_pred hhhhhhcchhhhhHhhhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHH
Q 019110 163 CRREVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSS 242 (346)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~ 242 (346)
. ...+..
T Consensus 327 --------------------------------------L-----------------------------------~~se~~ 333 (807)
T PRK13560 327 --------------------------------------L-----------------------------------LEKEDM 333 (807)
T ss_pred --------------------------------------H-----------------------------------HHHHHH
Confidence 1 112234
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeee-cHhHHHHcCCChhhhhcCCccccccCCcchh---------------HH--HH
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYA-SDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT---------------VL--YQ 304 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~-N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~---------------~~--~~ 304 (346)
++.++++++++++++|. +|.++++ |+++++++||+.++++|+++..+.+...... .. ..
T Consensus 334 l~~l~~~~~~~i~~~d~---~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 410 (807)
T PRK13560 334 LRAIIEAAPIAAIGLDA---DGNICFVNNNAAERMLGWSAAEVMGKPLPGMDPELNEEFWCGDFQEWYPDGRPMAFDACP 410 (807)
T ss_pred HHHHHHhCcccEEEEcC---CCCEEEecCHHHHHHhCCCHHHHcCCCccccChhhhhhhhhchhhhcCCcCCcchhhhhh
Confidence 77788999999999999 9999987 6788889999999999998655432211111 00 11
Q ss_pred HHHHHhcCCce-EEEEEeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 305 IKESIQTEQAC-TVRILNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 305 ~~~~~~~~~~~-~~e~~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
+...+..+..+ ..+++..+++|..+|+.....|+.|.+|++
T Consensus 411 ~~~~~~~~~~~~~~e~~~~~~~g~~~~~~~~~~p~~d~~g~~ 452 (807)
T PRK13560 411 MAKTIKGGKIFDGQEVLIEREDDGPADCSAYAEPLHDADGNI 452 (807)
T ss_pred HHHHHhcCCcccCceEEEEcCCCCeEEEEEEEeeeECCCCCE
Confidence 23335555554 357888999999999999999999999975
No 2
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.93 E-value=2.8e-25 Score=219.38 Aligned_cols=230 Identities=13% Similarity=0.143 Sum_probs=195.7
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcC-CceE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIE 93 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~ 93 (346)
+++++++.+++++|.+++++|.+ |+++++|+++++++||++++++|++...+.++++.......+.+...++ ..+.
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 67788999999999999999996 9999999999999999999999999888888877666655555555443 3567
Q ss_pred EEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchhhhhhcchhh
Q 019110 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (346)
Q Consensus 94 ~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (346)
.+.+..++||+.+|+..+..|+++ .+|.+.+++++++|||++|+++++
T Consensus 357 ~e~~~~~~dG~~~~~~~~~~~~~~-~~g~~~~~i~~~~DITerk~~e~~------------------------------- 404 (1092)
T PRK09776 357 MEKRYYRRDGEVVWALLAVSLVRD-TDGTPLYFIAQIEDINELKRTEQV------------------------------- 404 (1092)
T ss_pred eeeEEEcCCCCEEEEEEEEEEEEC-CCCCEeeehhhHHhhHHHHHHHHH-------------------------------
Confidence 788999999999999999999999 899999999999999999998111
Q ss_pred hhHhhhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHHHHHhccCCc
Q 019110 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (346)
Q Consensus 174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~ 253 (346)
.+ ..++.+..+++..+++
T Consensus 405 ---------------------------l~-----------------------------------~~~~~~~~~~~~~~~~ 422 (1092)
T PRK09776 405 ---------------------------NE-----------------------------------RLMERITLANEAGGIG 422 (1092)
T ss_pred ---------------------------HH-----------------------------------HHHHHHHHHHHhcCce
Confidence 11 1122356667888899
Q ss_pred EEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCC-ccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEE
Q 019110 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQN-CRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (346)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 332 (346)
++.+|. ++.++++|+++++++||++++..+.. +...+||++.......+.+.+.++.++..|++.+++|| .+|+.
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 99999999999999999998854433 45567888888888888888888999999999999999 99999
Q ss_pred EEeeeeecCCCcc
Q 019110 333 LHISPIRNASGKV 345 (346)
Q Consensus 333 ~~~~~i~d~~G~v 345 (346)
....|++|++|++
T Consensus 499 ~~~~~~~d~~G~~ 511 (1092)
T PRK09776 499 ALANRVLNKDGEV 511 (1092)
T ss_pred EeeEEEECCCCCE
Confidence 9999999999975
No 3
>TIGR02040 PpsR-CrtJ transcriptional regulator PpsR. This model represents the transcriptional regulator PpsR which is strictly associated with photosynthetic proteobacteria and found in photosynthetic operons. PpsR has been reported to be a repressor. These proteins contain a Helix-Turn_Helix motif of the "fis" type (pfam02954).
Probab=99.93 E-value=4.9e-24 Score=189.83 Aligned_cols=221 Identities=17% Similarity=0.109 Sum_probs=163.9
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
+++++++.+++.+++++|++|.. +|+++++|++++.++||++++++|+++..++++.+.......+......+.....
T Consensus 130 ~~e~r~~~l~e~~~~~i~~~d~~--~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~ 207 (442)
T TIGR02040 130 EMETRYRVVLEVSSDAVLLVDMS--TGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSAAPV 207 (442)
T ss_pred HHHHHHHHHHhhCCceEEEEECC--CCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCCcce
Confidence 56778999999999999999983 3999999999999999999999999988777777766666667776666655444
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchhhhhhcchhhh
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLD 174 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 174 (346)
++. .++|...| .+..+++.. +|.. .+++.+.|||+++++ +.
T Consensus 208 ~~~--~~~~~~~~-~~~~~~~~~--~~~~-~~l~~~~dit~~~~~-------------------------e~-------- 248 (442)
T TIGR02040 208 RIL--LRRSQKRL-LVVVSVFRQ--DGES-LFLCQLSPAGATQPV-------------------------GD-------- 248 (442)
T ss_pred EEE--EcCCCeEE-EEEEEEEEe--CCce-EEEEEEcccchhhhh-------------------------hH--------
Confidence 444 34444444 345556544 3433 567888999998776 00
Q ss_pred hHhhhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHHHHHhccCCcE
Q 019110 175 LDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSF 254 (346)
Q Consensus 175 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~i 254 (346)
.. .+.+..++++++++|
T Consensus 249 -------------------------~~--------------------------------------~~~~~~l~e~~~d~I 265 (442)
T TIGR02040 249 -------------------------EL--------------------------------------SENLARLYHEAPDAI 265 (442)
T ss_pred -------------------------HH--------------------------------------HHHHHHHHHhCCceE
Confidence 00 012667789999999
Q ss_pred EEEcCCCCCCCeeeecHhHHHHcCCC-hhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEEE
Q 019110 255 VLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLL 333 (346)
Q Consensus 255 ~~~d~~~~dg~i~~~N~~~~~l~G~~-~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~ 333 (346)
+++|. +|+|+++|++|++++||+ .++++|+++..+.++... .....+......+.....+.+++++||+.+|+++
T Consensus 266 ~v~D~---~G~I~~~N~a~~~l~G~~~~~~l~G~~~~~~~~~~~~-~~~~~~~~~~~~g~~~~~~~~~~~~~G~~~~ve~ 341 (442)
T TIGR02040 266 VFSDA---DGTIRGANEAFLELTDSSSLEAVRGRTLDRWLGRGGV-DLRVLLSNVRRTGQVRLYATTLTGEFGAQTEVEI 341 (442)
T ss_pred EEEcC---CCcEEehhHHHHHHhCCCChHHHcCCCHHHHhCCCcc-cHHHHHHHHhhcCceEEEEEEEEcCCCCEEEEEE
Confidence 99999 999999999999999997 578999997665543322 1222222233345555577788999999999999
Q ss_pred EeeeeecCCC
Q 019110 334 HISPIRNASG 343 (346)
Q Consensus 334 ~~~~i~d~~G 343 (346)
+++|+.+.++
T Consensus 342 s~~~i~~~~~ 351 (442)
T TIGR02040 342 SAAWVDQGER 351 (442)
T ss_pred EEEEeccCCc
Confidence 9999987665
No 4
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.92 E-value=8.8e-24 Score=208.81 Aligned_cols=238 Identities=16% Similarity=0.163 Sum_probs=190.5
Q ss_pred hhhHHHHHhhhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCC-CCcccCCCCChhhHHHHHH
Q 019110 6 GLIEQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN-GRMFQGPRTNRRTIMEIRE 84 (346)
Q Consensus 6 ~~~e~~~~~~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~-~~~~~~~~~~~~~~~~~~~ 84 (346)
++.|++++ +++++++.+++..+.++|.+|.+ +.++++|+++++++||+.++..+.. +....+|++.......+.+
T Consensus 399 k~~e~~l~-~~~~~~~~~~~~~~~~i~~~d~~---~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~ 474 (1092)
T PRK09776 399 KRTEQVNE-RLMERITLANEAGGIGIWEWDLK---PNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRD 474 (1092)
T ss_pred HHHHHHHH-HHHHHHHHHHHhcCceEEEEecC---CCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHH
Confidence 34555555 67788999999999999999997 9999999999999999998854432 3345567766666677888
Q ss_pred HHhcCCceEEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchh
Q 019110 85 AIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCR 164 (346)
Q Consensus 85 ~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~ 164 (346)
...++.++..+++..++|| .+|+.....|+++ .+|.+.+++++.+|||++|++++++
T Consensus 475 ~~~~~~~~~~e~r~~~~dG-~~w~~~~~~~~~d-~~G~~~~~ig~~~DITerk~~e~~L--------------------- 531 (1092)
T PRK09776 475 ALQGRSPFKLEFRIVVKDG-VRHIRALANRVLN-KDGEVERLLGINMDMTEVRQLNEAL--------------------- 531 (1092)
T ss_pred HHhcCCCeeEEEEEEcCCc-eEEEEEeeEEEEC-CCCCEEEEEeeeeehhHHHHHHHHH---------------------
Confidence 8888888999999999999 9999999999999 9999999999999999999981111
Q ss_pred hhhhcchhhhhHhhhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHH
Q 019110 165 REVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLY 244 (346)
Q Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~ 244 (346)
+ ..+++++
T Consensus 532 -------------------------------------~-----------------------------------~~~~~l~ 539 (1092)
T PRK09776 532 -------------------------------------F-----------------------------------QEKERLH 539 (1092)
T ss_pred -------------------------------------H-----------------------------------HHHHHHH
Confidence 1 1122366
Q ss_pred HHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCc--chhHHHHHHHHHhcCCc--eEEEEE
Q 019110 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT--DTTVLYQIKESIQTEQA--CTVRIL 320 (346)
Q Consensus 245 ~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~--~~~~~~~~~~~~~~~~~--~~~e~~ 320 (346)
.++++++++++++|. +|+++++|+++++++||+.+|++|+++..+.++.+ .......+......... +..+.+
T Consensus 540 ~~l~~~~~~i~~~D~---~g~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 616 (1092)
T PRK09776 540 ITLDSIGEAVVCTDM---AMKVTFMNPVAEKMTGWTQEEALGVPLLTVLHITFGDNGPLMENIYSCLTSRSAAYLEQDVV 616 (1092)
T ss_pred HHHhccccEEEEECC---CCeEEEEcHHHHHHhCCCHHHHcCCCHHHHcccccCCcchhhHHHHHHHhcCCCccccceEE
Confidence 678899999999999 99999999999999999999999999766654322 22222334444444444 556778
Q ss_pred eEecCCCeEEEEEEeeeeecCCCcc
Q 019110 321 NYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
.+++||..+|+..+..|+.|.+|++
T Consensus 617 ~~~~~G~~~~~~~~~~pi~~~~g~~ 641 (1092)
T PRK09776 617 LHCRSGGSYDVHYSITPLSTLDGEN 641 (1092)
T ss_pred EEeCCCcEEEEEEEeeeeecCCCCE
Confidence 8999999999999999999999875
No 5
>PRK13560 hypothetical protein; Provisional
Probab=99.90 E-value=1.5e-22 Score=194.37 Aligned_cols=235 Identities=11% Similarity=0.042 Sum_probs=174.0
Q ss_pred HHHHHhhhHHHH-HHHHhhCCCcEEEecCCCCCCCE--EEEehhHHhhhCCCchhhcCCC--CCcccCCCCChhhHH---
Q 019110 9 EQSFNNRYTLWV-HEALDELPDSFTITDPSISGHPI--VFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTIM--- 80 (346)
Q Consensus 9 e~~~~~~~~~~~-~~~~~~~~~~i~~~d~~~~d~~i--~~~N~~~~~l~G~~~~e~~g~~--~~~~~~~~~~~~~~~--- 80 (346)
+.+++ ++++.+ +.+++++|.+++.++.+ +++.+ .++++++..++|+.+.++++.. +..+.+|++......
T Consensus 59 ~~~l~-~~~e~~~r~l~~~~p~~i~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~~ 136 (807)
T PRK13560 59 EAEAQ-DCREQCERNLKANIPGGMFLFALD-GDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFANPF 136 (807)
T ss_pred HHHHH-HHHHHHHHHHHhcCCceEEEEEEc-CccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhChh
Confidence 34444 444555 99999999999998876 23443 3488888899999888876543 345666776655432
Q ss_pred ----HHHHHHhcCCceEEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcch
Q 019110 81 ----EIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLR 156 (346)
Q Consensus 81 ----~~~~~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~ 156 (346)
.+..++..+.....+++++++||+ |+.....|.++ .+|.+ .+.|++.|||++|++++
T Consensus 137 ~~~~~~~~~~~~~~~~~~e~r~~~~dg~--~~~~~~~~~~~-~~g~~-~~~g~~~DIT~rk~ae~--------------- 197 (807)
T PRK13560 137 RSAETIAMALQSDDWQEEEGHFRCGDGR--FIDCCLRFERH-AHADD-QVDGFAEDITERKRAEE--------------- 197 (807)
T ss_pred hHHHHHHHHhccCcccceEEEEEeCCcc--EEEEEeeeeec-CCCce-EEEEEEEccchHHHHHH---------------
Confidence 233333444566788899999996 56667778888 77775 68999999999999811
Q ss_pred hhhccchhhhhhcchhhhhHhhhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCc
Q 019110 157 EIVFGSCRREVCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGM 236 (346)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 236 (346)
..
T Consensus 198 -------------------------------------------~l----------------------------------- 199 (807)
T PRK13560 198 -------------------------------------------RI----------------------------------- 199 (807)
T ss_pred -------------------------------------------HH-----------------------------------
Confidence 11
Q ss_pred cchhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceE
Q 019110 237 GFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (346)
Q Consensus 237 ~~~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 316 (346)
......++.+++++|++++++|. +|+++++|+++++++||++++++|+++..+.++.............+..++...
T Consensus 200 ~~~~~~l~~l~e~~~~~i~~~d~---~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 276 (807)
T PRK13560 200 DEALHFLQQLLDNIADPAFWKDE---DAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDADGSQI 276 (807)
T ss_pred HHHHHHHHHHHhhCCCeEEEEcC---CCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccCCceE
Confidence 11223477789999999999999 999999999999999999999999998888766555444444555566777788
Q ss_pred EEEEeEecCCCeEEEEEEe--eeeecCCCcc
Q 019110 317 VRILNYRKDKSSFWNLLHI--SPIRNASGKV 345 (346)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~~--~~i~d~~G~v 345 (346)
.|.+++++||+.+|+++.. .|+.|.+|.+
T Consensus 277 ~e~~~~~~dG~~~~~~~~~~~~~~~~~~g~~ 307 (807)
T PRK13560 277 IEAEFQNKDGRTRPVDVIFNHAEFDDKENHC 307 (807)
T ss_pred EEEEEEcCCCCEEEEEEEecceEEEcCCCCE
Confidence 8999999999999776655 4556777754
No 6
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.89 E-value=6.1e-22 Score=189.76 Aligned_cols=223 Identities=19% Similarity=0.281 Sum_probs=176.7
Q ss_pred HHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCC----ce
Q 019110 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER----PI 92 (346)
Q Consensus 17 ~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~ 92 (346)
+..+..+++.++.+++++|.+ |+++++|+++++++||++++++|+++..+.++.........+......+. .+
T Consensus 11 ~~~~~~~le~~~~~i~~~d~~---g~i~~~N~~~~~l~G~s~eeliG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 87 (799)
T PRK11359 11 DGIFFPALEQNMMGAVLINEN---DEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNREGGKARVEGM 87 (799)
T ss_pred hhhHHHHHHhhcCcEEEEcCC---CeEEEEcHHHHHHhCCCHHHHcCCCHHHhcCccccccchHHHhhhhccCCcccccc
Confidence 345677899999999999996 99999999999999999999999998888777655444444444443332 23
Q ss_pred EEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchhhhhhcchh
Q 019110 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSL 172 (346)
Q Consensus 93 ~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (346)
..+++..++||..+|+.++..|+.. +|.. +++++.+|||++++. ++
T Consensus 88 ~~e~~~~~~dG~~~~v~~~~~~~~~--~g~~-~~~~~~~DiT~~~~~-------------------------~~------ 133 (799)
T PRK11359 88 SRELQLEKKDGSKIWTRFALSKVSA--EGKV-YYLALVRDASVEMAQ-------------------------KE------ 133 (799)
T ss_pred ceeeEEecCCcCEEEEEEEeeeecc--CCce-EEEEEEeeccchhhh-------------------------HH------
Confidence 4578888999999999999988744 5554 578899999998776 00
Q ss_pred hhhHhhhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHHHHHhccCC
Q 019110 173 LDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQ 252 (346)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~ 252 (346)
. ...+..+++++++
T Consensus 134 ---------------------------~---------------------------------------~~~~~~~~~~~~~ 147 (799)
T PRK11359 134 ---------------------------Q---------------------------------------TRQLIIAVDHLDR 147 (799)
T ss_pred ---------------------------H---------------------------------------HHHHHHHHhcCCC
Confidence 0 0013345788899
Q ss_pred cEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCcccccc-CCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEE
Q 019110 253 SFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG-VDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWN 331 (346)
Q Consensus 253 ~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 331 (346)
+++++|. +|+++++|+++++++||+.++++|+++..+.+ +.+.......+...+..+..+..+++..+++|..+|+
T Consensus 148 ~i~~~d~---~g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 224 (799)
T PRK11359 148 PVIVLDP---ERRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQDEFLLLTRTGEKIWI 224 (799)
T ss_pred cEEEEcC---CCcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCcceeEEeCCCCCEEEE
Confidence 9999999 99999999999999999999999998766544 4455555556666777777788899999999999999
Q ss_pred EEEeeeeecCCCcc
Q 019110 332 LLHISPIRNASGKV 345 (346)
Q Consensus 332 ~~~~~~i~d~~G~v 345 (346)
.++..|+.|.+|.+
T Consensus 225 ~~~~~~v~d~~g~~ 238 (799)
T PRK11359 225 KASISPVYDVLAHL 238 (799)
T ss_pred EeeeeeeecCCCce
Confidence 99999999988864
No 7
>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=99.88 E-value=1.5e-21 Score=173.94 Aligned_cols=226 Identities=16% Similarity=0.119 Sum_probs=163.0
Q ss_pred HHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCC-ceEEEEEeeeC
Q 019110 23 ALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-PIEVNLLNYKK 101 (346)
Q Consensus 23 ~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~~ 101 (346)
+++.++++++++|.+ |+|+++|++++.++||+.++++|+++.+++++++.......+......+. .+..+....++
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 367889999999997 99999999999999999999999999888888765555555555555554 45555555667
Q ss_pred CCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchhhhhhcchhhhhHhhhhc
Q 019110 102 DGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLAL 181 (346)
Q Consensus 102 dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (346)
+|..+|+.++..++.+ + .+++++.+|||++++..+++.
T Consensus 78 ~g~~~~~~~~~~~~~~---~--~~~~~i~rDi~~~~~~~~~l~------------------------------------- 115 (442)
T TIGR02040 78 SSFELPMRFILVRLGA---D--RGVLALGRDLRAVAELQQQLV------------------------------------- 115 (442)
T ss_pred CCCccCeEEEEEEeCC---C--CeEEEEecccHHHHHHHHHHH-------------------------------------
Confidence 7778888888777644 2 266889999999877611100
Q ss_pred ccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHHHHHhccCCcEEEEcCCC
Q 019110 182 DSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPHL 261 (346)
Q Consensus 182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~i~~~d~~~ 261 (346)
......+.- ...++..+..+..++++++++++++|..
T Consensus 116 ---------------------~~~~~~e~~---------------------~~~l~~~e~r~~~l~e~~~~~i~~~d~~- 152 (442)
T TIGR02040 116 ---------------------AAQQAMERD---------------------YWTLREMETRYRVVLEVSSDAVLLVDMS- 152 (442)
T ss_pred ---------------------HHHHHHHHH---------------------HHHHHHHHHHHHHHHhhCCceEEEEECC-
Confidence 000000000 0012234456888999999999999973
Q ss_pred CCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEEEEeeeeec
Q 019110 262 PDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (346)
Q Consensus 262 ~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~d 340 (346)
+|+|+++|+++++++||++++++|+++..+++|++.......+......+.....+++ .++|...| .+.++++..
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 6999999999999999999999999988888888877777777777766665554444 44555444 345555553
No 8
>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=99.88 E-value=2.5e-22 Score=182.22 Aligned_cols=223 Identities=21% Similarity=0.267 Sum_probs=171.3
Q ss_pred HHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEE
Q 019110 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (346)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (346)
+.|+.+++.+|.+++++|.+ ++++++|+++++++||++++++|++...+.++.........+.+.+..+.++..++.
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 56889999999999999997 999999999999999999999998866666555555556666677777777777888
Q ss_pred eeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchhhhhhcchhhhhHh
Q 019110 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDR 177 (346)
Q Consensus 98 ~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (346)
..+++|..+|+..+..|+++ .+|.+.+++++++|||++|++++
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~-~~g~~~~~~~~~~DIt~~k~~e~------------------------------------ 123 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLN-EAGETTHFLGMHRDITELHRLEQ------------------------------------ 123 (494)
T ss_pred ccCCCccchhhheeeEEEEC-CCCCEEEEEEehhhhhHHHHHHH------------------------------------
Confidence 88899999999999999999 89999999999999999998811
Q ss_pred hhhcccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHHHHHhccCCcEEEE
Q 019110 178 VLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLI 257 (346)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~i~~~ 257 (346)
..+ .....+..++++++++++++
T Consensus 124 ----------------------~l~-----------------------------------~~~~~~~~~~~~~~~~i~~~ 146 (494)
T TIGR02938 124 ----------------------VVA-----------------------------------NQKLLIESVVDAAPVAFVLL 146 (494)
T ss_pred ----------------------HHH-----------------------------------HHHHHHHHHHhcccceEEEE
Confidence 001 11223667789999999999
Q ss_pred cCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCce-EEEEEeEecCCC-eEEEEEEe
Q 019110 258 DPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRILNYRKDKS-SFWNLLHI 335 (346)
Q Consensus 258 d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~~~dG~-~~~~~~~~ 335 (346)
|. +|+++++|+++++++|+...+..+..+..+.+++....+ ......+..+ ..+.+...++|. .+|+....
T Consensus 147 d~---~~~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 219 (494)
T TIGR02938 147 DP---TGRVILDNQEYKKLATDLRVKEPAHTVLDLLREAWREAL----AENWPQQLAFSNREARFDRGGGRPARWLSCTG 219 (494)
T ss_pred cC---CCCEEEechhHHHhhchhhhhHHHHHHHHHhhHHhhhhh----hhcchhhhccccceeeeccCCCceeeEEEecC
Confidence 99 999999999999999999888777665444444333222 2211112222 234455555555 79999999
Q ss_pred eeeecCCCc
Q 019110 336 SPIRNASGK 344 (346)
Q Consensus 336 ~~i~d~~G~ 344 (346)
.|+.+.+|.
T Consensus 220 ~~~~~~~~~ 228 (494)
T TIGR02938 220 SVIGMESDC 228 (494)
T ss_pred ceEEeecch
Confidence 888876664
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=99.78 E-value=3.4e-18 Score=120.82 Aligned_cols=104 Identities=27% Similarity=0.431 Sum_probs=95.4
Q ss_pred CCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCCCeEE
Q 019110 28 PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFW 107 (346)
Q Consensus 28 ~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg~~~~ 107 (346)
|+|++++|.+ |+|+++|+++++++||++++++|+++..+.++.........+.+.+..+..+..++.+.+++|..+|
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 7899999997 9999999999999999999999999998888877788888899999988889999999999999999
Q ss_pred EEeeecccccCCCCceeEEEEEeecccc
Q 019110 108 MLFKMSLVFGKEDGRATHFVAVQVPIVS 135 (346)
Q Consensus 108 ~~~~~~~~~~~~~g~~~~~~~~~~DIT~ 135 (346)
+.+++.|+.+ ++|++.+++++++|||+
T Consensus 78 ~~~~~~~i~~-~~g~~~~~i~~~~DiTe 104 (104)
T PF13426_consen 78 VEVSASPIRD-EDGEITGIIGIFRDITE 104 (104)
T ss_dssp EEEEEEEEEE-TTSSEEEEEEEEEEEHH
T ss_pred EEEEEEEEEC-CCCCEEEEEEEEEECCC
Confidence 9999999999 89999999999999996
No 10
>PF13426 PAS_9: PAS domain; PDB: 3ULF_B 3UE6_E 2Z6D_B 2Z6C_B 3P7N_B 1LL8_A 3MJQ_A 3BWL_A 4EET_B 4EEP_A ....
Probab=99.73 E-value=5e-17 Score=114.79 Aligned_cols=92 Identities=26% Similarity=0.498 Sum_probs=84.4
Q ss_pred CCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEE
Q 019110 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (346)
Q Consensus 251 ~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 330 (346)
|++++++|. +|+|+++|++|++++||++++++|+++..++++.........+.+.+..+..+..++.+++++|+.+|
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 99999999999999999999999999999988888888889999999999999999999999999999
Q ss_pred EEEEeeeeecCCCcc
Q 019110 331 NLLHISPIRNASGKV 345 (346)
Q Consensus 331 ~~~~~~~i~d~~G~v 345 (346)
+.++++|+.+++|++
T Consensus 78 ~~~~~~~i~~~~g~~ 92 (104)
T PF13426_consen 78 VEVSASPIRDEDGEI 92 (104)
T ss_dssp EEEEEEEEEETTSSE
T ss_pred EEEEEEEEECCCCCE
Confidence 999999999999875
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=99.72 E-value=4.7e-17 Score=116.23 Aligned_cols=110 Identities=26% Similarity=0.452 Sum_probs=98.3
Q ss_pred HhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCC
Q 019110 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDG 103 (346)
Q Consensus 24 ~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg 103 (346)
|+++|++++++|.+ ++|+++|+++.+++|++.++++|+++.+++++...+.....+.+++.++.....+..... +|
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 68899999999997 999999999999999999999999988888887777788888899988877766655544 99
Q ss_pred CeEEEEeeecccccCCCCceeEEEEEeeccccccc
Q 019110 104 TPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (346)
Q Consensus 104 ~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~ 138 (346)
..+|+.+++.|+++ .+|.+.|++++++|||++|+
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=99.72 E-value=7.7e-17 Score=115.71 Aligned_cols=112 Identities=22% Similarity=0.362 Sum_probs=95.2
Q ss_pred HHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCc-eEEEE
Q 019110 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP-IEVNL 96 (346)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~e~ 96 (346)
++|+.+++++|++++++|.+ |+|+++|+++++++||++++++|+++.++.++++.......+.+.+..+.. ...+.
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 47899999999999999986 999999999999999999999999999888877655566777777776654 34445
Q ss_pred EeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecc
Q 019110 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (346)
Q Consensus 97 ~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DI 133 (346)
....++|+.+|+.++++|+++ .+|.+.+++++++||
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 555579999999999999999 899999999999997
No 13
>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=99.65 E-value=1.6e-15 Score=108.83 Aligned_cols=102 Identities=19% Similarity=0.343 Sum_probs=86.9
Q ss_pred HHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCce-EEEE
Q 019110 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRI 319 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~ 319 (346)
++++.++++++++++++|. +|+|+++|+++++++||++++++|+++..++++++.......+...+..+... ..+.
T Consensus 1 e~~~~i~~~~~~~i~~~d~---~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (113)
T PF00989_consen 1 ERYRAILENSPDGIFVIDE---DGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESGESFEV 77 (113)
T ss_dssp HHHHHHHHCSSSEEEEEET---TSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHECEEEE
T ss_pred CHHHHHHhcCCceEEEEeC---cCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCceeEEE
Confidence 3588999999999999998 99999999999999999999999999999988887666777777777666654 4455
Q ss_pred EeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 320 LNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
+...++|+.+|+.++++|+.+.+|++
T Consensus 78 ~~~~~~g~~~~~~~~~~~~~~~~~~~ 103 (113)
T PF00989_consen 78 RFRLRDGRPRWVEVRASPVRDEDGQI 103 (113)
T ss_dssp EEEETTSCEEEEEEEEEEEEETTEEE
T ss_pred EEEecCCcEEEEEEEEEEEEeCCCCE
Confidence 55557999999999999999998864
No 14
>PRK10060 RNase II stability modulator; Provisional
Probab=99.63 E-value=1.4e-15 Score=141.54 Aligned_cols=165 Identities=13% Similarity=0.126 Sum_probs=127.6
Q ss_pred hHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCccc-CCCCChhhHHHHHHHHhcCCceEE
Q 019110 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQ-GPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
...+++.+++.++++++++|.+ |+|+++|+++++++||+.++++|+++..++ ++.+.......+...+..+..+..
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 4456788999999999999997 999999999999999999999999975554 444444445566677777888889
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCC-ceeEEEEEeecccccccccccc-ccccccCCCCcchhhhccchhhhhhcchh
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDG-RATHFVAVQVPIVSRKHMRNSG-MSYSEDGGGSRLREIVFGSCRREVCSDSL 172 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g-~~~~~~~~~~DIT~~k~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (346)
+.+..+++|..+|+..... +.+ ..| ...+++++.+|||++|++++++ ..+.+|++|+++|+..|....+..+....
T Consensus 186 e~~~~~~~G~~~~~~~~~~-~~~-~~g~~~~~~i~~~~DITe~k~~e~~l~~~a~~D~LTGL~NR~~f~~~l~~~l~~~~ 263 (663)
T PRK10060 186 ERWIKTRKGQRLFLFRNKF-VHS-GSGKNEIFLICSGTDITEERRAQERLRILANTDSITGLPNRNAIQELIDHAINAAD 263 (663)
T ss_pred EEEEEeCCCCEEEEEeeeE-EEc-CCCCceEEEEEEEEechHHHHHHHHHHHHhhcCccCCCcCHHHHHHHHHHHHHhCC
Confidence 9999999999888765443 343 344 3456889999999999997777 44578999999999999988887764333
Q ss_pred hhhHhhhhcccCC
Q 019110 173 LDLDRVLALDSDD 185 (346)
Q Consensus 173 ~~~~~~~~~~~~~ 185 (346)
......+.++++.
T Consensus 264 ~~~~~ll~idld~ 276 (663)
T PRK10060 264 NNQVGIVYLDLDN 276 (663)
T ss_pred CCcEEEEEEECcc
Confidence 3344455556554
No 15
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.57 E-value=3.6e-14 Score=135.64 Aligned_cols=124 Identities=15% Similarity=0.199 Sum_probs=110.0
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
+++++++.+++++|++++++|.+ |+++++|+++++++||+.++++|+++.+++++.............+..+.+...
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 56678999999999999999997 999999999999999999999999988888776555555666667777778888
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNS 142 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~ 142 (346)
+.....++|..+|+.++..|+++ .+|.+.|++++++|||++|++++.
T Consensus 229 e~~~~~~~G~~~~~~~~~~pi~~-~~g~~~g~v~~~~DITe~k~~e~~ 275 (779)
T PRK11091 229 EQWLDYPDGRKACFELRKVPFYD-RVGKRHGLMGFGRDITERKRYQDA 275 (779)
T ss_pred EEEEEcCCCCEEEEEEEeeeEEc-CCCCEEEEEEEEeehhHHHHHHHH
Confidence 88889999999999999999999 899999999999999999998443
No 16
>PRK13559 hypothetical protein; Provisional
Probab=99.56 E-value=6.2e-14 Score=122.04 Aligned_cols=125 Identities=38% Similarity=0.676 Sum_probs=108.2
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
.+...++.+++.++++++++|.+.+++.++++|+++++++||+.++++|+++..+.++.........+...+..+..+..
T Consensus 40 ~~~~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 119 (361)
T PRK13559 40 ASGRLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREIVV 119 (361)
T ss_pred hhhhHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCceEE
Confidence 34667888999999999999985335789999999999999999999999987776666666666667777777878888
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~ 140 (346)
+....+++|..+|+.++..|+++ .+|.+.+++++++|||++|+++
T Consensus 120 e~~~~~~dG~~~~~~~~~~~i~d-~~G~~~~~v~~~~DITerk~~e 164 (361)
T PRK13559 120 ELLNYRKDGEPFWNALHLGPVYG-EDGRLLYFFGSQWDVTDIRAVR 164 (361)
T ss_pred EEEEEcCCCCEEEEEEEEEEEEc-CCCCEEEeeeeeeehhcchhhH
Confidence 88888999999999999999999 8999999999999999999873
No 17
>PRK13557 histidine kinase; Provisional
Probab=99.55 E-value=4.7e-14 Score=129.66 Aligned_cols=128 Identities=37% Similarity=0.672 Sum_probs=112.9
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
..+..|+.+++.++.+++++|.+.+||+|+|+|++|++++||+.++++|+++..+.++.........+...+..+..+..
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 56788999999999999999975446999999999999999999999999988888777767777777788888877778
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSG 143 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~ 143 (346)
+++..+++|..+|+.++..|+++ .+|.+.+++++.+|||+++++++.+
T Consensus 107 ~~~~~~~~G~~~~~~~~~~~i~~-~~g~~~~~~~~~~dit~~~~~e~~l 154 (540)
T PRK13557 107 EILNYRKDGSSFWNALFVSPVYN-DAGDLVYFFGSQLDVSRRRDAEDAL 154 (540)
T ss_pred EEEEEeCCCCEEEEEEEEEEeEC-CCCCEEEEEEEecChHHHHHHHHHH
Confidence 88888999999999999999999 8999999999999999999885443
No 18
>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=99.53 E-value=3.6e-14 Score=97.41 Aligned_cols=80 Identities=25% Similarity=0.367 Sum_probs=68.8
Q ss_pred eeeecHhHHHHcCCChhhhhcCC----ccccccCCcchhHHHHHHH-HHhcCCceEEEEEeEecCCCeEEEEEEeeeeec
Q 019110 266 MVYASDAFLKLTGYDRNEVVGQN----CRFLNGVDTDTTVLYQIKE-SIQTEQACTVRILNYRKDKSSFWNLLHISPIRN 340 (346)
Q Consensus 266 i~~~N~~~~~l~G~~~~e~~g~~----~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~d 340 (346)
|+|+|+.+++++||+++++ +.. +..++||+|...+...+.. ....+.++..++|++++||+++|++.++.+++|
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 7788999999999999999 778888999999999999999999999999999
Q ss_pred CCCccC
Q 019110 341 ASGKVL 346 (346)
Q Consensus 341 ~~G~v~ 346 (346)
++|+++
T Consensus 80 ~~g~~~ 85 (91)
T PF08447_consen 80 ENGKPI 85 (91)
T ss_dssp TTS-EE
T ss_pred CCCCEE
Confidence 999863
No 19
>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=99.53 E-value=8.9e-14 Score=99.12 Aligned_cols=95 Identities=24% Similarity=0.357 Sum_probs=85.9
Q ss_pred HhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCC
Q 019110 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDK 326 (346)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 326 (346)
++++|++++++|. +|+|+++|+++++++|++.++++|+++.+++++...+.+...+.+++.++.+...+..... +|
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 5789999999999 9999999999999999999999999999988888888899999999999888877766555 99
Q ss_pred CeEEEEEEeeeeecCCCcc
Q 019110 327 SSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 327 ~~~~~~~~~~~i~d~~G~v 345 (346)
..+|+.++++|++|.+|++
T Consensus 77 ~~~~~~~~~~Pi~~~~g~~ 95 (110)
T PF08448_consen 77 EERWFEVSISPIFDEDGEV 95 (110)
T ss_dssp CEEEEEEEEEEEECTTTCE
T ss_pred CcEEEEEEEEEeEcCCCCE
Confidence 9999999999999999975
No 20
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.45 E-value=7.2e-13 Score=124.53 Aligned_cols=125 Identities=38% Similarity=0.695 Sum_probs=108.7
Q ss_pred HHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 019110 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (346)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 98 (346)
.++.+++.+|.++++.|...+++.++++|+++++++||++++++|+++..+.++.........+...+..+.+...+++.
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 45789999999999998643459999999999999999999999999877777766666666677777778888899999
Q ss_pred eeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccc
Q 019110 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGM 144 (346)
Q Consensus 99 ~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~ 144 (346)
++++|..+|+.++..|+.+ .+|.+.+++++.+|||++|++++++.
T Consensus 229 ~~~dG~~~~~~~~~~pi~d-~~G~~~~~vgi~~DITerk~~E~~L~ 273 (665)
T PRK13558 229 YRKDGSTFWNQVDIAPIRD-EDGTVTHYVGFQTDVTERKEAELALQ 273 (665)
T ss_pred ECCCCCEEEEEEEEEEEEC-CCCCEEEEEEEEEeCcHHHHHHHHHH
Confidence 9999999999999999999 89999999999999999999866553
No 21
>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=99.41 E-value=1.4e-12 Score=89.51 Aligned_cols=86 Identities=26% Similarity=0.464 Sum_probs=73.3
Q ss_pred EEEEehhHHhhhCCCchhhcCCC----CCcccCCCCChhhHHHHHH-HHhcCCceEEEEEeeeCCCCeEEEEeeeccccc
Q 019110 43 IVFASRGFLKMSGFSRAEIIGRN----GRMFQGPRTNRRTIMEIRE-AIREERPIEVNLLNYKKDGTPFWMLFKMSLVFG 117 (346)
Q Consensus 43 i~~~N~~~~~l~G~~~~e~~g~~----~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~ 117 (346)
|+++|+++++++||+++++ +.. +..+++|++...+...+.+ ....+..+..++++++++|+.+|+..++.++++
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 655 6778899999999999988 677788999999999999999999999999999
Q ss_pred CCCCceeEEEEEe
Q 019110 118 KEDGRATHFVAVQ 130 (346)
Q Consensus 118 ~~~g~~~~~~~~~ 130 (346)
.+|++.+++|++
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 22
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=99.40 E-value=4e-12 Score=111.10 Aligned_cols=88 Identities=20% Similarity=0.277 Sum_probs=79.9
Q ss_pred EEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEEE
Q 019110 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLL 333 (346)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~ 333 (346)
+|+.-... |-+|+||.+.+.+++||+++|++|+++.+++|+.|...+.......+..|....+.||+..|+|.+.|++.
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 88999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EeeeeecCC
Q 019110 334 HISPIRNAS 342 (346)
Q Consensus 334 ~~~~i~d~~ 342 (346)
.++.|.+..
T Consensus 354 qATVi~~tk 362 (768)
T KOG3558|consen 354 QATVIYNTK 362 (768)
T ss_pred eeEEEecCC
Confidence 999998653
No 23
>PRK13557 histidine kinase; Provisional
Probab=99.40 E-value=3e-12 Score=117.77 Aligned_cols=106 Identities=40% Similarity=0.835 Sum_probs=95.1
Q ss_pred hHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEE
Q 019110 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (346)
Q Consensus 240 ~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (346)
...|..+++.++++|+++|....+|+|+|+|++|++++||+.+|++|+++..+.+|++.......+...+..+..+..++
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 45688899999999999996433799999999999999999999999999988888887777888888888888888899
Q ss_pred EeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 320 LNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
+..+++|+.+|+.+++.|+.+.+|.+
T Consensus 109 ~~~~~~G~~~~~~~~~~~i~~~~g~~ 134 (540)
T PRK13557 109 LNYRKDGSSFWNALFVSPVYNDAGDL 134 (540)
T ss_pred EEEeCCCCEEEEEEEEEEeECCCCCE
Confidence 99999999999999999999998875
No 24
>PRK13559 hypothetical protein; Provisional
Probab=99.34 E-value=1.3e-11 Score=107.48 Aligned_cols=105 Identities=42% Similarity=0.834 Sum_probs=91.5
Q ss_pred HHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEE
Q 019110 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (346)
..+..++++++++++++|...++|.++++|++|++++||+.++++|+++..+.++.+.......+...+..+..+..+.+
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 34778899999999999974336789999999999999999999999988777766666667777788888888889999
Q ss_pred eEecCCCeEEEEEEeeeeecCCCcc
Q 019110 321 NYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
.+++||..+|+.++..|+++.+|++
T Consensus 123 ~~~~dG~~~~~~~~~~~i~d~~G~~ 147 (361)
T PRK13559 123 NYRKDGEPFWNALHLGPVYGEDGRL 147 (361)
T ss_pred EEcCCCCEEEEEEEEEEEEcCCCCE
Confidence 9999999999999999999999875
No 25
>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=99.33 E-value=2.3e-11 Score=86.67 Aligned_cols=117 Identities=21% Similarity=0.349 Sum_probs=93.2
Q ss_pred HHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcC-CceEEEE
Q 019110 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIEVNL 96 (346)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~ 96 (346)
+.++.+++.++.+++++|.+ +.++++|+++++++|++..+++|..+..+.++.........+......+ .......
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~---~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLE---GNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCceEEEEcCC---CcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 46778999999999999997 9999999999999999999999988777666655555555555555533 2334455
Q ss_pred EeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 97 ~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
.+...+|..+|+.....|+.. +|...++++++.|||+++++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~dit~~~~~ 120 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIRT--NGGELGVVGIVRDITERKQA 120 (124)
T ss_pred eeEcCCCCEEEEEEEEeehhh--CCCeeEEEEEeeehhHHHHH
Confidence 556789999999999988863 67788999999999999887
No 26
>PRK10060 RNase II stability modulator; Provisional
Probab=99.27 E-value=2.6e-11 Score=113.27 Aligned_cols=97 Identities=13% Similarity=0.129 Sum_probs=79.4
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccc-cCCcchhHHHHHHHHHhcCCceEEEEEe
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN-GVDTDTTVLYQIKESIQTEQACTVRILN 321 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 321 (346)
++.+++.++++|+++|. +|+|+++|+++++++||+.++++|+++..++ ++.+.......+...+..+..|..|.+.
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 45568899999999999 9999999999999999999999999976554 5555555666677778888889999999
Q ss_pred EecCCCeEEEEEEeeeeecCCC
Q 019110 322 YRKDKSSFWNLLHISPIRNASG 343 (346)
Q Consensus 322 ~~~dG~~~~~~~~~~~i~d~~G 343 (346)
++++|..+|+.... ++.+.+|
T Consensus 190 ~~~~G~~~~~~~~~-~~~~~~g 210 (663)
T PRK10060 190 KTRKGQRLFLFRNK-FVHSGSG 210 (663)
T ss_pred EeCCCCEEEEEeee-EEEcCCC
Confidence 99999999976554 4444444
No 27
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.25 E-value=1.3e-11 Score=118.28 Aligned_cols=109 Identities=16% Similarity=0.051 Sum_probs=97.0
Q ss_pred CCccchhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCC
Q 019110 234 PGMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ 313 (346)
Q Consensus 234 ~~l~~~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~ 313 (346)
..+...+..+..+++++|++|+++|. +|+|+++|+++++++||+.++++|+++.++++++............+..+.
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 34455666789999999999999999 999999999999999999999999998888888777777777777778888
Q ss_pred ceEEEEEeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 314 ACTVRILNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 314 ~~~~e~~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
++..+.+..++||+.+|+.++.+|+.+.+|++
T Consensus 225 ~~~~e~~~~~~~G~~~~~~~~~~pi~~~~g~~ 256 (779)
T PRK11091 225 SLTYEQWLDYPDGRKACFELRKVPFYDRVGKR 256 (779)
T ss_pred CeEEEEEEEcCCCCEEEEEEEeeeEEcCCCCE
Confidence 89999999999999999999999999998874
No 28
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.23 E-value=5.9e-11 Score=114.34 Aligned_cols=122 Identities=19% Similarity=0.298 Sum_probs=102.0
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccC-CCCChhhHHHHHHHHhcCCceE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQG-PRTNRRTIMEIREAIREERPIE 93 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~ 93 (346)
+....+..+++.++.+++++|.+ |+++++|+++++++||+.++++|+++..+.+ +.........+...+..+..+.
T Consensus 133 ~~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 209 (799)
T PRK11359 133 EQTRQLIIAVDHLDRPVIVLDPE---RRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQ 209 (799)
T ss_pred HHHHHHHHHHhcCCCcEEEEcCC---CcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCc
Confidence 34456677899999999999996 9999999999999999999999998765544 4444444455666666666677
Q ss_pred EEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccc
Q 019110 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (346)
Q Consensus 94 ~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~ 140 (346)
.+.+..+++|..+|+.++..|+.+ .+|.+.+++++.+|||++|+++
T Consensus 210 ~e~~~~~~dG~~~~~~~~~~~v~d-~~g~~~~~~~~~~DITerk~~e 255 (799)
T PRK11359 210 DEFLLLTRTGEKIWIKASISPVYD-VLAHLQNLVMTFSDITEERQIR 255 (799)
T ss_pred ceeEEeCCCCCEEEEEeeeeeeec-CCCceeEEEEEeehhhhHHHHH
Confidence 788888999999999999999999 8999999999999999999874
No 29
>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=99.21 E-value=2.4e-10 Score=80.50 Aligned_cols=87 Identities=17% Similarity=0.126 Sum_probs=75.3
Q ss_pred EEEEcCCCCCCCeeeecHh-HHHHcCCChhhhhcCCccccccCCcchh-HHHHHHHHHhcCCceEEEEEeEecCCCeEEE
Q 019110 254 FVLIDPHLPDMPMVYASDA-FLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQIKESIQTEQACTVRILNYRKDKSSFWN 331 (346)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~-~~~l~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 331 (346)
+...+. ||+|+++-+. ...++||.++|++|+++..++||+|... ........+..|.....-+|++.|+|.+.|+
T Consensus 5 ~trhs~---dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~g~~vwv 81 (111)
T PF14598_consen 5 TTRHSL---DGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKNGGYVWV 81 (111)
T ss_dssp EEEEET---TSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TTSSEEEE
T ss_pred EEEECC---CcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecCCcEEEE
Confidence 344566 9999999999 6999999999999999999999999996 7778888888899888889999999999999
Q ss_pred EEEeeeeecCCC
Q 019110 332 LLHISPIRNASG 343 (346)
Q Consensus 332 ~~~~~~i~d~~G 343 (346)
...+.++.++..
T Consensus 82 qt~~~~~~n~~~ 93 (111)
T PF14598_consen 82 QTKATLFYNPWT 93 (111)
T ss_dssp EEEEEEEEETTT
T ss_pred EEEEEEEECCCC
Confidence 999999987543
No 30
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=99.14 E-value=3.7e-10 Score=79.64 Aligned_cols=106 Identities=21% Similarity=0.272 Sum_probs=73.3
Q ss_pred HHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEee
Q 019110 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (346)
Q Consensus 20 ~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (346)
++.+++++|.+++++|.+ ++|.++|+++.++++..+.+ +|+++..+.++...+.....+ +.+..+.....+...
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 467899999999999997 99999999999999987654 699988887664444444444 444455443333333
Q ss_pred eCCCCeEEEEeeecccccCCCCceeEEEEEeeccc
Q 019110 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (346)
Q Consensus 100 ~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT 134 (346)
..+| +|+.++..|+++ .+|...|++.++.|||
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 2344 467889999999 8999999999999998
No 31
>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=99.13 E-value=1.5e-10 Score=105.15 Aligned_cols=102 Identities=25% Similarity=0.452 Sum_probs=90.1
Q ss_pred HHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEE
Q 019110 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (346)
+.++.++++++++++++|. +|+++++|+++++++||++++++|++...+.++.........+...+..+.++..+++
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 4588899999999999999 9999999999999999999999999877676666666667777777777888888888
Q ss_pred eEecCCCeEEEEEEeeeeecCCCcc
Q 019110 321 NYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
.++++|+.+|+..+..|+.+.+|++
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~~~g~~ 105 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLNEAGET 105 (494)
T ss_pred ccCCCccchhhheeeEEEECCCCCE
Confidence 8999999999999999999988875
No 32
>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=99.12 E-value=2e-09 Score=73.03 Aligned_cols=103 Identities=21% Similarity=0.404 Sum_probs=85.3
Q ss_pred CCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCCCeE
Q 019110 27 LPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPF 106 (346)
Q Consensus 27 ~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg~~~ 106 (346)
++.+++++|.+ +.++++|++++.++|++..+++|.....+.++.+.......+......+.....+......+|..+
T Consensus 1 ~~~~i~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (103)
T cd00130 1 LPDGVIVLDLD---GRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVI 77 (103)
T ss_pred CCceEEEECCC---CcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEE
Confidence 46789999997 999999999999999999999998877777766665555666666655566677778888889999
Q ss_pred EEEeeecccccCCCCceeEEEEEeecc
Q 019110 107 WMLFKMSLVFGKEDGRATHFVAVQVPI 133 (346)
Q Consensus 107 ~~~~~~~~~~~~~~g~~~~~~~~~~DI 133 (346)
|+.+...++.+ ..|...+++++..||
T Consensus 78 ~~~~~~~~~~~-~~~~~~~~~~~~~di 103 (103)
T cd00130 78 WVLVSLTPIRD-EGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEEec-CCCCEEEEEEEEecC
Confidence 99999999988 778888999988886
No 33
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.11 E-value=7e-10 Score=104.49 Aligned_cols=103 Identities=42% Similarity=0.806 Sum_probs=90.8
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeE
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (346)
+..+++.++.++++.|...++|.++++|+++++++||++++++|+++..+.++.+.......+...+..+.++..+++.+
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 46788999999999985433799999999999999999999999998888877777667777778888888899999999
Q ss_pred ecCCCeEEEEEEeeeeecCCCcc
Q 019110 323 RKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 323 ~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
++||..+|+.++..|+.+.+|++
T Consensus 230 ~~dG~~~~~~~~~~pi~d~~G~~ 252 (665)
T PRK13558 230 RKDGSTFWNQVDIAPIRDEDGTV 252 (665)
T ss_pred CCCCCEEEEEEEEEEEECCCCCE
Confidence 99999999999999999998875
No 34
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=99.10 E-value=3.9e-10 Score=97.61 Aligned_cols=186 Identities=20% Similarity=0.191 Sum_probs=130.2
Q ss_pred HHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeee
Q 019110 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYK 100 (346)
Q Consensus 21 ~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 100 (346)
+.+++.+++++++++.. ..+..+|..+..+++-....++|+++..+.++...+... .+...........
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 45889999999999997 899999999999999999999999877776654433332 2222222223333
Q ss_pred CCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccccccccccCCCCcchhhhccchhhhhhcchhhhhHhhhh
Q 019110 101 KDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLA 180 (346)
Q Consensus 101 ~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 180 (346)
+ + ...+.+...|+ + +.+++.|++.++.|+++....
T Consensus 73 ~-~-~~~~~~~~~~~-~-~~~~~~g~~~~~~~~~e~~~~----------------------------------------- 107 (560)
T COG3829 73 K-V-KRIVVVGKTPV-D-EQGRVVGVLEVFLDISEALEL----------------------------------------- 107 (560)
T ss_pred c-c-eeEEEcCCcee-e-cCCceeeeehhhhhhHHHHHH-----------------------------------------
Confidence 3 2 33344445555 4 588999999999999985443
Q ss_pred cccCCCCCCccccchhhHHHHHHHhhhhhhHHHhhhhcccccCeEEeeeEecCCCccchhHHHHHHHhccCCcEEEEcCC
Q 019110 181 LDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPH 260 (346)
Q Consensus 181 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~i~~~d~~ 260 (346)
.... +......|..+++.+.++++++|.
T Consensus 108 -----------------~~~~----------------------------------l~~~~~~l~~il~~~~~~l~vvD~- 135 (560)
T COG3829 108 -----------------IEEN----------------------------------LRQLRQRLEAILDSIDDGLLVVDE- 135 (560)
T ss_pred -----------------HHHH----------------------------------HHHHHHHHHHHHhhccCceEEEcC-
Confidence 0000 011223377889999999999999
Q ss_pred CCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEE
Q 019110 261 LPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (346)
Q Consensus 261 ~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (346)
+|.++++|+++.+++|+++++++|++..++...... ....+++..+++......
T Consensus 136 --~G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~~----s~~l~vl~~~kp~~~~~~ 189 (560)
T COG3829 136 --DGIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGED----STLLEVLRTGKPIRDVVQ 189 (560)
T ss_pred --CCcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccCC----ceehhhhhcCCcceeeee
Confidence 999999999999999999999999997776511111 233456667777655443
No 35
>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=2.2e-09 Score=75.65 Aligned_cols=97 Identities=16% Similarity=0.280 Sum_probs=82.5
Q ss_pred CCCEEEEehh-HHhhhCCCchhhcCCCCCcccCCCCChh-hHHHHHHHHhcCCceEEEEEeeeCCCCeEEEEeeeccccc
Q 019110 40 GHPIVFASRG-FLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFG 117 (346)
Q Consensus 40 d~~i~~~N~~-~~~l~G~~~~e~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~ 117 (346)
||+|+++.+. ...++||.++|++|+++.++.+|+|... ......+.+..|.....-+|+..++|.++|+...+.++.+
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 5999999999 5999999999999999999999999886 7777888888888877789999999999999999999987
Q ss_pred CCCCceeEEEEEeeccccc
Q 019110 118 KEDGRATHFVAVQVPIVSR 136 (346)
Q Consensus 118 ~~~g~~~~~~~~~~DIT~~ 136 (346)
|..+++..++++..=|++.
T Consensus 91 ~~~~~~~~Iv~~n~vlse~ 109 (111)
T PF14598_consen 91 PWTSKPEFIVCTNTVLSEE 109 (111)
T ss_dssp TTTTCEEEEEEEEEEESCE
T ss_pred CCCCCccEEEEEEEEeccC
Confidence 5677888788776655553
No 36
>PF12860 PAS_7: PAS fold
Probab=99.08 E-value=6.8e-10 Score=79.57 Aligned_cols=104 Identities=20% Similarity=0.342 Sum_probs=72.0
Q ss_pred HhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhh-cCCCCCccc---------CCCCChhhHHHHHHHHhcCCceE
Q 019110 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEI-IGRNGRMFQ---------GPRTNRRTIMEIREAIREERPIE 93 (346)
Q Consensus 24 ~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~-~g~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~ 93 (346)
+++++.|++++|.+ ++++++|++|.+++|++.+.+ .|.+...+. .+.....................
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 57899999999997 999999999999999999887 677644332 11222222233333333333333
Q ss_pred EEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccc
Q 019110 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (346)
Q Consensus 94 ~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~ 140 (346)
.+ ....||. |+.++..|..+ | |++.++.|||+++++|
T Consensus 78 ~~--~~~~dgr--~l~~~~~~~~~---G---g~v~~~~DVT~~~~~E 114 (115)
T PF12860_consen 78 FE--LRLPDGR--WLEVRAQPLPD---G---GFVLTFTDVTERRRAE 114 (115)
T ss_pred eE--EECCCCE--EEEEEeEECCC---C---CEEEEEEeCCHHHHhc
Confidence 33 3457775 67788888843 4 6788999999999883
No 37
>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=99.05 E-value=4.1e-09 Score=71.45 Aligned_cols=91 Identities=24% Similarity=0.438 Sum_probs=78.0
Q ss_pred CCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEE
Q 019110 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (346)
Q Consensus 251 ~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 330 (346)
+++++++|. ++.++++|+++++++|++..+++|..+..++++.+.......+......+..+..+++...++|..+|
T Consensus 2 ~~~i~~~d~---~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (103)
T cd00130 2 PDGVIVLDL---DGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIW 78 (103)
T ss_pred CceEEEECC---CCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEEE
Confidence 578999999 99999999999999999999999999878888777766666666666666677788888889999999
Q ss_pred EEEEeeeeecCCCc
Q 019110 331 NLLHISPIRNASGK 344 (346)
Q Consensus 331 ~~~~~~~i~d~~G~ 344 (346)
+.+...++.+.+|.
T Consensus 79 ~~~~~~~~~~~~~~ 92 (103)
T cd00130 79 VLVSLTPIRDEGGE 92 (103)
T ss_pred EEEEEEEEecCCCC
Confidence 99999999887664
No 38
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=99.02 E-value=1.4e-08 Score=94.65 Aligned_cols=93 Identities=12% Similarity=0.173 Sum_probs=68.9
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeE
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (346)
+..++++++++|+++|. +|+|+++|+++++++|++.++++|+++..+++.. ..+...+..+..+.......
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 9999999999999999999999999977776321 12334455555544333333
Q ss_pred ecCCCeEEEEEEeeeeecCCCc
Q 019110 323 RKDKSSFWNLLHISPIRNASGK 344 (346)
Q Consensus 323 ~~dG~~~~~~~~~~~i~d~~G~ 344 (346)
..+|..+++.++..|+.+..|.
T Consensus 276 ~~~g~~~~~~v~~~Pi~~~~g~ 297 (638)
T PRK11388 276 ESQGQFIDAVITLKPIIEGQGT 297 (638)
T ss_pred ecCCceEEEEEEEEeecccCce
Confidence 4567778889999999765443
No 39
>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=99.02 E-value=1.8e-09 Score=92.86 Aligned_cols=108 Identities=13% Similarity=0.091 Sum_probs=83.7
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
+..++++.+++.+|+|++++|.+ |+++++|+++++++|+++++.+|+++..+..+. .+...+..+.. ..
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 45667899999999999999997 999999999999999999999999876665432 22333333222 22
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
......++|..+|+.+...|+.+ .. ++++++|||++++.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~p~~~-~~-----~~~~~~dit~~~~~ 110 (333)
T TIGR02966 72 PLELPSPINSERVLEIRIAPYGE-EQ-----KLLVARDVTRLRRL 110 (333)
T ss_pred CeEeecCCCCceEEEEEEEEcCC-Cc-----eEEEEeCchHHHHH
Confidence 24455578888999999999876 32 67889999999887
No 40
>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=99.01 E-value=4.6e-09 Score=74.46 Aligned_cols=100 Identities=24% Similarity=0.385 Sum_probs=80.0
Q ss_pred HHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcC-CceEEEE
Q 019110 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE-QACTVRI 319 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~e~ 319 (346)
..+..+++.++.+++++|. ++.++++|+++++++|++..+++|+.+..+.++.+.......+...+..+ .....++
T Consensus 3 ~~~~~~~~~~~~~~~~~d~---~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDL---EGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCceEEEEcC---CCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 3567789999999999999 99999999999999999999999998877777766666555565655533 3344556
Q ss_pred EeEecCCCeEEEEEEeeeeecCCCc
Q 019110 320 LNYRKDKSSFWNLLHISPIRNASGK 344 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~d~~G~ 344 (346)
.+..++|..+|+..+..|+. .+|.
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~-~~~~ 103 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIR-TNGG 103 (124)
T ss_pred eeEcCCCCEEEEEEEEeehh-hCCC
Confidence 66688999999999999988 5554
No 41
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.96 E-value=5.8e-09 Score=97.37 Aligned_cols=122 Identities=14% Similarity=0.179 Sum_probs=97.7
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCC-ceE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-PIE 93 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 93 (346)
.....++.+++.++++++++|.+ ++++++|+++++++||++++++|+++..++++.. .....+...+..+. ...
T Consensus 259 ~~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 333 (607)
T PRK11360 259 ETRSLNELILESIADGVIAIDRQ---GKITTMNPAAEVITGLQRHELVGKPYSELFPPNT--PFASPLLDTLEHGTEHVD 333 (607)
T ss_pred HHHHHHHHHHHhccCeEEEEcCC---CCEEEECHHHHHHhCCChHHhcCCcHHHHcCCch--hHHHHHHHHHhcCCCccc
Confidence 34567788999999999999996 9999999999999999999999998777766432 22334444555443 334
Q ss_pred EEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccccccc
Q 019110 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSG 143 (346)
Q Consensus 94 ~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~ 143 (346)
.++.+..++|... +.++..|+.+ .+|.+.+++++++|||+++++++++
T Consensus 334 ~~~~~~~~~~~~~-~~~~~~~i~~-~~g~~~~~i~~~~Dite~~~~e~~l 381 (607)
T PRK11360 334 LEISFPGRDRTIE-LSVSTSLLHN-THGEMIGALVIFSDLTERKRLQRRV 381 (607)
T ss_pred eEEEEEcCCCcEE-EEEEEeeEEc-CCCCEEEEEEEEeechHHHHHHHHH
Confidence 5667777788776 8899999999 8999999999999999999985554
No 42
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.89 E-value=7.5e-09 Score=89.72 Aligned_cols=113 Identities=13% Similarity=0.135 Sum_probs=85.5
Q ss_pred HHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEE
Q 019110 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (346)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (346)
..++.+++++|+|++++|.+ ++|+++|+++++++||+.++++|+++.++.+... .....+...+..+........
T Consensus 7 ~~~~~il~~~~~gi~~~d~~---~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 81 (348)
T PRK11073 7 PDAGQILNSLINSILLLDDD---LAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFS--LNIELMRESLQAGQGFTDNEV 81 (348)
T ss_pred chHHHHHhcCcCeEEEECCC---CeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcch--hhHHHHHHHHHcCCcccccce
Confidence 45688999999999999996 9999999999999999999999998777765432 122334455555544333333
Q ss_pred eeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccccc
Q 019110 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRN 141 (346)
Q Consensus 98 ~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~ 141 (346)
...++|..+|+.++..|+.. .+++..++|+|++++.++
T Consensus 82 ~~~~~g~~~~~~~~~~~~~~------~~~~~~~~dit~~~~~~~ 119 (348)
T PRK11073 82 TLVIDGRSHILSLTAQRLPE------GMILLEMAPMDNQRRLSQ 119 (348)
T ss_pred EEEECCceEEEEEEEEEccC------ceeEEEEechhHHHHHHH
Confidence 44569999999999999853 246778999999887733
No 43
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.84 E-value=2.2e-08 Score=86.72 Aligned_cols=121 Identities=26% Similarity=0.518 Sum_probs=98.0
Q ss_pred HHHHHHHhhCC---CcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCC--CcccCCCCChhhHHHHHHHHhcCCce
Q 019110 18 LWVHEALDELP---DSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNG--RMFQGPRTNRRTIMEIREAIREERPI 92 (346)
Q Consensus 18 ~~~~~~~~~~~---~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (346)
..++.++..+. ..++..+.+.=|+-|+|+|+.||++.||.+.|++.++. ........+....+.+.+.+.+.+.-
T Consensus 14 TFLENiiRRsn~~dtsFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~~~ 93 (971)
T KOG0501|consen 14 TFLENIIRRSNNADTSFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYETN 93 (971)
T ss_pred hHHHHHHhhccCCCcceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhhhc
Confidence 44555555443 34444554444688999999999999999999999873 44445555566778888888888888
Q ss_pred EEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 93 ~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
.+|+..+.++...+|+.+.+.|+++ +...++-+++.+.|||..|+-
T Consensus 94 qfEillyKKN~TPvW~~vqiAPIrN-e~d~VVLfLctFkDIT~~KQP 139 (971)
T KOG0501|consen 94 QFEILLYKKNRTPVWLLVQIAPIRN-EKDKVVLFLCTFKDITALKQP 139 (971)
T ss_pred ceeeEeeecCCCceEEEEEeecccC-CCceEEEEEeecccchhhcCC
Confidence 8999999999999999999999999 999999999999999999876
No 44
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=98.80 E-value=2.3e-08 Score=85.98 Aligned_cols=93 Identities=14% Similarity=0.100 Sum_probs=72.6
Q ss_pred chhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEE
Q 019110 238 FISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTV 317 (346)
Q Consensus 238 ~~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 317 (346)
...+.++.++++++++++++|. +|+++++|+++++++||++++++|+++..+.++.+ +...+..+.. ..
T Consensus 3 ~~~~~l~~~~~~~~~~i~~~d~---~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~-------~~~~l~~~~~-~~ 71 (333)
T TIGR02966 3 ALLSRFRAAAQALPDAVVVLDE---EGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHPE-------FVEYLAAGRF-SE 71 (333)
T ss_pred hHHHHHHHHHHhCcCcEEEECC---CCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCHH-------HHHHHHhccc-CC
Confidence 3456789999999999999999 99999999999999999999999999877765432 2222322222 22
Q ss_pred EEEeEecCCCeEEEEEEeeeeecC
Q 019110 318 RILNYRKDKSSFWNLLHISPIRNA 341 (346)
Q Consensus 318 e~~~~~~dG~~~~~~~~~~~i~d~ 341 (346)
......++|..+|+.++.+|+.+.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~p~~~~ 95 (333)
T TIGR02966 72 PLELPSPINSERVLEIRIAPYGEE 95 (333)
T ss_pred CeEeecCCCCceEEEEEEEEcCCC
Confidence 355566899999999999998764
No 45
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.76 E-value=4e-08 Score=85.19 Aligned_cols=94 Identities=20% Similarity=0.155 Sum_probs=74.1
Q ss_pred HHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEE
Q 019110 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRIL 320 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 320 (346)
..+..+++++++|++++|. +|+|+++|+++++++||+.++++|+++..+.++... ....+...+..+..+..+..
T Consensus 7 ~~~~~il~~~~~gi~~~d~---~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 81 (348)
T PRK11073 7 PDAGQILNSLINSILLLDD---DLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFSL--NIELMRESLQAGQGFTDNEV 81 (348)
T ss_pred chHHHHHhcCcCeEEEECC---CCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcchh--hHHHHHHHHHcCCcccccce
Confidence 3578899999999999999 999999999999999999999999998877654321 22344455555555444444
Q ss_pred eEecCCCeEEEEEEeeeee
Q 019110 321 NYRKDKSSFWNLLHISPIR 339 (346)
Q Consensus 321 ~~~~dG~~~~~~~~~~~i~ 339 (346)
...+||+.+|+.++.+|+.
T Consensus 82 ~~~~~g~~~~~~~~~~~~~ 100 (348)
T PRK11073 82 TLVIDGRSHILSLTAQRLP 100 (348)
T ss_pred EEEECCceEEEEEEEEEcc
Confidence 4567999999999999987
No 46
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.75 E-value=8.6e-08 Score=78.28 Aligned_cols=118 Identities=14% Similarity=0.233 Sum_probs=92.0
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
....++.+++..+.+|++..|.. |+|+.+|..+.+++|.+.++++|++..++..-.+.-. +...+....+...
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 45667999999999999999998 9999999999999999999999998766654433222 2333443333333
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSG 143 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~~ 143 (346)
+. +.+++...++++.+.+.. +.|-+.|++++.+|+|++.+.|++.
T Consensus 181 d~---~~~~E~~~lrv~Fs~i~r-EsGfisGlIaVlhDvTEqek~e~Er 225 (459)
T COG5002 181 DS---SDEEEGYVLRVNFSVIQR-ESGFISGLIAVLHDVTEQEKVERER 225 (459)
T ss_pred ee---cCCCccEEEEEEEEEEee-cccccceeEEEEecccHHHHHHHHH
Confidence 22 226777778888888888 8999999999999999999885554
No 47
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.73 E-value=7.9e-08 Score=67.66 Aligned_cols=95 Identities=16% Similarity=0.246 Sum_probs=64.3
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeE
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (346)
|+.++++++.++.++|. +++|.+.|+++.++|+..+. .+|+++..+.++...+.....+ +.+..++....+...
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 46789999999999999 99999999999999998765 4799999887664444444444 445555554444333
Q ss_pred ecCCCeEEEEEEeeeeecCCCcc
Q 019110 323 RKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 323 ~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
..+| +|+.++..|++|++|++
T Consensus 75 ~~~~--~~~~~~~~P~~~~~g~~ 95 (106)
T PF13596_consen 75 PNGG--RWYLVRYRPYRDEDGEY 95 (106)
T ss_dssp EETT--EEEEEEEEEEE-TTS-E
T ss_pred cCCC--EEEEEEEEEEECCCCCE
Confidence 2444 56678999999999875
No 48
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.68 E-value=3.9e-08 Score=87.76 Aligned_cols=112 Identities=13% Similarity=0.165 Sum_probs=76.7
Q ss_pred HHHHHhhhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhc
Q 019110 9 EQSFNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIRE 88 (346)
Q Consensus 9 e~~~~~~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (346)
++.++ +..++++.+++++|++++++|.+ |+|+++|+++++++||+.++++|+++..+..+.+ . ...+..
T Consensus 90 ~~~l~-~~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~---~----~~~~~~ 158 (430)
T PRK11006 90 RRELG-NLIKRFRSGAESLPDAVVLTTEE---GNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPE---F----TQYLKT 158 (430)
T ss_pred HHHHH-HHHHHHHHHHHhCCCeEEEEcCC---CceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHH---H----HHHHHh
Confidence 33443 56778999999999999999997 9999999999999999999999998665543221 1 111221
Q ss_pred CCceEEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccc
Q 019110 89 ERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (346)
Q Consensus 89 ~~~~~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~ 140 (346)
.. ..........+|. ++.+...|..+ + +++.+.+|||++++.+
T Consensus 159 ~~-~~~~~~~~~~~~~--~~~~~~~~~~~---~---~~~~~~~dit~~~~~e 201 (430)
T PRK11006 159 RD-FSRPLTLVLNNGR--HLEIRVMPYTE---G---QLLMVARDVTQMHQLE 201 (430)
T ss_pred cc-cCCCeEEEcCCCC--EEEEEEEEcCC---C---cEEEEEehhhHHHHHH
Confidence 11 1112222344554 45566667644 2 3567899999998873
No 49
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.67 E-value=2.5e-07 Score=80.64 Aligned_cols=112 Identities=17% Similarity=0.367 Sum_probs=83.7
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
+....|+.+++.+.++++++|.. |.++++|.++..++|++.++++|++..++.....+ ....+.+..+.+...
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 56678999999999999999997 99999999999999999999999986666511111 123355666666544
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
....+..+.. ..+..|++. +|.+.|.+++..|+++.+..
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 3333322221 455667765 78999999999999998877
No 50
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.54 E-value=3.4e-07 Score=82.96 Aligned_cols=109 Identities=14% Similarity=0.138 Sum_probs=79.0
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
+....++.+++++++||+++|.+ |+|+++|+++++++|++.++++|+++..+.+... +.+.+..+.....
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 45667899999999999999997 9999999999999999999999999877765432 2233444433111
Q ss_pred EEEeeeCCCCeEEEEeeecccc--cCCCCce--eEEEEEeecccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVF--GKEDGRA--THFVAVQVPIVSRK 137 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~--~~~~g~~--~~~~~~~~DIT~~k 137 (346)
. .....+|..++ +...|+. + ++|.. .|.+.+++|+++..
T Consensus 147 ~-~~v~~~g~~~~--v~~~PI~~~d-~~g~~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 147 N-EHVVINGQDFL--MEITPVYLQD-ENDQHVLVGAVVMLRSTARMG 189 (520)
T ss_pred e-EEEEECCEEEE--EEEEeeeecC-CCCceeEEEEEEEeccHHHHH
Confidence 1 11234566544 5667776 5 55553 79999999998753
No 51
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.50 E-value=3e-07 Score=79.86 Aligned_cols=94 Identities=36% Similarity=0.752 Sum_probs=80.4
Q ss_pred cEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCC--ccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEE
Q 019110 253 SFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQN--CRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFW 330 (346)
Q Consensus 253 ~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~ 330 (346)
.+++.+++..|.-|+|+|+.||++.||.+.|++.++ +.+.+....+....+.+++++.+-+.-.+|+-+..|+....|
T Consensus 29 sFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~~~qfEillyKKN~TPvW 108 (971)
T KOG0501|consen 29 SFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYETNQFEILLYKKNRTPVW 108 (971)
T ss_pred ceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhhhcceeeEeeecCCCceE
Confidence 455555555578999999999999999999999997 455666666777888999999999999999999999999999
Q ss_pred EEEEeeeeecCCCccC
Q 019110 331 NLLHISPIRNASGKVL 346 (346)
Q Consensus 331 ~~~~~~~i~d~~G~v~ 346 (346)
+.+.+.||+++...|+
T Consensus 109 ~~vqiAPIrNe~d~VV 124 (971)
T KOG0501|consen 109 LLVQIAPIRNEKDKVV 124 (971)
T ss_pred EEEEeecccCCCceEE
Confidence 9999999999887764
No 52
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=98.49 E-value=6.3e-08 Score=81.12 Aligned_cols=103 Identities=20% Similarity=0.313 Sum_probs=87.7
Q ss_pred hHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCcccccc-CCcchhHHHHHHHHHhcCCceEEE
Q 019110 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG-VDTDTTVLYQIKESIQTEQACTVR 318 (346)
Q Consensus 240 ~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~e 318 (346)
+..+..+++....+|=++|. +..|.||||+|+.|+||-+.|++|+...++.. ...+......+...+..|..|+++
T Consensus 156 cnalFaaLD~c~eAiEI~~d---dhViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~ 232 (775)
T KOG1229|consen 156 CNALFAALDECDEAIEICDD---DHVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGE 232 (775)
T ss_pred hHHHHHHHhhhhhhheeccc---hhHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccch
Confidence 34566778888899999998 89999999999999999999999999777743 233556677888889999999999
Q ss_pred EEeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 319 ILNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
+.-++|.|......+..+|+-+..|++
T Consensus 233 ~~aRRksgdS~dqh~~itP~~gqggki 259 (775)
T KOG1229|consen 233 EEARRKSGDSCDQHFIITPFAGQGGKI 259 (775)
T ss_pred HHHhhccCCcccceEEEeeecCCCCce
Confidence 999999999988889999998877765
No 53
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.44 E-value=1.3e-06 Score=81.69 Aligned_cols=99 Identities=19% Similarity=0.200 Sum_probs=78.8
Q ss_pred HHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCc-eEEEE
Q 019110 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA-CTVRI 319 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~e~ 319 (346)
..+..++++++++++++|. +|+++++|+++++++||++++++|+++..++++.. .....+...+..+.. ...++
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 4467789999999999999 99999999999999999999999999888776443 233344455544443 44567
Q ss_pred EeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 320 LNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
++.+++|... +.++..|+.|++|++
T Consensus 337 ~~~~~~~~~~-~~~~~~~i~~~~g~~ 361 (607)
T PRK11360 337 SFPGRDRTIE-LSVSTSLLHNTHGEM 361 (607)
T ss_pred EEEcCCCcEE-EEEEEeeEEcCCCCE
Confidence 7788888877 899999999998865
No 54
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.43 E-value=3.7e-07 Score=57.58 Aligned_cols=42 Identities=24% Similarity=0.438 Sum_probs=35.3
Q ss_pred HHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCC
Q 019110 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNG 66 (346)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~ 66 (346)
++++.+++++|.|++++| . ++|+++|+++++++||+ ..|+..
T Consensus 1 e~~~~l~~~~~~~i~i~d-~---~~i~~~N~~~~~l~g~~---~~~~~~ 42 (64)
T PF13188_consen 1 ERYRSLFDNSPDGILIID-G---GRIIYVNPAFEELFGYS---LEGEDI 42 (64)
T ss_dssp HHHHHHHCCSSSEEEEEE-T---SBEEEE-HHHHHHHCS----HTCCCH
T ss_pred CHHHHHHHcCccceEEEE-C---CChHHhhHHHHHHhCCC---CCCCCH
Confidence 478999999999999999 7 89999999999999998 555543
No 55
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=98.38 E-value=4.4e-06 Score=69.35 Aligned_cols=85 Identities=12% Similarity=0.088 Sum_probs=65.8
Q ss_pred cEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEE
Q 019110 253 SFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (346)
Q Consensus 253 ~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 332 (346)
.+++... |-++++......+++||.+.+++|+.+..++|.-|.......-...+-.|....--+|+..|.|.+.|+.
T Consensus 227 Fmfrasl---DlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwvq 303 (598)
T KOG3559|consen 227 FMFRASL---DLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWVQ 303 (598)
T ss_pred EEEEeec---ceEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceEEEE
Confidence 4555666 8899999999999999999999999988888877766555554455555665555678888999999987
Q ss_pred EEeeeeec
Q 019110 333 LHISPIRN 340 (346)
Q Consensus 333 ~~~~~i~d 340 (346)
...+-+.+
T Consensus 304 syat~vHn 311 (598)
T KOG3559|consen 304 SYATFVHN 311 (598)
T ss_pred EeeEEEec
Confidence 77665554
No 56
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.37 E-value=1.2e-05 Score=63.01 Aligned_cols=120 Identities=24% Similarity=0.367 Sum_probs=87.9
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChh-hHHHHHHHHh-cCCce
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAIR-EERPI 92 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~-~~~~~~~~~~-~~~~~ 92 (346)
....+++.+++.++.+++..|.. +.++++|++++.++|++..+..+.....+........ .......... .....
T Consensus 109 ~~~~~~~~~~~~~~~~~~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 185 (232)
T COG2202 109 ESEERLRALLEASPDGIWVLDED---GRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPL 185 (232)
T ss_pred HHHHHHHHHHhhCCceEEEEeCC---CCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCc
Confidence 44455889999999999999996 9999999999999999988877776554443332221 1122222222 23356
Q ss_pred EEEEEeeeCCCCe-EEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 93 EVNLLNYKKDGTP-FWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 93 ~~e~~~~~~dg~~-~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
..+.....++|.. .++.....+... .|.+.++.....|++++++.
T Consensus 186 ~~~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 186 EIEYRVRRKDGERVRWILSRISPVRD--DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred ceEEEEEecCCCEEEEEEeeeeEecC--CCceEEEEEEEechHHHhhc
Confidence 7788888999995 887777777654 68888899999999998764
No 57
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.34 E-value=2.9e-05 Score=60.71 Aligned_cols=95 Identities=24% Similarity=0.298 Sum_probs=68.5
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchh-HHHHHHH-HHhcCCceEEEEE
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQIKE-SIQTEQACTVRIL 320 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~-~~~~~~~~~~e~~ 320 (346)
+..++++++++++..|. ++.+.++|+++++++||+..+..+.....+........ ....... ..........++.
T Consensus 114 ~~~~~~~~~~~~~~~d~---~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (232)
T COG2202 114 LRALLEASPDGIWVLDE---DGRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLEIEYR 190 (232)
T ss_pred HHHHHhhCCceEEEEeC---CCCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCcceEEE
Confidence 56678888999999999 89999999999999999988888777555443332221 1222222 2233445778889
Q ss_pred eEecCCCe-EEEEEEeeeeec
Q 019110 321 NYRKDKSS-FWNLLHISPIRN 340 (346)
Q Consensus 321 ~~~~dG~~-~~~~~~~~~i~d 340 (346)
...++|.. .|......+..+
T Consensus 191 ~~~~~g~~~~~~~~~~~~~~~ 211 (232)
T COG2202 191 VRRKDGERVRWILSRISPVRD 211 (232)
T ss_pred EEecCCCEEEEEEeeeeEecC
Confidence 99999996 888777777654
No 58
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=98.32 E-value=6.3e-06 Score=71.04 Aligned_cols=86 Identities=16% Similarity=0.127 Sum_probs=74.1
Q ss_pred cEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEE
Q 019110 253 SFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNL 332 (346)
Q Consensus 253 ~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~ 332 (346)
.|+-+..+. |+..+.+......++||...|+.|.+-..++|-+|..-..+...+.+++|.+--..+|..+|+|++.||.
T Consensus 283 ~i~rtKhkl-Dfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~qtk~grw~wvq 361 (712)
T KOG3560|consen 283 AILRTKHKL-DFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQTKAGRWAWVQ 361 (712)
T ss_pred hhhhccccc-ccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCCcceEEEEEeecCCcEEEee
Confidence 344444444 7888888999999999999999999989999999987778888889999999888999999999999999
Q ss_pred EEeeeee
Q 019110 333 LHISPIR 339 (346)
Q Consensus 333 ~~~~~i~ 339 (346)
.++.-++
T Consensus 362 ssarlly 368 (712)
T KOG3560|consen 362 SSARLLY 368 (712)
T ss_pred ccceeee
Confidence 9887776
No 59
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.31 E-value=2.4e-06 Score=77.46 Aligned_cols=92 Identities=14% Similarity=0.146 Sum_probs=66.1
Q ss_pred hHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEE
Q 019110 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (346)
Q Consensus 240 ~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (346)
...+..+++++++||+++|. +|+|+++|+++++++|++.++++|+++..+++... +.+.+..+.+....
T Consensus 79 ~~~L~aIL~sm~eGVi~vD~---~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~-------l~~~le~~~~~~~~- 147 (520)
T PRK10820 79 HRALSALLEALPEPVLSIDM---KGKVELANPASCQLFGQSEEKLRNHTAAQLINGFN-------FLRWLESEPQDSHN- 147 (520)
T ss_pred HHHHHHHHHhCCCcEEEECC---CCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcch-------HHHHHHcCCCccce-
Confidence 33488899999999999999 99999999999999999999999999888876433 22334444331111
Q ss_pred EeEecCCCeEEEEEEeeeee--cCCCc
Q 019110 320 LNYRKDKSSFWNLLHISPIR--NASGK 344 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~--d~~G~ 344 (346)
.....+|..++ +...|+. |++|+
T Consensus 148 ~~v~~~g~~~~--v~~~PI~~~d~~g~ 172 (520)
T PRK10820 148 EHVVINGQDFL--MEITPVYLQDENDQ 172 (520)
T ss_pred EEEEECCEEEE--EEEEeeeecCCCCc
Confidence 12344676655 5567776 65554
No 60
>PF12860 PAS_7: PAS fold
Probab=98.26 E-value=6.3e-06 Score=58.88 Aligned_cols=87 Identities=18% Similarity=0.242 Sum_probs=59.2
Q ss_pred HhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhh-hcCCccccc---------cCCcchhHHHHHHHHHhcCCceE
Q 019110 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEV-VGQNCRFLN---------GVDTDTTVLYQIKESIQTEQACT 316 (346)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~-~g~~~~~l~---------~~~~~~~~~~~~~~~~~~~~~~~ 316 (346)
+++++.||++.|. +++++++|++|.+++|++++.+ .|.++..+. .+.+...................
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 9999999999999999999998 788754443 12232333333333334444444
Q ss_pred EEEEeEecCCCeEEEEEEeeeeec
Q 019110 317 VRILNYRKDKSSFWNLLHISPIRN 340 (346)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~~~~i~d 340 (346)
.+ ...+||. |+.++..|+.+
T Consensus 78 ~~--~~~~dgr--~l~~~~~~~~~ 97 (115)
T PF12860_consen 78 FE--LRLPDGR--WLEVRAQPLPD 97 (115)
T ss_pred eE--EECCCCE--EEEEEeEECCC
Confidence 44 3456775 55677777754
No 61
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.26 E-value=1.8e-06 Score=54.34 Aligned_cols=42 Identities=21% Similarity=0.401 Sum_probs=34.2
Q ss_pred HHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCcc
Q 019110 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCR 290 (346)
Q Consensus 242 ~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~ 290 (346)
.++.+++++|++|+++| . ++|+++|+++++++||+ ..|+.+.
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 57889999999999999 4 49999999999999998 5566543
No 62
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=98.16 E-value=8e-06 Score=75.37 Aligned_cols=112 Identities=10% Similarity=0.136 Sum_probs=77.4
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCc---hhhcCCCCCcccCCCCChhhHHHHHHHHhcCCc
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR---AEIIGRNGRMFQGPRTNRRTIMEIREAIREERP 91 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~---~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 91 (346)
+..+.++.+++++++|++++|.+ |+|+++|+++++++|++. .+.+|+....+.+. ..+...+..+.+
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 34556789999999999999997 999999999999998763 35556554433322 123344455443
Q ss_pred eEEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccccccc
Q 019110 92 IEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNS 142 (346)
Q Consensus 92 ~~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~~ 142 (346)
..... ...+|. ++.+...|+.+ +|.+.|++.+++|+|+.++.+++
T Consensus 288 ~~~~~--~~~~g~--~~~~~~~pi~~--~g~~~g~v~~~rDite~~~l~~~ 332 (542)
T PRK11086 288 RRDEE--ININGR--LLLTNTVPVRV--NGEIIGAIATFRDKTEVRQLAQR 332 (542)
T ss_pred ccceE--EEECCE--EEEEEEEEEeE--CCEEEEEEEEEEEchHHHHHHHH
Confidence 32211 122454 44566789887 78899999999999998877443
No 63
>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=98.07 E-value=8.1e-05 Score=54.47 Aligned_cols=112 Identities=11% Similarity=0.105 Sum_probs=83.5
Q ss_pred HHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEE
Q 019110 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (346)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 97 (346)
..++.+++ .|.+|+-.+.. +|-.++|.|.++.+|++++-+++++.+...-..+.........+.++...|-...+.-.
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 45566666 89999988876 47889999999999999999999999877666555555556667777777754444444
Q ss_pred eeeCCCCeEEEE-eeecccccCCCCceeEEEEEeec
Q 019110 98 NYKKDGTPFWML-FKMSLVFGKEDGRATHFVAVQVP 132 (346)
Q Consensus 98 ~~~~dg~~~~~~-~~~~~~~~~~~g~~~~~~~~~~D 132 (346)
-..+.|+.++++ ..+-.+.| ++|...|.-.++.+
T Consensus 110 Riss~Grrf~ie~a~vW~l~D-~~g~~~GqAa~F~~ 144 (148)
T PF08670_consen 110 RISSTGRRFRIERATVWNLID-EDGNYCGQAAMFSN 144 (148)
T ss_pred EEcCCCCeEEEeceEEEEEEc-CCCCEEEEEEEEee
Confidence 567888888776 35556777 88888877666554
No 64
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=98.00 E-value=6.9e-06 Score=73.05 Aligned_cols=105 Identities=11% Similarity=0.256 Sum_probs=87.3
Q ss_pred EEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCCCeEEEEe
Q 019110 31 FTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLF 110 (346)
Q Consensus 31 i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg~~~~~~~ 110 (346)
.++...+. |-+|+|+.+.+..++||.+++++|++...++|+.|...+.+.....+..|......+|+..++|.++|++.
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 44444433 68999999999999999999999999999999999999999999999999998899999999999999999
Q ss_pred eecccccCCCCceeEEEEEeeccccc
Q 019110 111 KMSLVFGKEDGRATHFVAVQVPIVSR 136 (346)
Q Consensus 111 ~~~~~~~~~~g~~~~~~~~~~DIT~~ 136 (346)
.++.+.+..+++...++++--=|+.+
T Consensus 354 qATVi~~tkn~q~q~IicVnYVlS~~ 379 (768)
T KOG3558|consen 354 QATVIYNTKNPQEQNIICVNYVLSNI 379 (768)
T ss_pred eeEEEecCCCCCcceEEEEEeeeccc
Confidence 99988763345555666665544444
No 65
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=97.97 E-value=1.4e-05 Score=71.39 Aligned_cols=53 Identities=17% Similarity=0.177 Sum_probs=47.4
Q ss_pred hhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCcccccc
Q 019110 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG 294 (346)
Q Consensus 239 ~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~ 294 (346)
....++.+++++|++++++|. +|+|+++|+++++++||+.++++|+++..+..
T Consensus 96 ~~~~~~~~~~~~~~~i~~~d~---~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~ 148 (430)
T PRK11006 96 LIKRFRSGAESLPDAVVLTTE---EGNIFWCNGLAQQLLGFRWPEDNGQNILNLLR 148 (430)
T ss_pred HHHHHHHHHHhCCCeEEEEcC---CCceeHHHHHHHHHhCCCChHhCCCcHHHHhc
Confidence 344588899999999999999 99999999999999999999999999776654
No 66
>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=97.92 E-value=0.00016 Score=52.88 Aligned_cols=102 Identities=15% Similarity=0.092 Sum_probs=77.0
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeE
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (346)
+...+-+.|.+|+-.+... |..++|.|.++.+|++++-+++++.+...-..+..+......+.++...|-.....-.-+
T Consensus 33 ~~~~L~~ap~ailsh~~~~-dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG~~~~y~GiRi 111 (148)
T PF08670_consen 33 LAKALWHAPFAILSHGTKA-DPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQGYIDNYSGIRI 111 (148)
T ss_pred HHHHHHcCCCEEEEcCCCC-CCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhCCccCCCeEEE
Confidence 3344445899999888754 789999999999999999999999998776667667666677777777666544444456
Q ss_pred ecCCCeEEEE-EEeeeeecCCCcc
Q 019110 323 RKDKSSFWNL-LHISPIRNASGKV 345 (346)
Q Consensus 323 ~~dG~~~~~~-~~~~~i~d~~G~v 345 (346)
.+.|..++++ .++=.+.|++|+.
T Consensus 112 ss~Grrf~ie~a~vW~l~D~~g~~ 135 (148)
T PF08670_consen 112 SSTGRRFRIERATVWNLIDEDGNY 135 (148)
T ss_pred cCCCCeEEEeceEEEEEEcCCCCE
Confidence 8899998875 4444677888764
No 67
>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=97.91 E-value=0.00012 Score=51.21 Aligned_cols=63 Identities=14% Similarity=0.160 Sum_probs=53.0
Q ss_pred HhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCc-cccccCCcchhHHHHHHHHHhcC
Q 019110 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNC-RFLNGVDTDTTVLYQIKESIQTE 312 (346)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~-~~l~~~~~~~~~~~~~~~~~~~~ 312 (346)
++.+|-|++-.|. +|+|+..|.+-.++.|++++.++|+++ .++-+-...+.+...+.+....|
T Consensus 22 lD~lpFGvI~lD~---~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g 85 (124)
T TIGR02373 22 FDALPFGAIQLDG---SGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASG 85 (124)
T ss_pred hhcCCcceEEECC---CCEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcC
Confidence 6888999999999 999999999999999999999999994 45555566667777777755544
No 68
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.91 E-value=9.4e-05 Score=65.57 Aligned_cols=113 Identities=12% Similarity=0.024 Sum_probs=78.7
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCC-ceE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-PIE 93 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~ 93 (346)
+...+++.+++..+.|++..|.+ |.+.-+|+++++|+|.+..+++|.++..+.+. +.+.+...-..+. ...
T Consensus 367 ~rr~f~E~VLsgvtaGVi~~d~~---g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap~-----~~~vf~~~~a~~~~~~~ 438 (712)
T COG5000 367 QRRRFLEAVLSGLTAGVIGFDNR---GCITTVNPSAEQILGKPFDQLLGQSLSAIAPE-----LEEVFAEAGAAARTDKR 438 (712)
T ss_pred HHHHHHHHHHhcCceeEEEEcCC---CeeEeecchHHHHhcCChhHhhcchhhhhhhH-----HHHHHHHhhhhcCCCcc
Confidence 45667889999999999999997 99999999999999999999999986655432 2222222222222 233
Q ss_pred EEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 94 ~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
.+..+. ..|+.+.+.+..+.... + .-.|++.++.|||+...+
T Consensus 439 ~ev~~~-r~g~~rtl~Vq~t~~~~-d--~~~gyVvt~DDITdLV~A 480 (712)
T COG5000 439 VEVKLA-REGEERTLNVQATREPE-D--NGNGYVVTFDDITDLVIA 480 (712)
T ss_pred ceeecc-cCCCceeeeeeeeeccc-c--cCCceEEEecchHHHHHH
Confidence 344433 34555666666655533 2 223688899999998887
No 69
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=97.88 E-value=6.3e-06 Score=69.46 Aligned_cols=104 Identities=23% Similarity=0.373 Sum_probs=86.0
Q ss_pred HHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCC-ChhhHHHHHHHHhcCCceEEEEEee
Q 019110 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRT-NRRTIMEIREAIREERPIEVNLLNY 99 (346)
Q Consensus 21 ~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (346)
-..++....+|-+.|.+ ..|.|+|++|+.++||-..|++|+...++.-.+. ...+...+..++..|..+..+...+
T Consensus 160 FaaLD~c~eAiEI~~dd---hViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~~~aR 236 (775)
T KOG1229|consen 160 FAALDECDEAIEICDDD---HVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGEEEAR 236 (775)
T ss_pred HHHHhhhhhhheeccch---hHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccchHHHh
Confidence 35678888888888885 8899999999999999999999998777755432 3445677888999999999988888
Q ss_pred eCCCCeEEEEeeecccccCCCCceeEEEE
Q 019110 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVA 128 (346)
Q Consensus 100 ~~dg~~~~~~~~~~~~~~~~~g~~~~~~~ 128 (346)
++.|...-..+..+|+.. ..|++.+++.
T Consensus 237 RksgdS~dqh~~itP~~g-qggkirhfvs 264 (775)
T KOG1229|consen 237 RKSGDSCDQHFIITPFAG-QGGKIRHFVS 264 (775)
T ss_pred hccCCcccceEEEeeecC-CCCceeeehh
Confidence 998887777888999998 8888877754
No 70
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=97.86 E-value=0.00011 Score=69.00 Aligned_cols=108 Identities=12% Similarity=0.228 Sum_probs=75.8
Q ss_pred HHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEe
Q 019110 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (346)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 98 (346)
.+..+++.+++|++++|.+ |+|+++|+++++++|++.++++|+++..+++.. ..+...+..+.........
T Consensus 204 ~~~~il~~~~~gVl~vD~~---G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~~~------~~l~~vl~~~~~~~~~~~~ 274 (638)
T PRK11388 204 QLNALLESMDDGVIAWDEQ---GNLQFLNAQAARLLRLDATASQGRAITELLTLP------AVLQQAIKQAHPLKHVEVT 274 (638)
T ss_pred HHHHHHhccCCcEEEECCC---CeEehhhHHHHHHhCcCHHHHCCCcHHHHhccc------hHHHHHHhcCCceeeEEEE
Confidence 3456899999999999997 999999999999999999999999876665321 1233445555443332222
Q ss_pred eeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccccc
Q 019110 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (346)
Q Consensus 99 ~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~ 138 (346)
...+|..+++.++..|+.+ ..|. +++.+..|++..++
T Consensus 275 l~~~g~~~~~~v~~~Pi~~-~~g~--~~v~~l~~~~~~~~ 311 (638)
T PRK11388 275 FESQGQFIDAVITLKPIIE-GQGT--SFILLLHPVEQMRQ 311 (638)
T ss_pred EecCCceEEEEEEEEeecc-cCce--EEEEEehhhHHHHH
Confidence 3345777788889999865 4443 35666778776543
No 71
>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=97.81 E-value=8.2e-05 Score=45.27 Aligned_cols=60 Identities=23% Similarity=0.319 Sum_probs=49.3
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHH
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQI 305 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~ 305 (346)
+..+++.+++++++++. ++.+.++|+.+.+++|++..++.|..+..+.++.+.......+
T Consensus 3 ~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (67)
T smart00091 3 LRAILESLPDGIFVLDL---DGRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEAL 62 (67)
T ss_pred HHHHHhhCCceEEEEcC---CCeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHHH
Confidence 45667888999999998 8999999999999999999999998877777776665444443
No 72
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.74 E-value=8.1e-05 Score=68.80 Aligned_cols=108 Identities=14% Similarity=0.091 Sum_probs=73.9
Q ss_pred HHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCc--hhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR--AEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 17 ~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~--~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
...++.+++++++|++++|.+ |+|+++|+++++++|++. ++++|++...+.++... . ....... ....
T Consensus 221 ~~~~~~il~~~~egii~~D~~---g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~---~---~~~~~~~-~~~~ 290 (545)
T PRK15053 221 VRQQEALFSSVYEGLIAVDPH---GYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADF---F---TEQIDEK-RQDV 290 (545)
T ss_pred HHHHHHHHHHhCceEEEECCC---CeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchh---h---hhhcCCc-ccce
Confidence 455778999999999999997 999999999999999975 46889886666543211 1 1111111 1111
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRN 141 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~~~ 141 (346)
. ...+|. .+.....|+.. +|.+.|.+.+++|+|+.++.+.
T Consensus 291 ~---~~~~~~--~~~~~~~~i~~--~~~~~G~v~~~~d~te~~~l~~ 330 (545)
T PRK15053 291 V---ANFNGL--SVIANREAIRS--GDDLLGAIISFRSKDEISTLNA 330 (545)
T ss_pred E---EEECCE--EEEEEeeeEEE--CCeEEEEEEEEEchHHHHHHHH
Confidence 1 122442 34466778766 6677899999999999877633
No 73
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.71 E-value=0.00016 Score=58.66 Aligned_cols=95 Identities=17% Similarity=0.225 Sum_probs=74.7
Q ss_pred HHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCce-EEEEEeEe
Q 019110 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC-TVRILNYR 323 (346)
Q Consensus 245 ~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~~ 323 (346)
.++++++.+++++|. ++.|.|+|++++.+||.+..-+.|.++..+++... .....+.+....+.++ ..++.+.
T Consensus 11 ~~Ln~~~~pVl~vd~---~~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~gs--~ll~ll~q~~~~~~~~~~~~v~l~- 84 (363)
T COG3852 11 AILNNLINPVLLVDD---ELAIHYANPAAEQLLAVSARRLAGTRLSELLPFGS--LLLSLLDQVLERGQPVTEYEVTLV- 84 (363)
T ss_pred hHHhccCCceEEEcC---CCcEEecCHHHHHHHHHHHHHHhcCChHHHcCCCc--HHHHHHHHHHHhcCCcccceeeee-
Confidence 568888999999999 99999999999999999999999999887765432 3444555556555553 3344433
Q ss_pred cCCCeEEEEEEeeeeecCCCcc
Q 019110 324 KDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 324 ~dG~~~~~~~~~~~i~d~~G~v 345 (346)
.+|....++.++.|+....|.+
T Consensus 85 ~~g~~~~v~~~v~~v~~~~G~v 106 (363)
T COG3852 85 ILGRSHIVDLTVAPVPEEPGSV 106 (363)
T ss_pred ecCccceEEEEEeeccCCCCeE
Confidence 7999999999999998877765
No 74
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.67 E-value=0.0003 Score=61.92 Aligned_cols=109 Identities=13% Similarity=0.171 Sum_probs=81.1
Q ss_pred hHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCch--hhcCCCCCcccCCCCChhhHHHHHHHHhcCCceE
Q 019110 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA--EIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (346)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~--e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (346)
+-+.-..+++++.+|++.+|.. |.|..+|.++++|+|+... +.+|++..++++|+.. +...+..+.+..
T Consensus 213 l~~er~A~l~si~EGviAvd~~---G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~------l~~vl~~~~~~~ 283 (537)
T COG3290 213 LLEERQAMLQSIKEGVIAVDKK---GVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSD------LPEVLETGKPQH 283 (537)
T ss_pred HHHHHHHHHHHhhceEEEECCC---CeEeehhHHHHHHhcccCcCcccccccceEeeccccC------cHHHHhcCCccc
Confidence 3344567999999999999998 9999999999999999876 6889998888776211 122234444322
Q ss_pred EEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 94 ~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
.+. ..-+|. ++.+...|+.. +|++.|++.+++|-|+-++.
T Consensus 284 ~~e--~~~ng~--~~i~nr~pI~~--~~~~~GaI~tFRdktei~~L 323 (537)
T COG3290 284 DEE--IRINGR--LLVANRVPIRS--GGQIVGAIITFRDKTEIKKL 323 (537)
T ss_pred chh--hhcCCe--EEEEEeccEEE--CCEEeEEEEEEecHHHHHHH
Confidence 221 123444 55678889886 89999999999999998887
No 75
>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=97.66 E-value=0.00076 Score=47.24 Aligned_cols=66 Identities=18% Similarity=0.105 Sum_probs=55.8
Q ss_pred HHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCC-CCcccCCCCChhhHHHHHHHHhcCC
Q 019110 22 EALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN-GRMFQGPRTNRRTIMEIREAIREER 90 (346)
Q Consensus 22 ~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~-~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (346)
.-++..|-|++-+|.+ |.|+..|.+-..+.|++++.++|++ ..++.|....+.+...+.+....|.
T Consensus 20 eelD~lpFGvI~lD~~---G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~ 86 (124)
T TIGR02373 20 AQFDALPFGAIQLDGS---GVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGT 86 (124)
T ss_pred hHhhcCCcceEEECCC---CEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCC
Confidence 3489999999999997 9999999999999999999999999 4566666667777777777666664
No 76
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.64 E-value=0.00072 Score=68.69 Aligned_cols=43 Identities=9% Similarity=0.063 Sum_probs=37.9
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchh
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAE 60 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e 60 (346)
....+++.+++++|.+++++|.+ |+|+++|+++++++|++...
T Consensus 573 ~~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~~~g~~~~~ 615 (1197)
T PRK09959 573 NQISFRKALSDSLPNPTYVVNWQ---GNVISHNSAFEHYFTADYYK 615 (1197)
T ss_pred HHHHHHHHHHhhCCCcEEEEcCC---CcEEEehHHHHHHhCccccc
Confidence 45667889999999999999997 99999999999999987543
No 77
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=97.64 E-value=0.00047 Score=63.33 Aligned_cols=85 Identities=12% Similarity=0.063 Sum_probs=65.9
Q ss_pred EEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCce---EEEEEeEecCCCeEE
Q 019110 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC---TVRILNYRKDKSSFW 330 (346)
Q Consensus 254 i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~---~~e~~~~~~dG~~~~ 330 (346)
||++.-. +.+.|..|..++..++||-+.++||+++..++|+.|..-+.+.....++.++.. ...+|+...+|.++.
T Consensus 332 iFtT~HT-ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ 410 (1114)
T KOG3753|consen 332 IFTTTHT-PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVR 410 (1114)
T ss_pred eeEeccC-CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEE
Confidence 4444332 267888999999999999999999999988999999888888888877665433 346888999999987
Q ss_pred EEEEeeeee
Q 019110 331 NLLHISPIR 339 (346)
Q Consensus 331 ~~~~~~~i~ 339 (346)
+....+...
T Consensus 411 ldTeWSsFV 419 (1114)
T KOG3753|consen 411 LDTEWSSFV 419 (1114)
T ss_pred Eechhhhcc
Confidence 766544433
No 78
>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=97.54 E-value=0.00027 Score=42.82 Aligned_cols=57 Identities=23% Similarity=0.400 Sum_probs=46.3
Q ss_pred HHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhh
Q 019110 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRT 78 (346)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~ 78 (346)
+++.+++.++.++++++.. +.+.++|+.+..++|++..++.|..+..+.++.+....
T Consensus 2 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 58 (67)
T smart00091 2 RLRAILESLPDGIFVLDLD---GRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEV 58 (67)
T ss_pred hHHHHHhhCCceEEEEcCC---CeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHH
Confidence 3567889999999999986 99999999999999999999888876666555544333
No 79
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=97.52 E-value=0.00028 Score=59.11 Aligned_cols=113 Identities=16% Similarity=0.201 Sum_probs=87.7
Q ss_pred HHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEE
Q 019110 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNL 96 (346)
Q Consensus 17 ~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 96 (346)
.+.+..+++..|.-+-.+|.+ +.+.|.|+. .++|-..+. ++|+++... ||.........+.+.+.+|..-..++
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 LEELNAIFKHLPVDITFVDKN---DIVRFFSGG-ERIFPRTPS-VIGRRVQLC-HPPKSVHIVEKILKDFKSGEKDFAEF 362 (409)
T ss_pred HHHHHHHHhhCCCceEEeccc---ceEEecCCc-ceecccChH-hhCCcccCC-CCCchHHHHHHHHHHhhcCCcchHHH
Confidence 456788999999888888997 899999988 888877765 469887654 45555666777888888887666665
Q ss_pred EeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 97 ~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
. .+..+. .+.++..+++| ++|...|.+-+++|||..+..
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 5 233333 46678889999 999999999999999998877
No 80
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=97.24 E-value=0.00084 Score=62.05 Aligned_cols=91 Identities=18% Similarity=0.242 Sum_probs=60.4
Q ss_pred hHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCC---hhhhhcCCccccccCCcchhHHHHHHHHHhcCCceE
Q 019110 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD---RNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (346)
Q Consensus 240 ~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~---~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 316 (346)
.+.++.++++++++|+++|. +|+|+++|+++++++|++ ..+.+|+.+..+.++. .+...+..+.+..
T Consensus 220 ~~~~~~il~~~~~gIi~~D~---~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~ 289 (542)
T PRK11086 220 FEQRQAMLQSIKEGVIAVDD---RGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPVS-------RLKEVLRTGTPRR 289 (542)
T ss_pred HHHHHHHHHHhcCcEEEECC---CCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCch-------hHHHHHhcCCCcc
Confidence 44567899999999999999 999999999999999875 3456676655544321 2334444554433
Q ss_pred EEEEeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 317 VRILNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 317 ~e~~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
.+. ...+|. ++.+...|+.+ +|++
T Consensus 290 ~~~--~~~~g~--~~~~~~~pi~~-~g~~ 313 (542)
T PRK11086 290 DEE--ININGR--LLLTNTVPVRV-NGEI 313 (542)
T ss_pred ceE--EEECCE--EEEEEEEEEeE-CCEE
Confidence 211 123453 44566778887 5543
No 81
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.23 E-value=0.0017 Score=53.01 Aligned_cols=109 Identities=12% Similarity=0.119 Sum_probs=79.3
Q ss_pred HHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceE-EEEEee
Q 019110 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE-VNLLNY 99 (346)
Q Consensus 21 ~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~e~~~~ 99 (346)
..++++++.+++++|.+ +.|.|+|++++.+||.+..-+.|..+..+++.. ......+.+....+.++. ++....
T Consensus 10 ~~~Ln~~~~pVl~vd~~---~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~g--s~ll~ll~q~~~~~~~~~~~~v~l~ 84 (363)
T COG3852 10 GAILNNLINPVLLVDDE---LAIHYANPAAEQLLAVSARRLAGTRLSELLPFG--SLLLSLLDQVLERGQPVTEYEVTLV 84 (363)
T ss_pred HhHHhccCCceEEEcCC---CcEEecCHHHHHHHHHHHHHHhcCChHHHcCCC--cHHHHHHHHHHHhcCCcccceeeee
Confidence 36899999999999997 999999999999999999999998887776543 234455666666655432 333333
Q ss_pred eCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 100 ~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
.+|....+...+.|+.. ..|. ++..++-+....+.
T Consensus 85 -~~g~~~~v~~~v~~v~~-~~G~---vlle~~~~~~~~ri 119 (363)
T COG3852 85 -ILGRSHIVDLTVAPVPE-EPGS---VLLEFHPRDMQRRL 119 (363)
T ss_pred -ecCccceEEEEEeeccC-CCCe---EEEEechhHHHhHh
Confidence 68888999999999965 4554 44555555544433
No 82
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=97.20 E-value=0.0017 Score=53.91 Aligned_cols=96 Identities=14% Similarity=0.225 Sum_probs=72.2
Q ss_pred hHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEE
Q 019110 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRI 319 (346)
Q Consensus 240 ~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~ 319 (346)
..+|.+++..+.||++.+|. .|+|+.+|..+.+++|.+.++++|++..++..-.+.-.+. ...........+.
T Consensus 110 r~kL~SvlayMtDGViATdR---rG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~~~----dL~e~~~s~lld~ 182 (459)
T COG5002 110 RRKLDSVLAYMTDGVIATDR---RGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTFE----DLVEKNDSLLLDS 182 (459)
T ss_pred HHHHHHHHHHHcCceEeecC---CCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccceeHH----HHHhcCCcEEEee
Confidence 34588889999999999999 8999999999999999999999999988776655543333 3333344343332
Q ss_pred EeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 320 LNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
+..++.+-+.++.+.+.-+.|-+
T Consensus 183 ---~~~~E~~~lrv~Fs~i~rEsGfi 205 (459)
T COG5002 183 ---SDEEEGYVLRVNFSVIQRESGFI 205 (459)
T ss_pred ---cCCCccEEEEEEEEEEeeccccc
Confidence 22677777888888888777743
No 83
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.09 E-value=0.0023 Score=59.25 Aligned_cols=51 Identities=10% Similarity=0.119 Sum_probs=44.4
Q ss_pred HHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCCh--hhhhcCCccccccC
Q 019110 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR--NEVVGQNCRFLNGV 295 (346)
Q Consensus 242 ~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~--~e~~g~~~~~l~~~ 295 (346)
.+..+++++++|++++|. +|+|+++|+++++++|++. ++++|+++..+.++
T Consensus 223 ~~~~il~~~~egii~~D~---~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~ 275 (545)
T PRK15053 223 QQEALFSSVYEGLIAVDP---HGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRP 275 (545)
T ss_pred HHHHHHHHhCceEEEECC---CCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCC
Confidence 467789999999999999 9999999999999999975 46999987776654
No 84
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=97.00 E-value=0.0017 Score=54.27 Aligned_cols=55 Identities=16% Similarity=0.087 Sum_probs=49.0
Q ss_pred HHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcch
Q 019110 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDT 299 (346)
Q Consensus 242 ~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~ 299 (346)
.+..+++++|++++-+|. .|.+..+|+|++++||.+++++.|.+...++...+..
T Consensus 81 ~L~aLL~al~~pVlsvd~---kg~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~ 135 (511)
T COG3283 81 ALSALLEALPEPVLSVDM---KGKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFL 135 (511)
T ss_pred HHHHHHHhCCCceEEecc---cCceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHH
Confidence 478899999999999999 8999999999999999999999999987777655433
No 85
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=96.79 E-value=0.018 Score=51.12 Aligned_cols=51 Identities=20% Similarity=0.206 Sum_probs=44.8
Q ss_pred HHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChh--hhhcCCccccccCC
Q 019110 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRN--EVVGQNCRFLNGVD 296 (346)
Q Consensus 243 l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~--e~~g~~~~~l~~~~ 296 (346)
...+++++.+|++.+|. .|.|+.+|.++++|+|+... +.+|++..++.+|+
T Consensus 217 r~A~l~si~EGviAvd~---~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~ 269 (537)
T COG3290 217 RQAMLQSIKEGVIAVDK---KGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPD 269 (537)
T ss_pred HHHHHHHhhceEEEECC---CCeEeehhHHHHHHhcccCcCcccccccceEeeccc
Confidence 45678888999999999 89999999999999999765 69999988888773
No 86
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=96.69 E-value=0.0065 Score=53.16 Aligned_cols=94 Identities=14% Similarity=0.161 Sum_probs=79.2
Q ss_pred CCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCCCeEEEEeeecccccCC
Q 019110 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKE 119 (346)
Q Consensus 40 d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~~~ 119 (346)
|+..+.+......++||...|+.|.+...+++.+|..-......+.+++|++...-+|..+++|++.||..++..++-
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 577788888899999999999999888888888776666677888899999988999999999999999998887775
Q ss_pred CCceeEEEEEeecccc
Q 019110 120 DGRATHFVAVQVPIVS 135 (346)
Q Consensus 120 ~g~~~~~~~~~~DIT~ 135 (346)
+|++-.++...+-.++
T Consensus 370 ngkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 370 NGKPDLVIDTHRGLGD 385 (712)
T ss_pred cCCCCEEEecCCCccc
Confidence 8888877776665555
No 87
>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=96.61 E-value=0.012 Score=31.20 Aligned_cols=41 Identities=29% Similarity=0.448 Sum_probs=34.1
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccccc
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~ 136 (346)
++.....+|..+|+.....++.+ ..|.+.+++++..|||++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~di~~~ 43 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRD-EDGEVEGILGVVRDITER 43 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEEC-CCCCEEEEEEEEEeccCC
Confidence 34556778999999888888888 788899999999999863
No 88
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=96.59 E-value=0.042 Score=40.40 Aligned_cols=102 Identities=14% Similarity=0.143 Sum_probs=79.2
Q ss_pred HhhCCCcEEEecCCC-CCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCC
Q 019110 24 LDELPDSFTITDPSI-SGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKD 102 (346)
Q Consensus 24 ~~~~~~~i~~~d~~~-~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~d 102 (346)
-...|.. ++++... .+.++..+-...++++|+ ++.|+++.+++.+.........+..++..+.+..........+
T Consensus 34 ~~~Lp~i-~ile~~~~~~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~~ 109 (137)
T PF07310_consen 34 PRLLPHI-FILEVDDPGDFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVRARGRAEDAD 109 (137)
T ss_pred HHHhCCe-EEEEEeCCCceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEEEEEEEecCC
Confidence 3444443 3444332 146677889999999997 4669998888888877777788888888888888888888889
Q ss_pred CCeEEEEeeecccccCCCCceeEEEEEe
Q 019110 103 GTPFWMLFKMSLVFGKEDGRATHFVAVQ 130 (346)
Q Consensus 103 g~~~~~~~~~~~~~~~~~g~~~~~~~~~ 130 (346)
|....++...-|+.+ ++|.+..++|.+
T Consensus 110 g~~~~~e~l~LPL~~-~~~~v~rilG~~ 136 (137)
T PF07310_consen 110 GRYLEYERLLLPLRS-DGGTVDRILGAL 136 (137)
T ss_pred CCeeEEEEEEcccCC-CCCCccEEEEec
Confidence 999999999999999 889898888875
No 89
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=96.33 E-value=0.0021 Score=59.93 Aligned_cols=62 Identities=18% Similarity=0.215 Sum_probs=49.4
Q ss_pred hHHHHH-HHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHH
Q 019110 240 SSSLYI-SLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQ 304 (346)
Q Consensus 240 ~~~l~~-~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~ 304 (346)
...|.. +++.+...+|++.. +|+|+||++....++||..+|++|+++..+.||++....+..
T Consensus 93 ~~eL~~LmLeAlDGF~fvV~c---dG~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~q 155 (803)
T KOG3561|consen 93 NDELTHLILEALDGFLFVVNC---DGRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPREQ 155 (803)
T ss_pred hHHHHHHHHHHhcCeEEEEec---CceEEEEecchHHhhCcCHHHHhcchHHHhcCccccCccccc
Confidence 445554 45555555677787 999999999999999999999999999999999877655443
No 90
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=96.09 E-value=0.01 Score=49.84 Aligned_cols=56 Identities=16% Similarity=0.183 Sum_probs=48.3
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCC
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPR 73 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~ 73 (346)
|..-.+.++++++|++++.+|.. |.+..+|+|++.++|.+.+.+.|.+...++...
T Consensus 77 R~hl~L~aLL~al~~pVlsvd~k---g~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~ 132 (511)
T COG3283 77 REHLALSALLEALPEPVLSVDMK---GKVDMANPAACQLFGRKEDRLRGHTAAQLINGF 132 (511)
T ss_pred hHhHHHHHHHHhCCCceEEeccc---CceeecCHHHHHHhCCChhhhcCccHHHhcCcC
Confidence 34456789999999999999997 999999999999999999999998866655443
No 91
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=95.81 E-value=0.04 Score=49.65 Aligned_cols=90 Identities=10% Similarity=0.018 Sum_probs=60.3
Q ss_pred hHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhc-CCceEEE
Q 019110 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQT-EQACTVR 318 (346)
Q Consensus 240 ~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~-~~~~~~e 318 (346)
...++..++..+.|++..|. +|++.-+|+++++|+|.+.++++|++...+.+ . ....+...-.. +.....|
T Consensus 369 r~f~E~VLsgvtaGVi~~d~---~g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap-~----~~~vf~~~~a~~~~~~~~e 440 (712)
T COG5000 369 RRFLEAVLSGLTAGVIGFDN---RGCITTVNPSAEQILGKPFDQLLGQSLSAIAP-E----LEEVFAEAGAAARTDKRVE 440 (712)
T ss_pred HHHHHHHHhcCceeEEEEcC---CCeeEeecchHHHHhcCChhHhhcchhhhhhh-H----HHHHHHHhhhhcCCCccce
Confidence 34477789999999999999 99999999999999999999999998655432 1 22222222222 2334555
Q ss_pred EEeEecCCCeEEEEEEeeee
Q 019110 319 ILNYRKDKSSFWNLLHISPI 338 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i 338 (346)
+.+.+ .|+.+.+.+.++..
T Consensus 441 v~~~r-~g~~rtl~Vq~t~~ 459 (712)
T COG5000 441 VKLAR-EGEERTLNVQATRE 459 (712)
T ss_pred eeccc-CCCceeeeeeeeec
Confidence 55444 34555555555443
No 92
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=95.80 E-value=0.12 Score=38.04 Aligned_cols=80 Identities=16% Similarity=0.166 Sum_probs=69.5
Q ss_pred CCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEecCCCeEEEEEEeeeeecCC
Q 019110 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYRKDKSSFWNLLHISPIRNAS 342 (346)
Q Consensus 263 dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~~~~~~~i~d~~ 342 (346)
+.++-.+=...++++|+ |+.|+++.++..+.....+...+..++..+.+.....+....+|....++.-.-|+.+++
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 44566788999999998 556999999988888888888888899999999999888899999999999999999988
Q ss_pred Ccc
Q 019110 343 GKV 345 (346)
Q Consensus 343 G~v 345 (346)
|.+
T Consensus 127 ~~v 129 (137)
T PF07310_consen 127 GTV 129 (137)
T ss_pred CCc
Confidence 865
No 93
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=95.75 E-value=0.039 Score=46.72 Aligned_cols=98 Identities=7% Similarity=0.144 Sum_probs=76.8
Q ss_pred hhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEE
Q 019110 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (346)
Q Consensus 239 ~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (346)
.-..+..++.+.|.-|-.+|. ++++.|.|+. .++|-.++. ++|+++... ||.-.......+.+.+++|..-..+
T Consensus 288 ~~~e~naif~~lP~Ditfvdk---~diV~ffs~~-~rif~rt~s-viGr~v~~c-hpPksv~iv~ki~~~fksG~kd~~e 361 (409)
T COG2461 288 SLEELNAIFKHLPVDITFVDK---NDIVRFFSGG-ERIFPRTPS-VIGRRVQLC-HPPKSVHIVEKILKDFKSGEKDFAE 361 (409)
T ss_pred eHHHHHHHHhhCCCceEEecc---cceEEecCCc-ceecccChH-hhCCcccCC-CCCchHHHHHHHHHHhhcCCcchHH
Confidence 445688999999988889999 8999999998 999988886 579987654 5555566777888888889888888
Q ss_pred EEeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 319 ILNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
++ .+.-+. .+..+..+++|++|+.
T Consensus 362 fw-~~~~~~--~i~i~Y~av~de~ge~ 385 (409)
T COG2461 362 FW-INMGDK--FIHIRYFAVKDEEGEY 385 (409)
T ss_pred Hh-ccCCCc--eEEEEEEEEEcCCCce
Confidence 87 333333 4567889999999974
No 94
>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=95.30 E-value=0.039 Score=38.78 Aligned_cols=44 Identities=27% Similarity=0.503 Sum_probs=35.9
Q ss_pred cEEEEcCCCCCCCeeeecHhHHHHcCCC---hhhhhcCCccccccCCcc
Q 019110 253 SFVLIDPHLPDMPMVYASDAFLKLTGYD---RNEVVGQNCRFLNGVDTD 298 (346)
Q Consensus 253 ~i~~~d~~~~dg~i~~~N~~~~~l~G~~---~~e~~g~~~~~l~~~~~~ 298 (346)
.++++|.. +++|+.++.....++|.+ .++++|+++..++.+...
T Consensus 17 ~LLa~d~~--~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~~ 63 (110)
T PF08446_consen 17 ALLALDPD--DLRIVQASENIAELLGIPPELPEELLGRPLSELLGAESA 63 (110)
T ss_dssp EEEEEETT--TTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCCH
T ss_pred EEEEEECC--CCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHHH
Confidence 35666764 799999999999999999 999999999888765543
No 95
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=94.92 E-value=0.13 Score=52.69 Aligned_cols=47 Identities=9% Similarity=-0.072 Sum_probs=39.0
Q ss_pred CccchhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhh
Q 019110 235 GMGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEV 284 (346)
Q Consensus 235 ~l~~~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~ 284 (346)
.+......++.+++++|++|+++|. +|+|+++|+++++++|++....
T Consensus 570 ~l~~~~~~~~~i~~~~~~~i~~~d~---~g~i~~~N~~~~~~~g~~~~~~ 616 (1197)
T PRK09959 570 DLENQISFRKALSDSLPNPTYVVNW---QGNVISHNSAFEHYFTADYYKN 616 (1197)
T ss_pred HHHHHHHHHHHHHhhCCCcEEEEcC---CCcEEEehHHHHHHhCcccccc
Confidence 3444445677899999999999999 9999999999999999875443
No 96
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=94.83 E-value=0.025 Score=53.10 Aligned_cols=78 Identities=15% Similarity=0.125 Sum_probs=62.0
Q ss_pred CCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCC-ceEEEEEeEecCCCeEEEEEEeeeeec
Q 019110 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ-ACTVRILNYRKDKSSFWNLLHISPIRN 340 (346)
Q Consensus 263 dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~e~~~~~~dG~~~~~~~~~~~i~d 340 (346)
+|.++++-.....+.||.+.++.|..+..+.|+++.......+........ ....-++.+.+||.+.|....+....|
T Consensus 381 ~g~~~~~dqr~~~i~~~~~~~~~g~ss~~s~h~~d~~~~~~s~~~~~~~s~~~~~~~yr~~~~n~~~~~~~~~~~~~~n 459 (803)
T KOG3561|consen 381 DGSFTFVDQRASAILGYQPQELLGRSSYESSHPADSSPLSESLKQVQALSEQRSTLLYRFRSKNGSSIPNKSSAYLFSN 459 (803)
T ss_pred CCceeccccccccccccCchhhcCcccccccCccccchhhchHHHHHHhcccccccccccccCCCCccccccccccccC
Confidence 899999999999999999999999999888899998877777766544333 344567888999999987766654443
No 97
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=94.65 E-value=0.043 Score=46.44 Aligned_cols=78 Identities=9% Similarity=0.083 Sum_probs=61.9
Q ss_pred CCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCCCeEEEEeeeccccc
Q 019110 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFG 117 (346)
Q Consensus 40 d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~ 117 (346)
|-.++|......+++||.+.+++++++...++.-|...........+..|....--+|+..+.|.+.|+......+.+
T Consensus 234 DlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwvqsyat~vHn 311 (598)
T KOG3559|consen 234 DLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWVQSYATFVHN 311 (598)
T ss_pred ceEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceEEEEEeeEEEec
Confidence 588999999999999999999999998777776666666666666666776555567788899999999877666544
No 98
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=94.23 E-value=0.23 Score=41.05 Aligned_cols=90 Identities=11% Similarity=0.192 Sum_probs=56.6
Q ss_pred HHHHHhccC----CcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEE
Q 019110 243 LYISLGRIK----QSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVR 318 (346)
Q Consensus 243 l~~~~~~~~----~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e 318 (346)
.+.++|+.. .+++|..+. +.+.+|+|.-+..++||+.++++......+. +....+...+. .. ......+.
T Consensus 285 cRrLfDsLreEnlgmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~dIV~--eGl~qW~~dL~-~~-s~~E~~gr 358 (401)
T PF06785_consen 285 CRRLFDSLREENLGMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFSDIVQ--EGLAQWETDLQ-LL-SRQERSGR 358 (401)
T ss_pred HHHHHhhhcccccceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcchHHHH--hhHHHHHHHHH-hh-hhhhhhce
Confidence 445555443 456666665 7899999999999999999998855322222 11222223332 11 23345566
Q ss_pred EEeEecCCCeEEEEEEeeee
Q 019110 319 ILNYRKDKSSFWNLLHISPI 338 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i 338 (346)
+.+.+|+|...++......+
T Consensus 359 lviKTK~~g~ipf~ycL~ii 378 (401)
T PF06785_consen 359 LVIKTKNGGNIPFYYCLGII 378 (401)
T ss_pred EEEEecCCCceeeEEEEeec
Confidence 77889999988766655444
No 99
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=94.22 E-value=1.2 Score=44.17 Aligned_cols=42 Identities=7% Similarity=0.025 Sum_probs=36.6
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCc
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR 58 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~ 58 (346)
++++.++.+++.+|.++++++.. ||.+++.|+.+..++|+..
T Consensus 331 e~e~~~r~iv~~~p~gi~i~~~~--~g~~~~~N~~a~~~~~l~~ 372 (924)
T PRK10841 331 EHEQFNRKIVASAPVGICILRTS--DGTNILSNELAHNYLNMLT 372 (924)
T ss_pred HHHHHHHHHHHhCCccEEEEEcC--CCcEEEehHHHHHHhccCC
Confidence 56678899999999999999876 6999999999999888644
No 100
>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=92.85 E-value=0.13 Score=36.13 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=35.2
Q ss_pred cEEEecCCCCCCCEEEEehhHHhhhCCC---chhhcCCCCCcccCCCC
Q 019110 30 SFTITDPSISGHPIVFASRGFLKMSGFS---RAEIIGRNGRMFQGPRT 74 (346)
Q Consensus 30 ~i~~~d~~~~d~~i~~~N~~~~~l~G~~---~~e~~g~~~~~~~~~~~ 74 (346)
.++++|.. +++|+.++.++..++|.+ .++++|+++..++.+..
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 34667765 699999999999999999 99999999888876543
No 101
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=92.51 E-value=1.5 Score=40.34 Aligned_cols=43 Identities=21% Similarity=0.296 Sum_probs=34.8
Q ss_pred HhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCC-hhhhhcCCcccc
Q 019110 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFL 292 (346)
Q Consensus 247 ~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~-~~e~~g~~~~~l 292 (346)
.+..+.+.+++|. +|+++..|+++..+++.+ ..-++|.+...+
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 3455678999999 999999999999999998 555777775544
No 102
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=91.83 E-value=0.65 Score=43.83 Aligned_cols=86 Identities=10% Similarity=0.133 Sum_probs=65.0
Q ss_pred EEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCC-c--eEEEEEeeeCCCCeEE
Q 019110 31 FTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-P--IEVNLLNYKKDGTPFW 107 (346)
Q Consensus 31 i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~-~--~~~e~~~~~~dg~~~~ 107 (346)
++.+... +.+.+..|..++..++||-+.++||+++..++++.|.....+.....+..+. + ....+|+...||.++.
T Consensus 332 iFtT~HT-ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ 410 (1114)
T KOG3753|consen 332 IFTTTHT-PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVR 410 (1114)
T ss_pred eeEeccC-CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEE
Confidence 4444432 4577889999999999999999999999889998887777766666666543 3 2346788889999988
Q ss_pred EEeeeccccc
Q 019110 108 MLFKMSLVFG 117 (346)
Q Consensus 108 ~~~~~~~~~~ 117 (346)
+....+.+.+
T Consensus 411 ldTeWSsFVN 420 (1114)
T KOG3753|consen 411 LDTEWSSFVN 420 (1114)
T ss_pred EechhhhccC
Confidence 7776666555
No 103
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=87.33 E-value=1.3 Score=43.63 Aligned_cols=41 Identities=12% Similarity=0.056 Sum_probs=36.2
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCC
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFS 57 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~ 57 (346)
..++..+.+++.+|.|++++|.. +++++++|+++.+++|+.
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 56678899999999999999965 599999999999999753
No 104
>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=87.00 E-value=2.3 Score=21.45 Aligned_cols=28 Identities=43% Similarity=0.651 Sum_probs=22.1
Q ss_pred EEEeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 318 RILNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 318 e~~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
+++...++|..+|+.....++.+.+|.+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 30 (43)
T smart00086 3 EYRLRRKDGSYIWVLVSASPIRDEDGEV 30 (43)
T ss_pred EEEEEecCCCEEEEEEEeEEEECCCCCE
Confidence 4566788999999998888888876653
No 105
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=85.22 E-value=1.8 Score=34.24 Aligned_cols=49 Identities=16% Similarity=0.055 Sum_probs=38.3
Q ss_pred hHHHHHhh--hHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCch
Q 019110 8 IEQSFNNR--YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA 59 (346)
Q Consensus 8 ~e~~~~~~--~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~ 59 (346)
.|+.+.++ ..+.+..+++..|.++++-+.+ |.+++.|.+|.+++...-.
T Consensus 7 ~e~~~~~Q~~~~~~~~~~i~~~~~P~CiR~~~---g~fi~~N~~F~~~f~~~~~ 57 (217)
T PRK13719 7 RERATIRQIDLPESLTAFIDDYSYPACIRNES---GKFIFYNTLFLKEFLGQLQ 57 (217)
T ss_pred hhhcchhhhhhHHHHHHHHHcCCCCeEEECCC---CCeeecchHHHHHHHhcCC
Confidence 34444433 3456778999999999999997 9999999999999876543
No 106
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=82.98 E-value=1.6 Score=36.40 Aligned_cols=90 Identities=11% Similarity=0.175 Sum_probs=55.1
Q ss_pred HHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEee
Q 019110 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (346)
Q Consensus 20 ~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (346)
|..+-+....++++..+. +.+.+|+|.-+..++||+.++++.... +++.. .-......+... ........+.+.
T Consensus 289 fDsLreEnlgmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~-dIV~e-Gl~qW~~dL~~~--s~~E~~grlviK 362 (401)
T PF06785_consen 289 FDSLREENLGMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFS-DIVQE-GLAQWETDLQLL--SRQERSGRLVIK 362 (401)
T ss_pred HhhhcccccceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcch-HHHHh-hHHHHHHHHHhh--hhhhhhceEEEE
Confidence 333444445578888887 689999999999999999999876432 22211 111222222211 122234556677
Q ss_pred eCCCCeEEEEeeeccc
Q 019110 100 KKDGTPFWMLFKMSLV 115 (346)
Q Consensus 100 ~~dg~~~~~~~~~~~~ 115 (346)
+|+|....+......+
T Consensus 363 TK~~g~ipf~ycL~ii 378 (401)
T PF06785_consen 363 TKNGGNIPFYYCLGII 378 (401)
T ss_pred ecCCCceeeEEEEeec
Confidence 8888887776665555
No 107
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=81.39 E-value=2.6 Score=33.29 Aligned_cols=37 Identities=14% Similarity=0.042 Sum_probs=32.6
Q ss_pred HHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCCh
Q 019110 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR 281 (346)
Q Consensus 242 ~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~ 281 (346)
.+..+++..|.+++|-+. +|.+++.|.+|.++|.-.-
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 567788999999999999 9999999999999987543
No 108
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=79.94 E-value=2.2 Score=42.16 Aligned_cols=43 Identities=7% Similarity=-0.042 Sum_probs=36.6
Q ss_pred ccchhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCC
Q 019110 236 MGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD 280 (346)
Q Consensus 236 l~~~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~ 280 (346)
+.......+.+++++|+|++++|.. +|+++++|+++++++|+.
T Consensus 338 L~~~~~l~~~Ii~~lp~Gilv~D~~--~~~Ii~~N~aA~~ll~~~ 380 (894)
T PRK10618 338 LRILRALNEEIVSNLPLGLLVYDFE--SNRTVISNKIADHLLPHL 380 (894)
T ss_pred HHHHHHHHHHHHHhCCceEEEEECC--CCeEEEEhHHHHHHhCcc
Confidence 4455566789999999999999964 799999999999999864
No 109
>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=78.61 E-value=4 Score=29.04 Aligned_cols=45 Identities=16% Similarity=0.208 Sum_probs=36.4
Q ss_pred eEEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeecccccccc
Q 019110 92 IEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (346)
Q Consensus 92 ~~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~k~~ 139 (346)
....+....++|+ .++.+...+++ ++|++.|++++-.|+|....+
T Consensus 68 ~~~nY~~~~~~Gk--~lrSsT~~Ird-~~g~~iG~LCIN~D~s~~~~~ 112 (118)
T PF08348_consen 68 YIINYKTKTKDGK--ILRSSTFFIRD-ENGKLIGALCINFDISALEQA 112 (118)
T ss_pred ccccccccCCCCC--EEEEEEEEEEC-CCCCEEEEEEEEeccHHHHHH
Confidence 3445566778886 45788889999 899999999999999987665
No 110
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=77.70 E-value=3.4 Score=40.26 Aligned_cols=49 Identities=18% Similarity=0.078 Sum_probs=38.6
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCc
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRM 68 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~ 68 (346)
+....-..++..+|.|++++|.+ +|.|.|+|+.|..++| .+ ++|++...
T Consensus 99 ~~~~~~~~~l~~~p~gi~~~~~~--~~~i~W~N~~~~~~~~--~~-~~g~~i~~ 147 (838)
T PRK14538 99 HVSQIGEEVLNELPIGIVLIDIS--SKEIQWLNPYANFILK--NP-EINTPLAQ 147 (838)
T ss_pred HHhHHHHHHHHhCCceEEEEeCC--CCEEEEECHHHHHHhC--cc-ccCCcHHH
Confidence 34455667899999999999942 3999999999999987 23 78887664
No 111
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=76.30 E-value=6.6 Score=35.98 Aligned_cols=41 Identities=12% Similarity=0.155 Sum_probs=35.5
Q ss_pred HHhhhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhC
Q 019110 12 FNNRYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSG 55 (346)
Q Consensus 12 ~~~~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G 55 (346)
+..+.+.-++.++.++|.|+++.|.+ +.+.|+||-+..+|+
T Consensus 69 ls~~~~~~~~~al~nmPiGii~~~e~---~~veW~Npf~~~if~ 109 (655)
T COG3887 69 LSYQAEKSLEEALTNMPIGIILFNET---NKVEWVNPFASKIFN 109 (655)
T ss_pred HHHHHHHHHHHHHHhCCceEEEEcCC---CceEEecHHHHHhcC
Confidence 44566777889999999999999976 999999999999885
No 112
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=76.12 E-value=20 Score=27.66 Aligned_cols=107 Identities=16% Similarity=0.221 Sum_probs=74.1
Q ss_pred HHHhhCCCcEEEecCCCCCCCEE--EEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEee
Q 019110 22 EALDELPDSFTITDPSISGHPIV--FASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (346)
Q Consensus 22 ~~~~~~~~~i~~~d~~~~d~~i~--~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 99 (346)
.+-...++.++.-+.. +|.+. .+-...|.++| .|+-|.....+..+.+................+.-+.....
T Consensus 52 ~l~slL~d~FiL~~~~--~G~~~FRLAGTriC~LfG---RELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~ 126 (209)
T COG5388 52 KLKSLLPDVFILERDG--RGKLPFRLAGTRICDLFG---RELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGR 126 (209)
T ss_pred HHHhhcCceEEEeccC--CCCceEEecccchhhhhc---hhhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchh
Confidence 3455667665554443 35544 46667777777 46777777777766666666666666666677777766667
Q ss_pred eCCCCeEEEEeeecccccCCCCceeEEEEEeeccc
Q 019110 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (346)
Q Consensus 100 ~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT 134 (346)
...|...-+++-..|+.. ..|.-..++|.+.-+.
T Consensus 127 s~~G~sl~fEmLl~PL~~-~~g~~~R~LGais~~~ 160 (209)
T COG5388 127 SHGGRSLGFEMLLAPLQG-ASGETDRFLGAISPIA 160 (209)
T ss_pred hccCcccceeeeeecccC-CCCCccchhhhccccc
Confidence 778888889999999998 7888667777766543
No 113
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=74.08 E-value=4.2 Score=39.65 Aligned_cols=46 Identities=11% Similarity=0.010 Sum_probs=38.0
Q ss_pred HHHHHHHhccCCcEEEEc-CCCCCCCeeeecHhHHHHcCCChhhhhcCCcccc
Q 019110 241 SSLYISLGRIKQSFVLID-PHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFL 292 (346)
Q Consensus 241 ~~l~~~~~~~~~~i~~~d-~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l 292 (346)
..-..++..+|.|++++| . +|.|.|+|+.|.+++| .+ ++|++...+
T Consensus 102 ~~~~~~l~~~p~gi~~~~~~---~~~i~W~N~~~~~~~~--~~-~~g~~i~~~ 148 (838)
T PRK14538 102 QIGEEVLNELPIGIVLIDIS---SKEIQWLNPYANFILK--NP-EINTPLAQI 148 (838)
T ss_pred HHHHHHHHhCCceEEEEeCC---CCEEEEECHHHHHHhC--cc-ccCCcHHHh
Confidence 345678899999999999 5 7999999999999988 22 889987654
No 114
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=72.06 E-value=6.4 Score=36.09 Aligned_cols=37 Identities=14% Similarity=0.134 Sum_probs=33.1
Q ss_pred hhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcC
Q 019110 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTG 278 (346)
Q Consensus 239 ~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G 278 (346)
++..++.++.++|.||++.|. ++.+.|+||....+|+
T Consensus 73 ~~~~~~~al~nmPiGii~~~e---~~~veW~Npf~~~if~ 109 (655)
T COG3887 73 AEKSLEEALTNMPIGIILFNE---TNKVEWVNPFASKIFN 109 (655)
T ss_pred HHHHHHHHHHhCCceEEEEcC---CCceEEecHHHHHhcC
Confidence 445688899999999999997 8999999999999986
No 115
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=59.04 E-value=84 Score=24.45 Aligned_cols=95 Identities=15% Similarity=0.105 Sum_probs=65.7
Q ss_pred HHHhccCCcEEEEcCCCCCCCee--eecHhHHHHcCCChhhhhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeE
Q 019110 245 ISLGRIKQSFVLIDPHLPDMPMV--YASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNY 322 (346)
Q Consensus 245 ~~~~~~~~~i~~~d~~~~dg~i~--~~N~~~~~l~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 322 (346)
.+-...++.+++.+.. +|.+. .+-...|.+|| .|+-|..+..+-.+.+..........+.....++-.-....
T Consensus 52 ~l~slL~d~FiL~~~~--~G~~~FRLAGTriC~LfG---RELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~ 126 (209)
T COG5388 52 KLKSLLPDVFILERDG--RGKLPFRLAGTRICDLFG---RELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGR 126 (209)
T ss_pred HHHhhcCceEEEeccC--CCCceEEecccchhhhhc---hhhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchh
Confidence 3445556665555442 45544 46667788888 47888888777777777776666666666666666666667
Q ss_pred ecCCCeEEEEEEeeeeecCCCc
Q 019110 323 RKDKSSFWNLLHISPIRNASGK 344 (346)
Q Consensus 323 ~~dG~~~~~~~~~~~i~d~~G~ 344 (346)
...|...-+++-..|+....|+
T Consensus 127 s~~G~sl~fEmLl~PL~~~~g~ 148 (209)
T COG5388 127 SHGGRSLGFEMLLAPLQGASGE 148 (209)
T ss_pred hccCcccceeeeeecccCCCCC
Confidence 7788888888888898877775
No 116
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=51.85 E-value=21 Score=35.85 Aligned_cols=45 Identities=2% Similarity=-0.080 Sum_probs=37.4
Q ss_pred ccchhHHHHHHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChh
Q 019110 236 MGFISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRN 282 (346)
Q Consensus 236 l~~~~~~l~~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~ 282 (346)
+...++..+.+++.+|.++++++.. +|.+++.|+.+..++|+...
T Consensus 329 L~e~e~~~r~iv~~~p~gi~i~~~~--~g~~~~~N~~a~~~~~l~~~ 373 (924)
T PRK10841 329 LEEHEQFNRKIVASAPVGICILRTS--DGTNILSNELAHNYLNMLTH 373 (924)
T ss_pred HHHHHHHHHHHHHhCCccEEEEEcC--CCcEEEehHHHHHHhccCCh
Confidence 4455666788999999999999864 89999999999999987543
No 117
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=51.31 E-value=24 Score=32.81 Aligned_cols=92 Identities=11% Similarity=0.018 Sum_probs=48.0
Q ss_pred HHHhccCCcEEEEcCCCCCCCeeeecHhHHHHcCCChhh-hhcCCccccccCCcchhHHHHHHHHHhcCCceEEEEEeEe
Q 019110 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNE-VVGQNCRFLNGVDTDTTVLYQIKESIQTEQACTVRILNYR 323 (346)
Q Consensus 245 ~~~~~~~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e-~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 323 (346)
..+...+..++++|. +|.++..+-.-....+.+.-- ..|..|.+-.-. -..+..++..+++....-.- |
T Consensus 81 ~~v~~~~~~vLLtD~---~GViL~~~G~~~~~~~~rk~gl~~Ga~WSE~~~G------TNgIGTcLve~~aVtI~~~q-H 150 (606)
T COG3284 81 QAVAGSGCCVLLTDA---DGVILERRGDPRDDEDFRKAGLWLGAVWSEPREG------TNGIGTCLVEGEAVTIHGDQ-H 150 (606)
T ss_pred HHhcCCCeEEEEEcC---ceeEEEeecChhhhhhhhhhcccccccccccccc------ccchhhhhccCcceEEehhh-h
Confidence 345566778999999 999987654422211111111 123333332111 12344555556554432111 1
Q ss_pred cCCCeEEEEEEeeeeecCCCccC
Q 019110 324 KDKSSFWNLLHISPIRNASGKVL 346 (346)
Q Consensus 324 ~dG~~~~~~~~~~~i~d~~G~v~ 346 (346)
-.-....+.+++.||+|+.|+++
T Consensus 151 F~~~~~~lsCsAaPI~D~qG~L~ 173 (606)
T COG3284 151 FIQAHHGLSCSAAPIFDEQGELV 173 (606)
T ss_pred HhhcccCceeeeeccccCCCcEE
Confidence 11123345789999999999874
No 118
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=50.87 E-value=18 Score=25.35 Aligned_cols=26 Identities=23% Similarity=-0.004 Sum_probs=22.9
Q ss_pred EeEecCCCeEEEEEEeeeeecCCCcc
Q 019110 320 LNYRKDKSSFWNLLHISPIRNASGKV 345 (346)
Q Consensus 320 ~~~~~dG~~~~~~~~~~~i~d~~G~v 345 (346)
.++++||+++-++-++..+.|++|++
T Consensus 68 ~~rR~DGs~i~FddNA~Viin~~g~P 93 (122)
T COG0093 68 EVRRPDGSYIKFDDNAAVIINPDGEP 93 (122)
T ss_pred ceEcCCCCEEEeCCceEEEECCCCCc
Confidence 35799999999999999999999876
No 119
>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=44.77 E-value=50 Score=21.58 Aligned_cols=47 Identities=15% Similarity=0.151 Sum_probs=33.5
Q ss_pred HHHHHhcCCceEEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccc
Q 019110 82 IREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (346)
Q Consensus 82 ~~~~~~~~~~~~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT 134 (346)
+.+.+.+++.. +.....|.+.-+-+...|+++ .+|++++.+|++ |+|
T Consensus 37 Le~vl~~g~v~----r~~P~~G~Y~G~PViV~PI~~-~~g~viaAiGvV-D~t 83 (84)
T PF09884_consen 37 LEEVLETGKVI----RVTPIEGPYKGVPVIVAPIKD-EDGEVIAAIGVV-DLT 83 (84)
T ss_pred HHHHHHcCCEE----EeccCCcccCCeeEEEEEEEc-CCCCEEEEEEEE-Ecc
Confidence 44556665432 334557777777788999999 889999999985 554
No 120
>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=33.88 E-value=2.6e+02 Score=22.81 Aligned_cols=82 Identities=12% Similarity=0.172 Sum_probs=45.7
Q ss_pred hhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEEEEEeeeCCCC
Q 019110 25 DELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGT 104 (346)
Q Consensus 25 ~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dg~ 104 (346)
..+|+--++.+.+ + ++|.++-..++|.+...+ ..+.+....+..|.+. -....+.
T Consensus 69 ~~~pDfRFi~~~~---~--~~WdDgN~~FYGi~~~~L------------------~~ls~~~~~~~~W~~i--~~~s~~g 123 (238)
T PF09308_consen 69 SNAPDFRFISSHD---G--VIWDDGNAPFYGISESSL------------------QHLSQKVAFSNNWHYI--QTPSSMG 123 (238)
T ss_dssp CCS-SEEEEEETT---C--EEEE-SHHHHCT--HHHH------------------HHHHHHT-STTS-EEE--EEEETTC
T ss_pred cCCCCEEEEEeCC---C--cEEeCCCCcccCcCHHHH------------------HHHhhcccccCceeEE--EecCCCC
Confidence 3455555666553 2 456666777777765433 2333344444455542 2244566
Q ss_pred eEEEEeeecccccCCCCceeEEEEEee
Q 019110 105 PFWMLFKMSLVFGKEDGRATHFVAVQV 131 (346)
Q Consensus 105 ~~~~~~~~~~~~~~~~g~~~~~~~~~~ 131 (346)
.+.+.++-+|+.++..|++.|++-+..
T Consensus 124 ~~~lLvRR~pIi~~~tGEVlG~Ly~gv 150 (238)
T PF09308_consen 124 NRYLLVRRTPIIDPKTGEVLGYLYIGV 150 (238)
T ss_dssp EEEEEEEEEEEE-TTTSBEEEEEEEEE
T ss_pred ceEEEEeecceeeCCCCeEEEEEEEEE
Confidence 778889999998878999999755443
No 121
>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=26.66 E-value=2.8e+02 Score=20.92 Aligned_cols=97 Identities=14% Similarity=0.124 Sum_probs=50.7
Q ss_pred hhHHHHHHHHhhCCCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCceEE
Q 019110 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (346)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (346)
...+.+..+.+.+..++.++|.+ |..+.....+..+..+-...-.|.. .-.........++...+++.
T Consensus 9 ~lq~i~~~fs~~tgl~~~i~d~~---G~~l~~~~~~~~fC~~~~~~~~~~~-------~C~~~~~~~~~~a~~~~~~~-- 76 (173)
T PF10114_consen 9 ELQEIQDSFSKATGLSIVIVDPD---GNPLTQPSNFCPFCKLIRSSPEGRE-------RCRESDRRLAEQAMKKGEPY-- 76 (173)
T ss_pred HHHHHHHHHHHHHCCcEEEEeCC---CCEEeeCCCchhhhhHHhcCCcccc-------cCHHHHHHHHHHhhccCCCE--
Confidence 34456667778889999999997 8888544444443322222111111 00001111222333444433
Q ss_pred EEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEee
Q 019110 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQV 131 (346)
Q Consensus 95 e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 131 (346)
.+....|-.. .+.|+.- +|...|++....
T Consensus 77 --i~~C~~GL~~----~~~PI~~--~g~~iG~i~~G~ 105 (173)
T PF10114_consen 77 --IYRCHAGLVD----IAVPIIV--DGEYIGYIICGQ 105 (173)
T ss_pred --EEEcCcCcee----eeeeEEE--CCEEEEEEEEEE
Confidence 3345566433 3578876 788888775543
No 122
>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=25.96 E-value=80 Score=20.22 Aligned_cols=30 Identities=10% Similarity=0.217 Sum_probs=23.4
Q ss_pred EEEEeeecccccCCCCceeEEEEEeeccccc
Q 019110 106 FWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (346)
Q Consensus 106 ~~~~~~~~~~~~~~~g~~~~~~~~~~DIT~~ 136 (346)
.++-....|+++ .+|++.|++++-.++...
T Consensus 12 ~~vi~~s~pi~~-~~g~~~Gvv~~di~l~~l 41 (81)
T PF02743_consen 12 QPVITISVPIYD-DDGKIIGVVGIDISLDQL 41 (81)
T ss_dssp EEEEEEEEEEEE-TTTEEEEEEEEEEEHHHH
T ss_pred cEEEEEEEEEEC-CCCCEEEEEEEEecccee
Confidence 456677899999 899999998886665443
No 123
>PF07411 DUF1508: Domain of unknown function (DUF1508); InterPro: IPR010879 This domain is found in a family of proteins, which have no known function. Members of this family are often found as tandem repeats and in some cases represent the whole protein.; PDB: 3BID_H 2K49_A 2K8E_A 2K7I_A.
Probab=25.24 E-value=51 Score=19.05 Aligned_cols=11 Identities=0% Similarity=-0.200 Sum_probs=4.5
Q ss_pred EEeEecCCCeE
Q 019110 319 ILNYRKDKSSF 329 (346)
Q Consensus 319 ~~~~~~dG~~~ 329 (346)
++++..||+.+
T Consensus 8 f~L~a~ng~vi 18 (49)
T PF07411_consen 8 FRLKAGNGEVI 18 (49)
T ss_dssp EEEE-TTS-EE
T ss_pred EEEEcCCCCEE
Confidence 44455555544
No 124
>PRK08571 rpl14p 50S ribosomal protein L14P; Reviewed
Probab=23.30 E-value=1e+02 Score=22.43 Aligned_cols=28 Identities=14% Similarity=-0.079 Sum_probs=23.0
Q ss_pred EEeEecCCCeEEEEEEeeeeecCCCccC
Q 019110 319 ILNYRKDKSSFWNLLHISPIRNASGKVL 346 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~d~~G~v~ 346 (346)
...+++||++.-..-++..+.|.+|+++
T Consensus 78 k~~~R~dGs~i~F~dNa~VLin~~~~p~ 105 (132)
T PRK08571 78 KEYRRPDGTRVKFEDNAAVIVTPEGTPK 105 (132)
T ss_pred cceEcCCCcEEEeCCcEEEEECCCCCEe
Confidence 3457899999999889999999888763
No 125
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=23.13 E-value=6.5e+02 Score=23.86 Aligned_cols=96 Identities=16% Similarity=0.134 Sum_probs=53.9
Q ss_pred hhhHHHHHHHHhhC-CCcEEEecCCCCCCCEEEEehhHHhhhCCCchhhcCCCCCcccCCCCChhhHHHHHHHHhcCCce
Q 019110 14 NRYTLWVHEALDEL-PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPI 92 (346)
Q Consensus 14 ~~~~~~~~~~~~~~-~~~i~~~d~~~~d~~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (346)
.+.+..++.+-..+ ...++++|+. |..+.++-. + .+..++|.+. .+...|.+++.++...
T Consensus 85 ~~~n~~L~~in~~a~ss~iYlid~~---G~~iaASNw-----~-~p~SFVG~ny----------afRpYf~~Am~gg~~r 145 (603)
T COG4191 85 AAANRYLEQINEAAGSSAIYLIDPT---GLTLAASNW-----N-LPTSFVGRNY----------AFRPYFQDAMAGGSGR 145 (603)
T ss_pred HHHHHHHHHHHhhccCCeEEEECCC---CcEEeeccC-----C-CCCcccccCc----------ccHHHHHHHHhcCCce
Confidence 34556666665544 3477899997 777754421 1 1344555543 2345677777776543
Q ss_pred EEEEEeeeCCCCeEEEEeeecccccCCCCceeEEEEEeeccc
Q 019110 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (346)
Q Consensus 93 ~~e~~~~~~dg~~~~~~~~~~~~~~~~~g~~~~~~~~~~DIT 134 (346)
.+-+-.. .|+. -.....|+++ .|.++|++.+-.|+.
T Consensus 146 ~yalGtt--s~~p--Gyy~a~pV~~--~~~ilGvivvKvdl~ 181 (603)
T COG4191 146 FYALGTT--SGRP--GYYLAAPVDD--GGGILGVIVVKVDLD 181 (603)
T ss_pred eEeeccc--cCCC--ceeEeeeecc--CCceeEEEEEEEehH
Confidence 3322211 2221 2234678877 566999988876654
No 126
>COG4863 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.29 E-value=1.2e+02 Score=26.40 Aligned_cols=42 Identities=19% Similarity=0.457 Sum_probs=31.9
Q ss_pred CCcEEEEcCCCCCCCeeeecHhHHHHcCCChhhhhcCCcccc
Q 019110 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFL 292 (346)
Q Consensus 251 ~~~i~~~d~~~~dg~i~~~N~~~~~l~G~~~~e~~g~~~~~l 292 (346)
.+|+-+++.+..+..+.|.|+...+-.-|...|+|..++.++
T Consensus 256 tdg~svi~~n~~n~~~eY~nps~~etts~r~gelIq~SfdFi 297 (439)
T COG4863 256 TDGISVIDVNLSNRQVEYQNPSLVETTSYRTGELIQKSFDFI 297 (439)
T ss_pred cCCceEEEecCCccEEEEeccchhccccccccccchhhhhhh
Confidence 467777776544556889999999999888888887776554
No 127
>PTZ00054 60S ribosomal protein L23; Provisional
Probab=21.25 E-value=1.1e+02 Score=22.41 Aligned_cols=28 Identities=21% Similarity=0.082 Sum_probs=23.2
Q ss_pred EEeEecCCCeEEEEEEeeeeecCCCccC
Q 019110 319 ILNYRKDKSSFWNLLHISPIRNASGKVL 346 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~d~~G~v~ 346 (346)
..++++||+++-..-++..+.|.+|+++
T Consensus 85 k~~rR~dGs~i~F~dNA~VLin~~~~p~ 112 (139)
T PTZ00054 85 KAWRRKDGVFIYFEDNAGVIVNPKGEMK 112 (139)
T ss_pred cceEcCCCcEEEeCCcEEEEECCCCCEe
Confidence 3457899999999999999999888763
No 128
>PF14827 Cache_3: Sensory domain of two-component sensor kinase; PDB: 1OJG_A 3BY8_A 1P0Z_I 2V9A_A 2J80_B.
Probab=20.97 E-value=1.2e+02 Score=21.17 Aligned_cols=27 Identities=26% Similarity=0.294 Sum_probs=19.0
Q ss_pred EEEEeeecccccCCCCceeEEEEEeecc
Q 019110 106 FWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (346)
Q Consensus 106 ~~~~~~~~~~~~~~~g~~~~~~~~~~DI 133 (346)
-+......|+++ .+|+++|++.+...+
T Consensus 87 ~~~~~~~~PV~d-~~g~viG~V~VG~~~ 113 (116)
T PF14827_consen 87 GPSLRAFAPVYD-SDGKVIGVVSVGVSL 113 (116)
T ss_dssp CEEEEEEEEEE--TTS-EEEEEEEEEEH
T ss_pred ceEEEEEEeeEC-CCCcEEEEEEEEEEc
Confidence 345567899998 899999998876543
No 129
>TIGR03673 rpl14p_arch 50S ribosomal protein L14P. Part of the 50S ribosomal subunit. Forms a cluster with proteins L3 and L24e, part of which may contact the 16S rRNA in 2 intersubunit bridges.
Probab=20.61 E-value=1.2e+02 Score=22.15 Aligned_cols=28 Identities=14% Similarity=-0.088 Sum_probs=22.8
Q ss_pred EEeEecCCCeEEEEEEeeeeecCCCccC
Q 019110 319 ILNYRKDKSSFWNLLHISPIRNASGKVL 346 (346)
Q Consensus 319 ~~~~~~dG~~~~~~~~~~~i~d~~G~v~ 346 (346)
...+++||.++-..-++..+.|.+|+++
T Consensus 77 k~~~R~dGs~i~FddNa~VLin~~~~P~ 104 (131)
T TIGR03673 77 KEYRRPDGTRVKFEDNAVVIVTPDGEPK 104 (131)
T ss_pred cceecCCCcEEEeCCcEEEEECCCCCEe
Confidence 3457899999988888988999888763
Done!