Query 021027
Match_columns 318
No_of_seqs 246 out of 1822
Neff 10.9
Searched_HMMs 46136
Date Fri Mar 29 07:01:50 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/021027.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/021027hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK13560 hypothetical protein; 99.8 1.2E-18 2.5E-23 166.7 20.7 179 15-293 201-382 (807)
2 TIGR02040 PpsR-CrtJ transcript 99.8 1.2E-19 2.5E-24 161.4 12.3 201 24-314 2-204 (442)
3 TIGR02040 PpsR-CrtJ transcript 99.8 8E-18 1.7E-22 149.6 19.2 173 15-295 130-304 (442)
4 TIGR02938 nifL_nitrog nitrogen 99.8 3.2E-18 6.9E-23 154.5 12.6 180 18-297 4-183 (494)
5 PRK09776 putative diguanylate 99.8 9.2E-18 2E-22 165.4 16.7 201 15-315 280-482 (1092)
6 PRK09776 putative diguanylate 99.8 3.5E-17 7.7E-22 161.3 18.5 179 15-294 407-586 (1092)
7 PRK13560 hypothetical protein; 99.7 2.3E-16 4.9E-21 151.0 19.0 194 18-312 68-272 (807)
8 PF13426 PAS_9: PAS domain; PD 99.7 2.5E-16 5.5E-21 111.0 13.6 104 28-135 1-104 (104)
9 PRK11359 cyclic-di-GMP phospho 99.7 1.2E-15 2.7E-20 145.7 18.7 193 17-315 11-208 (799)
10 PF08448 PAS_4: PAS fold; Int 99.7 1.8E-15 3.9E-20 107.8 11.5 110 24-138 1-110 (110)
11 PF00989 PAS: PAS fold; Inter 99.6 6.4E-15 1.4E-19 105.5 13.1 112 18-133 1-113 (113)
12 PRK11091 aerobic respiration c 99.4 2.9E-12 6.2E-17 122.2 15.5 122 15-140 152-273 (779)
13 PRK13559 hypothetical protein; 99.4 8.1E-12 1.7E-16 108.4 16.9 124 15-139 40-163 (361)
14 PRK13557 histidine kinase; Pro 99.4 4.9E-12 1.1E-16 115.7 13.7 127 15-142 27-153 (540)
15 PRK13558 bacterio-opsin activa 99.3 6.2E-11 1.3E-15 111.1 14.4 125 19-144 149-273 (665)
16 PRK10060 RNase II stability mo 99.2 4.2E-10 9.2E-15 104.9 16.2 120 16-140 109-230 (663)
17 PF00989 PAS: PAS fold; Inter 99.2 2.1E-11 4.5E-16 87.1 5.7 72 241-315 1-72 (113)
18 TIGR00229 sensory_box PAS doma 99.2 6.6E-10 1.4E-14 78.4 12.2 117 18-139 3-120 (124)
19 PF08447 PAS_3: PAS fold; Int 99.2 3.1E-10 6.6E-15 77.7 9.3 86 43-130 1-91 (91)
20 PF13426 PAS_9: PAS domain; PD 99.1 1.3E-10 2.9E-15 81.4 6.3 63 251-316 1-63 (104)
21 PRK11359 cyclic-di-GMP phospho 99.0 2.7E-09 5.8E-14 102.4 12.6 121 16-140 134-255 (799)
22 PF13596 PAS_10: PAS domain; P 99.0 4.7E-09 1E-13 74.0 9.5 106 20-134 1-106 (106)
23 cd00130 PAS PAS domain; PAS mo 99.0 3.8E-08 8.3E-13 66.1 13.6 102 28-133 2-103 (103)
24 PF12860 PAS_7: PAS fold 98.9 1E-08 2.2E-13 73.5 9.5 104 24-140 1-114 (115)
25 PF08448 PAS_4: PAS fold; Int 98.9 3.2E-09 6.9E-14 75.2 4.8 67 247-316 1-67 (110)
26 COG3829 RocR Transcriptional r 98.8 1.5E-08 3.4E-13 88.0 8.3 162 22-293 5-166 (560)
27 COG3829 RocR Transcriptional r 98.8 2.1E-07 4.5E-12 81.2 14.9 112 15-139 114-225 (560)
28 PRK11360 sensory histidine kin 98.8 7.1E-08 1.5E-12 89.5 12.6 121 16-143 260-381 (607)
29 PF14598 PAS_11: PAS domain; P 98.8 3.9E-07 8.5E-12 64.4 12.8 101 32-135 6-108 (111)
30 KOG0501 K+-channel KCNQ [Inorg 98.8 7E-08 1.5E-12 83.8 10.3 121 18-139 14-139 (971)
31 TIGR02966 phoR_proteo phosphat 98.7 8.1E-08 1.8E-12 82.2 10.7 108 15-139 3-110 (333)
32 PRK13557 histidine kinase; Pro 98.7 3.4E-08 7.5E-13 90.4 7.5 75 241-315 30-104 (540)
33 PRK11073 glnL nitrogen regulat 98.7 1.6E-07 3.4E-12 81.2 11.1 111 18-139 7-117 (348)
34 KOG3558 Hypoxia-inducible fact 98.6 4.7E-07 1E-11 80.2 11.6 61 254-315 275-335 (768)
35 PRK10060 RNase II stability mo 98.6 9.1E-08 2E-12 89.5 7.6 71 243-316 113-184 (663)
36 PRK13559 hypothetical protein; 98.6 1.2E-07 2.7E-12 82.3 7.6 75 241-315 43-117 (361)
37 PF13188 PAS_8: PAS domain; PD 98.6 9.1E-08 2E-12 60.5 4.6 45 242-293 2-46 (64)
38 COG5002 VicK Signal transducti 98.6 9.5E-07 2.1E-11 72.5 11.2 115 15-140 108-222 (459)
39 PRK11388 DNA-binding transcrip 98.4 3E-06 6.6E-11 79.0 12.0 49 243-294 205-253 (638)
40 PRK10820 DNA-binding transcrip 98.4 3.1E-06 6.7E-11 76.6 10.2 108 16-137 78-189 (520)
41 PRK11006 phoR phosphate regulo 98.3 2.6E-06 5.6E-11 75.9 7.6 106 15-139 95-200 (430)
42 PF13188 PAS_8: PAS domain; PD 98.2 3E-06 6.6E-11 53.4 5.2 42 18-66 1-42 (64)
43 PRK11091 aerobic respiration c 98.2 1.8E-06 4E-11 82.7 5.5 74 239-315 153-226 (779)
44 TIGR00229 sensory_box PAS doma 98.2 4.6E-06 1E-10 58.2 6.4 66 242-310 4-69 (124)
45 TIGR02938 nifL_nitrog nitrogen 98.1 3.7E-06 8E-11 76.1 5.6 72 241-315 4-75 (494)
46 TIGR02966 phoR_proteo phosphat 98.0 4.3E-06 9.4E-11 71.5 4.2 53 240-295 5-57 (333)
47 PRK11073 glnL nitrogen regulat 98.0 9.1E-06 2E-10 70.2 6.0 67 242-313 8-74 (348)
48 COG2202 AtoS FOG: PAS/PAC doma 98.0 0.00033 7.2E-09 54.1 14.1 118 17-139 111-231 (232)
49 cd00130 PAS PAS domain; PAS mo 98.0 1.9E-05 4.1E-10 52.4 6.0 59 251-312 2-60 (103)
50 PRK13558 bacterio-opsin activa 98.0 1.8E-05 3.8E-10 74.7 7.2 73 243-315 150-222 (665)
51 PRK11086 sensory histidine kin 97.9 5.7E-05 1.2E-09 69.4 9.8 109 16-140 219-330 (542)
52 PF08447 PAS_3: PAS fold; Int 97.9 8.5E-06 1.8E-10 55.4 2.7 50 266-316 1-55 (91)
53 smart00091 PAS PAS domain. PAS 97.9 3.5E-05 7.5E-10 46.8 5.4 63 243-308 3-65 (67)
54 COG5000 NtrY Signal transducti 97.9 0.0001 2.2E-09 65.4 9.6 112 16-139 368-480 (712)
55 PRK11006 phoR phosphate regulo 97.8 1.7E-05 3.6E-10 70.7 3.3 52 241-295 98-149 (430)
56 KOG1229 3'5'-cyclic nucleotide 97.8 1.4E-05 3E-10 67.6 2.5 72 243-317 159-231 (775)
57 PF14598 PAS_11: PAS domain; P 97.8 3.2E-05 7E-10 54.6 4.0 53 263-315 11-65 (111)
58 PRK10820 DNA-binding transcrip 97.8 2.1E-05 4.7E-10 71.2 3.6 54 241-297 80-133 (520)
59 KOG1229 3'5'-cyclic nucleotide 97.7 1.5E-05 3.2E-10 67.5 2.1 105 20-128 159-264 (775)
60 PF12860 PAS_7: PAS fold 97.7 2E-05 4.3E-10 56.3 2.5 44 247-293 1-45 (115)
61 PRK11388 DNA-binding transcrip 97.6 0.00055 1.2E-08 64.1 10.7 108 19-138 204-311 (638)
62 PF13596 PAS_10: PAS domain; P 97.6 3.6E-05 7.8E-10 54.0 2.2 66 243-312 1-66 (106)
63 KOG3559 Transcriptional regula 97.5 0.0013 2.9E-08 55.2 9.9 55 20-77 81-135 (598)
64 KOG3558 Hypoxia-inducible fact 97.4 0.0004 8.6E-09 62.3 6.4 95 34-131 280-374 (768)
65 PF08670 MEKHLA: MEKHLA domain 97.4 0.0072 1.6E-07 44.5 12.0 112 18-132 32-144 (148)
66 PRK09959 hybrid sensory histid 97.4 0.0016 3.4E-08 65.9 11.5 42 15-59 573-614 (1197)
67 COG3290 CitA Signal transducti 97.4 0.0011 2.4E-08 58.5 8.9 109 16-139 213-323 (537)
68 PRK15053 dpiB sensor histidine 97.4 0.00087 1.9E-08 61.7 8.8 106 17-139 221-328 (545)
69 COG2461 Uncharacterized conser 97.3 0.0011 2.3E-08 55.8 7.2 114 16-139 288-401 (409)
70 COG3852 NtrB Signal transducti 97.3 0.0029 6.3E-08 51.8 9.3 109 21-138 10-118 (363)
71 smart00091 PAS PAS domain. PAS 97.3 0.0014 3E-08 39.3 6.3 54 19-75 2-55 (67)
72 PRK11360 sensory histidine kin 97.2 0.00064 1.4E-08 63.2 6.4 67 242-313 263-329 (607)
73 COG2202 AtoS FOG: PAS/PAC doma 97.1 0.029 6.3E-07 42.9 13.6 52 243-297 114-165 (232)
74 PF08670 MEKHLA: MEKHLA domain 97.1 0.0016 3.4E-08 47.9 5.5 69 243-312 33-101 (148)
75 TIGR02373 photo_yellow photoac 97.0 0.0094 2E-07 42.0 8.8 67 21-90 19-86 (124)
76 TIGR02373 photo_yellow photoac 96.8 0.0025 5.5E-08 44.9 4.7 65 246-313 21-86 (124)
77 COG3283 TyrR Transcriptional r 96.7 0.0028 6E-08 53.2 4.7 59 241-302 80-138 (511)
78 KOG0501 K+-channel KCNQ [Inorg 96.4 0.0024 5.1E-08 56.5 2.9 63 251-313 27-91 (971)
79 PRK15053 dpiB sensor histidine 96.4 0.0038 8.3E-08 57.5 4.4 52 242-296 223-276 (545)
80 COG3852 NtrB Signal transducti 96.4 0.0052 1.1E-07 50.3 4.5 67 245-316 11-77 (363)
81 COG3283 TyrR Transcriptional r 96.1 0.017 3.6E-07 48.7 6.2 56 16-74 78-133 (511)
82 KOG3753 Circadian clock protei 96.1 0.019 4.2E-07 53.3 7.0 58 254-312 332-389 (1114)
83 PRK11086 sensory histidine kin 96.1 0.0092 2E-07 54.9 5.0 51 241-294 221-274 (542)
84 COG5002 VicK Signal transducti 95.9 0.0096 2.1E-07 49.7 4.0 56 242-300 112-167 (459)
85 smart00086 PAC Motif C-termina 95.7 0.1 2.2E-06 27.1 6.9 39 97-136 5-43 (43)
86 COG3290 CitA Signal transducti 95.7 0.016 3.4E-07 51.5 4.6 51 243-296 217-269 (537)
87 KOG3561 Aryl-hydrocarbon recep 95.6 0.0053 1.2E-07 57.3 1.6 63 240-305 93-156 (803)
88 KOG3560 Aryl-hydrocarbon recep 95.5 0.065 1.4E-06 47.3 7.4 93 41-135 293-385 (712)
89 PF07310 PAS_5: PAS domain; I 95.3 0.39 8.4E-06 35.3 10.2 87 40-130 50-136 (137)
90 COG5000 NtrY Signal transducti 94.4 0.057 1.2E-06 48.7 4.3 48 243-293 372-419 (712)
91 KOG3561 Aryl-hydrocarbon recep 93.7 0.061 1.3E-06 50.5 3.3 58 19-79 96-153 (803)
92 PF08446 PAS_2: PAS fold; Int 92.6 0.15 3.2E-06 35.9 3.2 42 254-297 18-62 (110)
93 PRK09959 hybrid sensory histid 91.0 0.36 7.7E-06 49.2 5.2 42 241-285 576-617 (1197)
94 KOG3559 Transcriptional regula 90.6 0.54 1.2E-05 40.2 4.9 85 30-117 227-311 (598)
95 KOG3560 Aryl-hydrocarbon recep 89.8 0.36 7.8E-06 42.8 3.4 63 244-309 114-176 (712)
96 COG3284 AcoR Transcriptional a 88.3 13 0.00028 34.4 12.1 41 250-293 231-272 (606)
97 PF08446 PAS_2: PAS fold; Int 87.8 0.82 1.8E-05 32.1 3.6 43 30-74 17-62 (110)
98 PRK10841 hybrid sensory kinase 87.7 6.5 0.00014 39.0 10.9 42 15-58 331-372 (924)
99 KOG3753 Circadian clock protei 87.1 1.9 4.2E-05 40.9 6.3 90 39-128 339-431 (1114)
100 PF07310 PAS_5: PAS domain; I 80.0 3.8 8.3E-05 30.0 4.4 51 263-316 50-100 (137)
101 PF06785 UPF0242: Uncharacteri 73.1 7.7 0.00017 32.5 4.7 86 22-115 291-378 (401)
102 PRK14538 putative bifunctional 70.8 5.6 0.00012 38.7 4.0 46 242-293 103-149 (838)
103 PRK13719 conjugal transfer tra 69.4 7.4 0.00016 30.8 3.8 36 242-280 20-55 (217)
104 PRK10618 phosphotransfer inter 68.6 12 0.00026 37.0 5.9 40 15-56 340-379 (894)
105 PRK10618 phosphotransfer inter 68.0 6.9 0.00015 38.6 4.1 40 239-280 341-380 (894)
106 PF08348 PAS_6: YheO-like PAS 67.1 24 0.00051 25.1 5.7 45 92-139 68-112 (118)
107 COG5388 Uncharacterized protei 66.8 45 0.00098 25.8 7.2 107 23-133 53-159 (209)
108 PRK13719 conjugal transfer tra 62.1 15 0.00032 29.2 4.1 39 16-57 17-55 (217)
109 COG3887 Predicted signaling pr 61.5 21 0.00045 32.9 5.4 39 15-56 72-110 (655)
110 COG2461 Uncharacterized conser 57.2 22 0.00048 30.9 4.6 68 241-314 290-357 (409)
111 COG3887 Predicted signaling pr 56.9 16 0.00034 33.7 3.9 35 241-278 75-109 (655)
112 PRK14538 putative bifunctional 53.4 25 0.00054 34.5 4.9 45 18-68 102-147 (838)
113 PF09884 DUF2111: Uncharacteri 49.5 54 0.0012 21.5 4.4 33 100-134 51-83 (84)
114 PF09308 LuxQ-periplasm: LuxQ, 31.6 2.9E+02 0.0062 22.6 10.7 91 16-131 56-150 (238)
115 PF06785 UPF0242: Uncharacteri 30.0 25 0.00055 29.6 0.9 36 251-288 297-332 (401)
116 COG4191 Signal transduction hi 28.8 5E+02 0.011 24.5 11.9 97 15-136 86-183 (603)
117 PRK10841 hybrid sensory kinase 26.4 94 0.002 31.2 4.3 41 239-281 332-372 (924)
No 1
>PRK13560 hypothetical protein; Provisional
Probab=99.82 E-value=1.2e-18 Score=166.69 Aligned_cols=179 Identities=15% Similarity=0.145 Sum_probs=144.0
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
+..++++.++++++++++++|.+ |+++++|++++.++||+.++++|+++..+.++.............+..+.....
T Consensus 201 ~~~~~l~~l~e~~~~~i~~~d~~---g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 277 (807)
T PRK13560 201 EALHFLQQLLDNIADPAFWKDED---AKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDADGSQII 277 (807)
T ss_pred HHHHHHHHHHhhCCCeEEEEcCC---CCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccCCceEE
Confidence 56678999999999999999999 999999999999999999999999988887665544443444445555666777
Q ss_pred EEEEEecCCcEEEEEEEE--EeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKM--SLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSL 172 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~--~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (318)
+..+.+++|..+|+.+.. .|+.+ .+|.+.+++++++|||++|++
T Consensus 278 e~~~~~~dG~~~~~~~~~~~~~~~~-~~g~~~g~~~~~~DITerk~~--------------------------------- 323 (807)
T PRK13560 278 EAEFQNKDGRTRPVDVIFNHAEFDD-KENHCAGLVGAITDISGRRAA--------------------------------- 323 (807)
T ss_pred EEEEEcCCCCEEEEEEEecceEEEc-CCCCEEEEEEEEEechHHHHH---------------------------------
Confidence 888889999999766654 45567 788999999999999999997
Q ss_pred hhccccccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCC
Q 021027 173 LDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQ 252 (318)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 252 (318)
+...+.. +..++.+++++++
T Consensus 324 -------------------------e~~L~~s-----------------------------------e~~l~~l~~~~~~ 343 (807)
T PRK13560 324 -------------------------ERELLEK-----------------------------------EDMLRAIIEAAPI 343 (807)
T ss_pred -------------------------HHHHHHH-----------------------------------HHHHHHHHHhCcc
Confidence 1111111 1226668888999
Q ss_pred cEEEecCCCCCCCeeEe-cHHHHHHhCCCcccccCCCccccc
Q 021027 253 SFVLIDPHLPDMPMVYA-SDAFLKLTGYDRNEVVGQNCRFLN 293 (318)
Q Consensus 253 ~i~i~d~~~~~~~i~~~-N~a~~~~~Gy~~~el~G~~~~~l~ 293 (318)
+|+++|.++ .++++ |+++++++||+.++++|+++..+.
T Consensus 344 ~i~~~d~~g---~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~ 382 (807)
T PRK13560 344 AAIGLDADG---NICFVNNNAAERMLGWSAAEVMGKPLPGMD 382 (807)
T ss_pred cEEEEcCCC---CEEEecCHHHHHHhCCCHHHHcCCCccccC
Confidence 999999997 89887 678888999999999999876654
No 2
>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=99.82 E-value=1.2e-19 Score=161.36 Aligned_cols=201 Identities=14% Similarity=0.084 Sum_probs=145.2
Q ss_pred HhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcC-CeEEEEEEEecC
Q 021027 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER-PIEVNLLNYKKD 102 (318)
Q Consensus 24 ~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ 102 (318)
++.++++++++|.+ |+++++|++++.++||+.++++|+++..+++++........+......+. .+..+.....++
T Consensus 2 ~~~~~d~~~~~d~~---g~i~~~n~~~~~~~g~~~~el~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~ 78 (442)
T TIGR02040 2 LATAADVTLLLDAE---GVVREVAANPHHPSFEQLSEWEGRRWEEIVTAESVEKFELRLSEALRTGRGAVRVELNHIDPS 78 (442)
T ss_pred CcccCcEEEEECCC---CcEEEEEECCCcccccccccCCCCcHhHhhCcchHHHHHHHHHHHhccCCCcceEeeccCCCC
Confidence 56789999999999 99999999999999999999999998888887765554555545555443 345554444556
Q ss_pred CcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccchhcccccccc
Q 021027 103 GTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLALD 182 (318)
Q Consensus 103 g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 182 (318)
|...|+.++..++.+ + .+++++.+|||+.+..++++..
T Consensus 79 g~~~~~~~~~~~~~~---~--~~~~~i~rDi~~~~~~~~~l~~------------------------------------- 116 (442)
T TIGR02040 79 SFELPMRFILVRLGA---D--RGVLALGRDLRAVAELQQQLVA------------------------------------- 116 (442)
T ss_pred CCccCeEEEEEEeCC---C--CeEEEEecccHHHHHHHHHHHH-------------------------------------
Confidence 667777776666543 2 2668899999998775111100
Q ss_pred CCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCCcEEEecC-CC
Q 021027 183 SDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDP-HL 261 (318)
Q Consensus 183 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~i~d~-~~ 261 (318)
......+.... ++..+.+++.++++++++|+++|. +|
T Consensus 117 -----------------~~~~~e~~~~~-------------------------l~~~e~r~~~l~e~~~~~i~~~d~~~g 154 (442)
T TIGR02040 117 -----------------AQQAMERDYWT-------------------------LREMETRYRVVLEVSSDAVLLVDMSTG 154 (442)
T ss_pred -----------------HHHHHHHHHHH-------------------------HHHHHHHHHHHHhhCCceEEEEECCCC
Confidence 00000000000 011233477889999999999997 56
Q ss_pred CCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccc
Q 021027 262 PDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA 314 (318)
Q Consensus 262 ~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~ 314 (318)
+|+++|+++++|+||+.++++|+++..+++|.+...+...+......+..
T Consensus 155 ---~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~ 204 (442)
T TIGR02040 155 ---RIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSA 204 (442)
T ss_pred ---EEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCC
Confidence 99999999999999999999999999998888877778888877766544
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=99.79 E-value=8e-18 Score=149.63 Aligned_cols=173 Identities=18% Similarity=0.167 Sum_probs=130.1
Q ss_pred hhHHHHHHHHhcCCCeEEEEcC-CCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeE
Q 021027 15 RYTLWVHEALDELPDSFTITDP-SISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~-~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 93 (318)
..+++++.+++.++++++++|. + |+++++|++++.++||++++++|+++..+++++........+......+....
T Consensus 130 ~~e~r~~~l~e~~~~~i~~~d~~~---g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~ 206 (442)
T TIGR02040 130 EMETRYRVVLEVSSDAVLLVDMST---GRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRATGSAAP 206 (442)
T ss_pred HHHHHHHHHHhhCCceEEEEECCC---CEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHhcCCCcc
Confidence 3457899999999999999997 7 99999999999999999999999988777777665555666666665555544
Q ss_pred EEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccch
Q 021027 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (318)
Q Consensus 94 ~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (318)
.+.. .++|...| .+...++.. .+. ..+++...|||+++++
T Consensus 207 ~~~~--~~~~~~~~-~~~~~~~~~--~~~-~~~l~~~~dit~~~~~---------------------------------- 246 (442)
T TIGR02040 207 VRIL--LRRSQKRL-LVVVSVFRQ--DGE-SLFLCQLSPAGATQPV---------------------------------- 246 (442)
T ss_pred eEEE--EcCCCeEE-EEEEEEEEe--CCc-eEEEEEEcccchhhhh----------------------------------
Confidence 4443 23333333 345556544 333 3567788899998875
Q ss_pred hccccccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCCc
Q 021027 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (318)
Q Consensus 174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 253 (318)
+.... ..++.++++++++
T Consensus 247 ------------------------e~~~~--------------------------------------~~~~~l~e~~~d~ 264 (442)
T TIGR02040 247 ------------------------GDELS--------------------------------------ENLARLYHEAPDA 264 (442)
T ss_pred ------------------------hHHHH--------------------------------------HHHHHHHHhCCce
Confidence 11000 0156688899999
Q ss_pred EEEecCCCCCCCeeEecHHHHHHhCCC-cccccCCCcccccCC
Q 021027 254 FVLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFLNGV 295 (318)
Q Consensus 254 i~i~d~~~~~~~i~~~N~a~~~~~Gy~-~~el~G~~~~~l~~~ 295 (318)
|+++|.+| +|++||++|++++||+ .++++|+++..+..+
T Consensus 265 I~v~D~~G---~I~~~N~a~~~l~G~~~~~~l~G~~~~~~~~~ 304 (442)
T TIGR02040 265 IVFSDADG---TIRGANEAFLELTDSSSLEAVRGRTLDRWLGR 304 (442)
T ss_pred EEEEcCCC---cEEehhHHHHHHhCCCChHHHcCCCHHHHhCC
Confidence 99999987 9999999999999997 578999999877653
No 4
>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=99.77 E-value=3.2e-18 Score=154.53 Aligned_cols=180 Identities=22% Similarity=0.338 Sum_probs=147.0
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEE
Q 021027 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (318)
..++.+++.++.+++++|.+ ++++++|++++.++|+++++++|+....+.++.........+...+..+.++..+..
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 46889999999999999999 999999999999999999999998866665555555556666677777777777777
Q ss_pred EEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccchhccc
Q 021027 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDR 177 (318)
Q Consensus 98 ~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 177 (318)
..+++|..+|+.....|+.+ .+|.+.+++++++|||++|++
T Consensus 81 ~~~~~g~~~~~~~~~~~~~~-~~g~~~~~~~~~~DIt~~k~~-------------------------------------- 121 (494)
T TIGR02938 81 NRRKDGELYLAELTVAPVLN-EAGETTHFLGMHRDITELHRL-------------------------------------- 121 (494)
T ss_pred ccCCCccchhhheeeEEEEC-CCCCEEEEEEehhhhhHHHHH--------------------------------------
Confidence 77889999999999999998 889999999999999999987
Q ss_pred cccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCCcEEEe
Q 021027 178 VLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLI 257 (318)
Q Consensus 178 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~i~ 257 (318)
+...+... ..+..++++++++++++
T Consensus 122 --------------------e~~l~~~~-----------------------------------~~~~~~~~~~~~~i~~~ 146 (494)
T TIGR02938 122 --------------------EQVVANQK-----------------------------------LLIESVVDAAPVAFVLL 146 (494)
T ss_pred --------------------HHHHHHHH-----------------------------------HHHHHHHhcccceEEEE
Confidence 11111111 12556778889999999
Q ss_pred cCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCC
Q 021027 258 DPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT 297 (318)
Q Consensus 258 d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~ 297 (318)
|.++ .++++|++|++++|+...+..+..+..+.++..
T Consensus 147 d~~~---~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~ 183 (494)
T TIGR02938 147 DPTG---RVILDNQEYKKLATDLRVKEPAHTVLDLLREAW 183 (494)
T ss_pred cCCC---CEEEechhHHHhhchhhhhHHHHHHHHHhhHHh
Confidence 9887 999999999999999998888776655554443
No 5
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.77 E-value=9.2e-18 Score=165.35 Aligned_cols=201 Identities=13% Similarity=0.160 Sum_probs=162.4
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhc-CCeE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIE 93 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~ 93 (318)
..+++++.++++++++++++|.+ |+++++|+++++++||+.++++|+++..+.+|++.......+....... ..+.
T Consensus 280 ~~e~r~~~l~e~~~~~i~~~d~d---G~i~~~N~~~~~l~G~~~~el~g~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~ 356 (1092)
T PRK09776 280 ESETRFRNAMEYSAIGMALVGTE---GQWLQVNKALCQFLGYSQEELRGLTFQQLTWPEDLNKDLQQVEKLLSGEINSYS 356 (1092)
T ss_pred HHHHHHHHHHHhCCceEEEEcCC---CcEEehhHHHHHHhCCCHHHHccCCceeccCcchhHhHHHHHHHHHcCCcccee
Confidence 46678999999999999999999 9999999999999999999999999888877776655554444444333 3356
Q ss_pred EEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccch
Q 021027 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (318)
Q Consensus 94 ~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (318)
.+.+..+++|..+|+.....|+.+ .+|.+.+++++.+|||++|++|+
T Consensus 357 ~e~~~~~~dG~~~~~~~~~~~~~~-~~g~~~~~i~~~~DITerk~~e~-------------------------------- 403 (1092)
T PRK09776 357 MEKRYYRRDGEVVWALLAVSLVRD-TDGTPLYFIAQIEDINELKRTEQ-------------------------------- 403 (1092)
T ss_pred eeeEEEcCCCCEEEEEEEEEEEEC-CCCCEeeehhhHHhhHHHHHHHH--------------------------------
Confidence 777888999999999999999998 88999999999999999999722
Q ss_pred hccccccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCCc
Q 021027 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (318)
Q Consensus 174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 253 (318)
+.+... ..++.+++..+.+
T Consensus 404 --------------------------~l~~~~-----------------------------------~~~~~~~~~~~~~ 422 (1092)
T PRK09776 404 --------------------------VNERLM-----------------------------------ERITLANEAGGIG 422 (1092)
T ss_pred --------------------------HHHHHH-----------------------------------HHHHHHHHhcCce
Confidence 112111 1144566778999
Q ss_pred EEEecCCCCCCCeeEecHHHHHHhCCCcccccCCC-cccccCCCCCHHHHHHHHHHHhcccce
Q 021027 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQN-CRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 254 i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~-~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
++.+|.++ .++++|+++++++||+.++..+.. +...++|++.......+.+++..+.++
T Consensus 423 i~~~d~~~---~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~ 482 (1092)
T PRK09776 423 IWEWDLKP---NIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQGRSPF 482 (1092)
T ss_pred EEEEecCC---CeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHhcCCCe
Confidence 99999997 999999999999999999855432 345677888888888888888887765
No 6
>PRK09776 putative diguanylate cyclase; Provisional
Probab=99.76 E-value=3.5e-17 Score=161.26 Aligned_cols=179 Identities=16% Similarity=0.165 Sum_probs=148.1
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCC-CCcccCCCCChHHHHHHHHHHHhcCCeE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN-GRMFQGPRTNRRTIMEIREAIREERPIE 93 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~-~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 93 (318)
+..++++.+++..+.+++.+|.+ +.++++|+++++++|++.++..+.. +....+|++.......+...+..+.++.
T Consensus 407 ~~~~~~~~~~~~~~~~i~~~d~~---~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~~ 483 (1092)
T PRK09776 407 RLMERITLANEAGGIGIWEWDLK---PNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDALQGRSPFK 483 (1092)
T ss_pred HHHHHHHHHHHhcCceEEEEecC---CCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHHhcCCCee
Confidence 45677888999999999999999 9999999999999999988744322 3334566666666667777778888889
Q ss_pred EEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccch
Q 021027 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLL 173 (318)
Q Consensus 94 ~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (318)
.+++..+++| .+|+.....|+.+ ++|.+.+++++.+|||++|+++
T Consensus 484 ~e~r~~~~dG-~~w~~~~~~~~~d-~~G~~~~~ig~~~DITerk~~e--------------------------------- 528 (1092)
T PRK09776 484 LEFRIVVKDG-VRHIRALANRVLN-KDGEVERLLGINMDMTEVRQLN--------------------------------- 528 (1092)
T ss_pred EEEEEEcCCc-eEEEEEeeEEEEC-CCCCEEEEEeeeeehhHHHHHH---------------------------------
Confidence 9999999999 9999999999998 8999999999999999999971
Q ss_pred hccccccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCCc
Q 021027 174 DLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQS 253 (318)
Q Consensus 174 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 253 (318)
+..+... ++++.++++++++
T Consensus 529 -------------------------~~L~~~~-----------------------------------~~l~~~l~~~~~~ 548 (1092)
T PRK09776 529 -------------------------EALFQEK-----------------------------------ERLHITLDSIGEA 548 (1092)
T ss_pred -------------------------HHHHHHH-----------------------------------HHHHHHHhccccE
Confidence 1111111 1255678888999
Q ss_pred EEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccC
Q 021027 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG 294 (318)
Q Consensus 254 i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~ 294 (318)
|+++|.++ +++++|+++++++||+.+|++|+++..+.+
T Consensus 549 i~~~D~~g---~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~ 586 (1092)
T PRK09776 549 VVCTDMAM---KVTFMNPVAEKMTGWTQEEALGVPLLTVLH 586 (1092)
T ss_pred EEEECCCC---eEEEEcHHHHHHhCCCHHHHcCCCHHHHcc
Confidence 99999997 999999999999999999999999877764
No 7
>PRK13560 hypothetical protein; Provisional
Probab=99.73 E-value=2.3e-16 Score=150.95 Aligned_cols=194 Identities=11% Similarity=0.070 Sum_probs=137.4
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCc--EEEecHhHHHhcCCChhhhcCCC--CCcccCCCCChHHHH-------HHHHHH
Q 021027 18 LWVHEALDELPDSFTITDPSISGHP--IVFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTIM-------EIREAI 86 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~--i~~~N~~~~~~~G~~~~e~~g~~--~~~l~~~~~~~~~~~-------~~~~~~ 86 (318)
..++.+++++|.++++++.+ +++. +.+++++...++|+.+.++++.. +..+.+|++...... .+..++
T Consensus 68 ~~~r~l~~~~p~~i~~~~~~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~~~~~~~ 146 (807)
T PRK13560 68 QCERNLKANIPGGMFLFALD-GDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFANPFRSAETIAMAL 146 (807)
T ss_pred HHHHHHHhcCCceEEEEEEc-CccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhChhhHHHHHHHHh
Confidence 34489999999999998876 2233 33478888888888887766543 344566665544332 222333
Q ss_pred HhcCCeEEEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccc
Q 021027 87 REERPIEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRRE 166 (318)
Q Consensus 87 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 166 (318)
..+.....++++.+++|. |+.+...|.++ .+|.+ .+.++..|||++|++
T Consensus 147 ~~~~~~~~e~r~~~~dg~--~~~~~~~~~~~-~~g~~-~~~g~~~DIT~rk~a--------------------------- 195 (807)
T PRK13560 147 QSDDWQEEEGHFRCGDGR--FIDCCLRFERH-AHADD-QVDGFAEDITERKRA--------------------------- 195 (807)
T ss_pred ccCcccceEEEEEeCCcc--EEEEEeeeeec-CCCce-EEEEEEEccchHHHH---------------------------
Confidence 344556778888888986 66777788877 66665 689999999999997
Q ss_pred cccccchhccccccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHH
Q 021027 167 VCSDSLLDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYIS 246 (318)
Q Consensus 167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~ 246 (318)
+...+... ..++.+
T Consensus 196 -------------------------------e~~l~~~~-----------------------------------~~l~~l 209 (807)
T PRK13560 196 -------------------------------EERIDEAL-----------------------------------HFLQQL 209 (807)
T ss_pred -------------------------------HHHHHHHH-----------------------------------HHHHHH
Confidence 21111111 226668
Q ss_pred HhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcc
Q 021027 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (318)
Q Consensus 247 ~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~ 312 (318)
++++|++++++|.+| +|+++|+++++++||+.+|++|+++.++.++.............+..+
T Consensus 210 ~e~~~~~i~~~d~~g---~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ 272 (807)
T PRK13560 210 LDNIADPAFWKDEDA---KVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKFDAD 272 (807)
T ss_pred HhhCCCeEEEEcCCC---CEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHhccC
Confidence 899999999999987 999999999999999999999999999885554444334444444443
No 8
>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=99.72 E-value=2.5e-16 Score=110.99 Aligned_cols=104 Identities=27% Similarity=0.431 Sum_probs=95.0
Q ss_pred CCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCCcEEE
Q 021027 28 PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFW 107 (318)
Q Consensus 28 ~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 107 (318)
|++++++|.+ |+++++|+++++++|+++++++|+++..++++.........+.+.+..+..+..+....+++|..+|
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 6899999999 9999999999999999999999999988888877788888899999988889999999999999999
Q ss_pred EEEEEEeeccCCCCceeEEEEEEecccc
Q 021027 108 MLFKMSLVFGKEDGRATHFVAVQVPIVS 135 (318)
Q Consensus 108 ~~~~~~~i~~~~~g~~~~~i~~~~DIte 135 (318)
+.+++.|+.+ ++|.+.+++++++|||+
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 9
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.69 E-value=1.2e-15 Score=145.73 Aligned_cols=193 Identities=19% Similarity=0.262 Sum_probs=144.8
Q ss_pred HHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcC----Ce
Q 021027 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREER----PI 92 (318)
Q Consensus 17 ~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~----~~ 92 (318)
...+...++.++.+++++|.+ ++++++|+++++++||++++++|++...+.+++........+......+. .+
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 345567889999999999999 99999999999999999999999988877776654433333333333322 23
Q ss_pred EEEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccc
Q 021027 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSL 172 (318)
Q Consensus 93 ~~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 172 (318)
..++...+++|..+|+.+...|+.. +|. .+++++..|||++++.
T Consensus 88 ~~e~~~~~~dG~~~~v~~~~~~~~~--~g~-~~~~~~~~DiT~~~~~--------------------------------- 131 (799)
T PRK11359 88 SRELQLEKKDGSKIWTRFALSKVSA--EGK-VYYLALVRDASVEMAQ--------------------------------- 131 (799)
T ss_pred ceeeEEecCCcCEEEEEEEeeeecc--CCc-eEEEEEEeeccchhhh---------------------------------
Confidence 4467778899999999999888743 444 4578889999998775
Q ss_pred hhccccccccCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCC
Q 021027 173 LDLDRVLALDSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQ 252 (318)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 252 (318)
....+ .+..+++++++
T Consensus 132 -------------------------~~~~~---------------------------------------~~~~~~~~~~~ 147 (799)
T PRK11359 132 -------------------------KEQTR---------------------------------------QLIIAVDHLDR 147 (799)
T ss_pred -------------------------HHHHH---------------------------------------HHHHHHhcCCC
Confidence 11110 02235667899
Q ss_pred cEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccC-CCCCHHHHHHHHHHHhcccce
Q 021027 253 SFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG-VDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 253 ~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~-~~~~~~~~~~~~~~l~~~~~~ 315 (318)
+++++|.++ +++++|+++++++||+.++++|+++..+.+ +.+.......+...+..+..+
T Consensus 148 ~i~~~d~~g---~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 208 (799)
T PRK11359 148 PVIVLDPER---RIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARD 208 (799)
T ss_pred cEEEEcCCC---cEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCC
Confidence 999999987 999999999999999999999999887754 445555566666666655443
No 10
>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=99.66 E-value=1.8e-15 Score=107.78 Aligned_cols=110 Identities=26% Similarity=0.452 Sum_probs=97.6
Q ss_pred HhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCC
Q 021027 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDG 103 (318)
Q Consensus 24 ~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 103 (318)
|++++++++++|.+ ++++++|+++.+++|++.++++|+++..++++.........+.+++..+.....+..... +|
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 57899999999999 999999999999999999999999988888887777788888888888877666655443 89
Q ss_pred cEEEEEEEEEeeccCCCCceeEEEEEEeccccccc
Q 021027 104 TPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (318)
Q Consensus 104 ~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~ 138 (318)
...|+.++..|+.+ .+|.+.+++.+++|||++|+
T Consensus 77 ~~~~~~~~~~Pi~~-~~g~~~g~~~~~~DiT~~rr 110 (110)
T PF08448_consen 77 EERWFEVSISPIFD-EDGEVVGVLVIIRDITERRR 110 (110)
T ss_dssp CEEEEEEEEEEEEC-TTTCEEEEEEEEEEECCHHH
T ss_pred CcEEEEEEEEEeEc-CCCCEEEEEEEEEECchhhC
Confidence 99999999999999 89999999999999999985
No 11
>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=99.64 E-value=6.4e-15 Score=105.45 Aligned_cols=112 Identities=23% Similarity=0.363 Sum_probs=93.8
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE-EE
Q 021027 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV-NL 96 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~ 96 (318)
+++++++++++++++++|.+ |+|+++|+++++++|++.++++|+++..+.++++.......+...+..+..... ..
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 46889999999999999999 999999999999999999999999988888776655566777777776665443 33
Q ss_pred EEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecc
Q 021027 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (318)
Q Consensus 97 ~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DI 133 (318)
....++|..+|+.+...|+.+ .++.+.+++++++||
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 333459999999999999999 888899999999997
No 12
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=99.44 E-value=2.9e-12 Score=122.17 Aligned_cols=122 Identities=15% Similarity=0.193 Sum_probs=106.7
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
+..++++.++++++++++++|.+ |+++++|+++++++|++.++++|+++..++++.............+..+.....
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 35567889999999999999999 999999999999999999999999988887766555555555666677777788
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~ 140 (318)
+.....++|..+|+.++..|+.+ .+|.+.+++++++|||++|+++
T Consensus 229 e~~~~~~~G~~~~~~~~~~pi~~-~~g~~~g~v~~~~DITe~k~~e 273 (779)
T PRK11091 229 EQWLDYPDGRKACFELRKVPFYD-RVGKRHGLMGFGRDITERKRYQ 273 (779)
T ss_pred EEEEEcCCCCEEEEEEEeeeEEc-CCCCEEEEEEEEeehhHHHHHH
Confidence 88888899999999999999998 8899999999999999999983
No 13
>PRK13559 hypothetical protein; Provisional
Probab=99.43 E-value=8.1e-12 Score=108.42 Aligned_cols=124 Identities=37% Similarity=0.669 Sum_probs=105.6
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
.....+..+++.++++++++|.+..++.++++|+++++++||+.++++|+++..+.++.........+...+..+..+..
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 35567888999999999999974223789999999999999999999999877776666555666667777777777778
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
+....+++|..+|+.+...|+++ .+|.+.+++++.+|||++|++
T Consensus 120 e~~~~~~dG~~~~~~~~~~~i~d-~~G~~~~~v~~~~DITerk~~ 163 (361)
T PRK13559 120 ELLNYRKDGEPFWNALHLGPVYG-EDGRLLYFFGSQWDVTDIRAV 163 (361)
T ss_pred EEEEEcCCCCEEEEEEEEEEEEc-CCCCEEEeeeeeeehhcchhh
Confidence 88888899999999999999998 889999999999999999986
No 14
>PRK13557 histidine kinase; Provisional
Probab=99.40 E-value=4.9e-12 Score=115.73 Aligned_cols=127 Identities=37% Similarity=0.688 Sum_probs=109.9
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
.....|..+++.++.+++++|.+..+++++|+|++|++++||+.++++|+++..+.+++........+...+..+..+..
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 34678999999999999999963233899999999999999999999999988888777766667777777777777777
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNS 142 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~ 142 (318)
+....+++|..+|+.++..|+.+ .+|.+.+++++..|||+++++++.
T Consensus 107 ~~~~~~~~G~~~~~~~~~~~i~~-~~g~~~~~~~~~~dit~~~~~e~~ 153 (540)
T PRK13557 107 EILNYRKDGSSFWNALFVSPVYN-DAGDLVYFFGSQLDVSRRRDAEDA 153 (540)
T ss_pred EEEEEeCCCCEEEEEEEEEEeEC-CCCCEEEEEEEecChHHHHHHHHH
Confidence 77778899999999999999998 889999999999999999987543
No 15
>PRK13558 bacterio-opsin activator; Provisional
Probab=99.29 E-value=6.2e-11 Score=111.13 Aligned_cols=125 Identities=38% Similarity=0.695 Sum_probs=106.5
Q ss_pred HHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEE
Q 021027 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (318)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (318)
.+..+++.++.+++++|...+++.++++|+++++++||++++++|+++..+.++.........+...+..+.++..+...
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 45678999999999998532348999999999999999999999998877777666656666677777777888888888
Q ss_pred EecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccc
Q 021027 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGM 144 (318)
Q Consensus 99 ~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~ 144 (318)
++++|..+|+.+...|+.+ .+|.+.+++++..|||++|++|+++.
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 8999999999999999998 89999999999999999999865543
No 16
>PRK10060 RNase II stability modulator; Provisional
Probab=99.22 E-value=4.2e-10 Score=104.93 Aligned_cols=120 Identities=14% Similarity=0.190 Sum_probs=93.8
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCccc-CCCCChHHHHHHHHHHHhcCCeEE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQ-GPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~-~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
...++..+++.++++++++|.+ |+++++|+++++++||+.++++|+++..++ ++.........+...+..+..+..
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 3456778999999999999999 999999999999999999999999865544 444444445556666777888888
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCC-ceeEEEEEEeccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDG-RATHFVAVQVPIVSRKHMR 140 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g-~~~~~i~~~~DIte~k~~~ 140 (318)
+....+++|..+|+.....+ .. ..| ....++++.+|||++|+++
T Consensus 186 e~~~~~~~G~~~~~~~~~~~-~~-~~g~~~~~~i~~~~DITe~k~~e 230 (663)
T PRK10060 186 ERWIKTRKGQRLFLFRNKFV-HS-GSGKNEIFLICSGTDITEERRAQ 230 (663)
T ss_pred EEEEEeCCCCEEEEEeeeEE-Ec-CCCCceEEEEEEEEechHHHHHH
Confidence 88888999988887655443 33 344 3456788899999999873
No 17
>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=99.22 E-value=2.1e-11 Score=87.07 Aligned_cols=72 Identities=17% Similarity=0.270 Sum_probs=63.2
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
++++.++++++++++++|.+| .|+++|+++++++||+.++++|+++.+++++++.....+.+.+.+..+++.
T Consensus 1 e~~~~i~~~~~~~i~~~d~~g---~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 72 (113)
T PF00989_consen 1 ERYRAILENSPDGIFVIDEDG---RILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQALSQGESG 72 (113)
T ss_dssp HHHHHHHHCSSSEEEEEETTS---BEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHHHHHCCHE
T ss_pred CHHHHHHhcCCceEEEEeCcC---eEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHHHHcCCCc
Confidence 357889999999999999887 999999999999999999999999999998887667888888888776654
No 18
>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=99.18 E-value=6.6e-10 Score=78.43 Aligned_cols=117 Identities=21% Similarity=0.349 Sum_probs=90.4
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhc-CCeEEEE
Q 021027 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREE-RPIEVNL 96 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~-~~~~~~~ 96 (318)
..+..+++.++.+++++|.+ +.++++|+++..++|++..+++|.....+.++.........+...+... .......
T Consensus 3 ~~~~~~~~~~~~~~~~~d~~---~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (124)
T TIGR00229 3 ERYRAIFESSPDAIIVIDLE---GNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLEGEREPVSEER 79 (124)
T ss_pred hHHHHHHhhCCceEEEEcCC---CcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHcCCCCCcceEe
Confidence 45678999999999999999 9999999999999999999999988766666555444444444544422 2233344
Q ss_pred EEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 97 ~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
.....+|...|+.....|+.. +|...+++++..|||+++++
T Consensus 80 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~dit~~~~~ 120 (124)
T TIGR00229 80 RVRRKDGSEIWVEVSVSPIRT--NGGELGVVGIVRDITERKQA 120 (124)
T ss_pred eeEcCCCCEEEEEEEEeehhh--CCCeeEEEEEeeehhHHHHH
Confidence 445778899999988888863 67788899999999999886
No 19
>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=99.17 E-value=3.1e-10 Score=77.70 Aligned_cols=86 Identities=26% Similarity=0.464 Sum_probs=71.7
Q ss_pred EEEecHhHHHhcCCChhhhcCCC----CCcccCCCCChHHHHHHHH-HHHhcCCeEEEEEEEecCCcEEEEEEEEEeecc
Q 021027 43 IVFASRGFLKMSGFSRAEIIGRN----GRMFQGPRTNRRTIMEIRE-AIREERPIEVNLLNYKKDGTPFWMLFKMSLVFG 117 (318)
Q Consensus 43 i~~~N~~~~~~~G~~~~e~~g~~----~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~i~~ 117 (318)
++++|+.+++++||+++++ +.. +..+.+|++...+...+.. ....+..+..++++++++|..+|+...+.++++
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~~e~R~~~~~G~~~wi~~~~~~~~d 79 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQAALQNGEPFEIEYRIRRKDGEYRWIEVRGRPIFD 79 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-EEEEEEEEEGTTSTEEEEEEEEEEEET
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcceEEEEEEECCCCCEEEEEEEEEEEEC
Confidence 5899999999999999999 655 6667899998888888888 677777899999999999999999999999998
Q ss_pred CCCCceeEEEEEE
Q 021027 118 KEDGRATHFVAVQ 130 (318)
Q Consensus 118 ~~~g~~~~~i~~~ 130 (318)
.+|.+..++|+.
T Consensus 80 -~~g~~~~~~Gv~ 91 (91)
T PF08447_consen 80 -ENGKPIRIIGVI 91 (91)
T ss_dssp -TTS-EEEEEEEE
T ss_pred -CCCCEEEEEEEC
Confidence 899999998874
No 20
>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=99.13 E-value=1.3e-10 Score=81.44 Aligned_cols=63 Identities=21% Similarity=0.406 Sum_probs=56.5
Q ss_pred CCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhccccee
Q 021027 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (318)
Q Consensus 251 ~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~ 316 (318)
|++++++|.+| +|++||++|++++||++++++|+++.++.++.........+.++++.+.+|.
T Consensus 1 p~~i~i~d~~g---~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 63 (104)
T PF13426_consen 1 PDGIFILDPDG---RILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIERALEEGGSWS 63 (104)
T ss_dssp -SEEEEEETTS---BEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHHHHHHTSSEE
T ss_pred CEEEEEECCcC---cEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHHHHhcCCcee
Confidence 68999999987 9999999999999999999999999999998889999999999999888764
No 21
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=99.03 E-value=2.7e-09 Score=102.41 Aligned_cols=121 Identities=19% Similarity=0.299 Sum_probs=99.6
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccC-CCCChHHHHHHHHHHHhcCCeEE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQG-PRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~-~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
..+.+..+++.++.+++++|.+ ++++++|+++++++|++.++++|+.+..+.+ +.........+...+..+..+..
T Consensus 134 ~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 210 (799)
T PRK11359 134 QTRQLIIAVDHLDRPVIVLDPE---RRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADNRIRLQQLLWKTARDQD 210 (799)
T ss_pred HHHHHHHHHhcCCCcEEEEcCC---CcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHHHHHHHHhhccCCCCcc
Confidence 3455667899999999999999 9999999999999999999999998665543 34444444455555666666667
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~ 140 (318)
+....+++|..+|+.+...|+.+ .+|.+.+++++.+|||++|+++
T Consensus 211 e~~~~~~dG~~~~~~~~~~~v~d-~~g~~~~~~~~~~DITerk~~e 255 (799)
T PRK11359 211 EFLLLTRTGEKIWIKASISPVYD-VLAHLQNLVMTFSDITEERQIR 255 (799)
T ss_pred eeEEeCCCCCEEEEEeeeeeeec-CCCceeEEEEEeehhhhHHHHH
Confidence 77778899999999999999998 7899999999999999999873
No 22
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=98.99 E-value=4.7e-09 Score=73.99 Aligned_cols=106 Identities=21% Similarity=0.282 Sum_probs=72.4
Q ss_pred HHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEE
Q 021027 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNY 99 (318)
Q Consensus 20 ~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 99 (318)
++.++++++.++.++|.+ +++.++|+++.++++..+.+ +|+++..+.++...+.+.. +...+..+.....+...
T Consensus 1 L~~il~s~~~~i~~vD~~---~~I~~~n~~a~~~f~~~~~~-iGr~l~~~~~~~~~~~l~~-~i~~~~~~~~~~~~~~~- 74 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDRN---LRIRYFNPAAARLFNLSPSD-IGRPLFDIHPPLSYPNLKK-IIEQVRSGKEEEFEIVI- 74 (106)
T ss_dssp HHHHHHHSSSEEEEEETT---SBEEEE-SCGC-SS---GGG-TTSBCCCSS-HHHHHHHHH-HHHHHHTTSBSEEEEEE-
T ss_pred ChHHHhcCCCCEEEEcCC---CeEEEeChhHhhhcCCChHH-CCCCHHHcCCccchHHHHH-HHHHHHcCCCceEEEEe-
Confidence 457899999999999999 99999999999999987654 6999888765533333333 33444455543333332
Q ss_pred ecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccc
Q 021027 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (318)
Q Consensus 100 ~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIt 134 (318)
..+|. |+.+...|+++ ++|...|++.++.|||
T Consensus 75 ~~~~~--~~~~~~~P~~~-~~g~~~G~v~~~~DIT 106 (106)
T PF13596_consen 75 PNGGR--WYLVRYRPYRD-EDGEYAGAVITFQDIT 106 (106)
T ss_dssp EETTE--EEEEEEEEEE--TTS-EEEEEEEEEE-G
T ss_pred cCCCE--EEEEEEEEEEC-CCCCEEEEEEEEEecC
Confidence 34454 77889999999 8999999999999997
No 23
>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=98.98 E-value=3.8e-08 Score=66.08 Aligned_cols=102 Identities=21% Similarity=0.395 Sum_probs=81.9
Q ss_pred CCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCCcEEE
Q 021027 28 PDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFW 107 (318)
Q Consensus 28 ~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~ 107 (318)
+.+++++|.+ +.++++|+.+..++|++..+++|.....+.++.........+......+.....+......+|...|
T Consensus 2 ~~~i~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (103)
T cd00130 2 PDGVIVLDLD---GRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGGEPVTLEVRLRRKDGSVIW 78 (103)
T ss_pred CceEEEECCC---CcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcCcCeEEEEEEEccCCCEEE
Confidence 5788999999 9999999999999999999999988766666666555555555555555556666666777899999
Q ss_pred EEEEEEeeccCCCCceeEEEEEEecc
Q 021027 108 MLFKMSLVFGKEDGRATHFVAVQVPI 133 (318)
Q Consensus 108 ~~~~~~~i~~~~~g~~~~~i~~~~DI 133 (318)
+.+...++.+ ..+...+++++..||
T Consensus 79 ~~~~~~~~~~-~~~~~~~~~~~~~di 103 (103)
T cd00130 79 VLVSLTPIRD-EGGEVIGLLGVVRDI 103 (103)
T ss_pred EEEEEEEEec-CCCCEEEEEEEEecC
Confidence 9999999887 677888888888876
No 24
>PF12860 PAS_7: PAS fold
Probab=98.93 E-value=1e-08 Score=73.48 Aligned_cols=104 Identities=20% Similarity=0.342 Sum_probs=72.0
Q ss_pred HhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhh-cCCCCCccc---------CCCCChHHHHHHHHHHHhcCCeE
Q 021027 24 LDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEI-IGRNGRMFQ---------GPRTNRRTIMEIREAIREERPIE 93 (318)
Q Consensus 24 ~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~-~g~~~~~l~---------~~~~~~~~~~~~~~~~~~~~~~~ 93 (318)
+++++.|++++|.+ ++++++|+.|..++|++.+.+ .|.++..+. .+.....................
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 47889999999999 999999999999999999887 677654432 11222222223332333333333
Q ss_pred EEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccc
Q 021027 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (318)
Q Consensus 94 ~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~ 140 (318)
.+ ....+|. |+.+...|..+ | |++.++.|||+++++|
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 2356676 77888888854 4 6788999999999873
No 25
>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=98.86 E-value=3.2e-09 Score=75.20 Aligned_cols=67 Identities=19% Similarity=0.273 Sum_probs=61.1
Q ss_pred HhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhccccee
Q 021027 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (318)
Q Consensus 247 ~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~ 316 (318)
|+++|++++++|.++ +|+++|+++++++|++.++++|+++.++.++...+.+...+.++++.+.++.
T Consensus 1 l~~~p~~i~v~D~~~---~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 67 (110)
T PF08448_consen 1 LDSSPDGIFVIDPDG---RIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRRALAGGEPVF 67 (110)
T ss_dssp HHHCSSEEEEEETTS---BEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHHHHHHTSEEE
T ss_pred CCCCCceeEEECCCC---EEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHHhhccCceEE
Confidence 578899999999998 9999999999999999999999999999988889999999999999987653
No 26
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.82 E-value=1.5e-08 Score=88.00 Aligned_cols=162 Identities=20% Similarity=0.177 Sum_probs=116.7
Q ss_pred HHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEec
Q 021027 22 EALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKK 101 (318)
Q Consensus 22 ~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (318)
.+++...+++++++.. ..+..+|..+..+++.....++|.+...+.++...+... .+...........+
T Consensus 5 ~~l~~~~~~~~vi~~~---~~~~~~~~~a~~~~~~~~~~~i~~~~~~i~~~~~~~~v~--------~~~~~~~~~~~~~~ 73 (560)
T COG3829 5 GILKSILDGPVVIDKN---TGIDVANALALAKRQKNAEAVIGRPLREILETLGMERVE--------QSRDKELTERLKLK 73 (560)
T ss_pred hhhhhcccceEEEEcC---CceeeechHHHHhhhcceEEEecccceeeccccCcceee--------ccCccceeeeeecc
Confidence 4888899999999998 999999999999999998999998877766554332211 11222222222222
Q ss_pred CCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccccccccccccCCCCchhhHhhhccccccccccchhccccccc
Q 021027 102 DGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSGMSYSEDGGGSRLREIVFGSCRREVCSDSLLDLDRVLAL 181 (318)
Q Consensus 102 ~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 181 (318)
+ ...+.+...|+ + +.+.+.|++.++.|+++....
T Consensus 74 -~-~~~~~~~~~~~-~-~~~~~~g~~~~~~~~~e~~~~------------------------------------------ 107 (560)
T COG3829 74 -V-KRIVVVGKTPV-D-EQGRVVGVLEVFLDISEALEL------------------------------------------ 107 (560)
T ss_pred -c-eeEEEcCCcee-e-cCCceeeeehhhhhhHHHHHH------------------------------------------
Confidence 2 33333444455 4 588999999999999995543
Q ss_pred cCCCCCcCcccchhhhhHHHHHHHhhhhhhhhhccccccccceeeeeeecCCCCccccchhHHHHHhccCCcEEEecCCC
Q 021027 182 DSDDTGLEIEDSCEASDLEKRKAATAIDNILSVLTHYSQLTGRLVCGKRCSLPGMGFISSSLYISLGRIKQSFVLIDPHL 261 (318)
Q Consensus 182 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~i~d~~~ 261 (318)
.++. .... ...|..+++.+.++++++|.+|
T Consensus 108 ----------------~~~~--l~~~--------------------------------~~~l~~il~~~~~~l~vvD~~G 137 (560)
T COG3829 108 ----------------IEEN--LRQL--------------------------------RQRLEAILDSIDDGLLVVDEDG 137 (560)
T ss_pred ----------------HHHH--HHHH--------------------------------HHHHHHHHhhccCceEEEcCCC
Confidence 1111 1111 1226678888999999999998
Q ss_pred CCCCeeEecHHHHHHhCCCcccccCCCccccc
Q 021027 262 PDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN 293 (318)
Q Consensus 262 ~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~ 293 (318)
.++++|+++..++|++.++++|+++.++.
T Consensus 138 ---~~i~~N~~~~~~~gl~~e~~~gk~~~~v~ 166 (560)
T COG3829 138 ---IIIYYNKAYAKLLGLSPEEVLGKHLLDVV 166 (560)
T ss_pred ---cEEEEcHHHHHHhCCCHHHHcCCcHHHHH
Confidence 99999999999999999999999998886
No 27
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=98.81 E-value=2.1e-07 Score=81.16 Aligned_cols=112 Identities=18% Similarity=0.377 Sum_probs=83.5
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
...+.|+.+++.+.+++.++|.+ |.++++|+++..++|++.++++|++..++..... ......++..+.+...
T Consensus 114 ~~~~~l~~il~~~~~~l~vvD~~---G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~~~~~----~s~~l~vl~~~kp~~~ 186 (560)
T COG3829 114 QLRQRLEAILDSIDDGLLVVDED---GIIIYYNKAYAKLLGLSPEEVLGKHLLDVVSAGE----DSTLLEVLRTGKPIRD 186 (560)
T ss_pred HHHHHHHHHHhhccCceEEEcCC---CcEEEEcHHHHHHhCCCHHHHcCCcHHHHHhccC----CceehhhhhcCCccee
Confidence 45678899999999999999999 9999999999999999999999998666541111 1223445666666554
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
....+ .|... .....|+.. +|.+.|.+++..|++..+..
T Consensus 187 ~~~~~--~~~~~--i~~~~pv~~--~g~l~G~v~~~~~~~~l~~l 225 (560)
T COG3829 187 VVQTY--NGNKI--IVNVAPVYA--DGQLIGVVGISKDVSELERL 225 (560)
T ss_pred eeeee--cCCce--eEeeccEec--CCcEEEEEEeecchHHHHHH
Confidence 44333 22222 355667765 77999999999999998876
No 28
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=98.79 E-value=7.1e-08 Score=89.49 Aligned_cols=121 Identities=14% Similarity=0.181 Sum_probs=94.7
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCC-eEE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP-IEV 94 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~ 94 (318)
....+..+++.++++++++|.+ +.++++|+++++++|+++++++|+++..++++.. .....+...+..+.. ...
T Consensus 260 ~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~ 334 (607)
T PRK11360 260 TRSLNELILESIADGVIAIDRQ---GKITTMNPAAEVITGLQRHELVGKPYSELFPPNT--PFASPLLDTLEHGTEHVDL 334 (607)
T ss_pred HHHHHHHHHHhccCeEEEEcCC---CCEEEECHHHHHHhCCChHHhcCCcHHHHcCCch--hHHHHHHHHHhcCCCccce
Confidence 3456778999999999999999 9999999999999999999999998777766442 223344444544433 334
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMRNSG 143 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~~~~ 143 (318)
+......+|... +.++..|+.+ .+|.+.++++++.|||+++++++++
T Consensus 335 ~~~~~~~~~~~~-~~~~~~~i~~-~~g~~~~~i~~~~Dite~~~~e~~l 381 (607)
T PRK11360 335 EISFPGRDRTIE-LSVSTSLLHN-THGEMIGALVIFSDLTERKRLQRRV 381 (607)
T ss_pred EEEEEcCCCcEE-EEEEEeeEEc-CCCCEEEEEEEEeechHHHHHHHHH
Confidence 555566677665 8899999998 8999999999999999999985443
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=98.77 E-value=3.9e-07 Score=64.37 Aligned_cols=101 Identities=17% Similarity=0.262 Sum_probs=82.2
Q ss_pred EEEcCCCCCCcEEEecHh-HHHhcCCChhhhcCCCCCcccCCCCChH-HHHHHHHHHHhcCCeEEEEEEEecCCcEEEEE
Q 021027 32 TITDPSISGHPIVFASRG-FLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIREAIREERPIEVNLLNYKKDGTPFWML 109 (318)
Q Consensus 32 ~~~d~~~~~~~i~~~N~~-~~~~~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 109 (318)
...+.+ |+++++.+. ...++||.+++++|+.+..+++|++... +.......+..|.....-+++..++|...|+.
T Consensus 6 trhs~d---gki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~g~~vwvq 82 (111)
T PF14598_consen 6 TRHSLD---GKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKNGGYVWVQ 82 (111)
T ss_dssp EEEETT---SBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TTSSEEEEE
T ss_pred EEECCC---cEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecCCcEEEEE
Confidence 456777 999999999 6999999999999999999999998886 67778888888887777788899999999999
Q ss_pred EEEEeeccCCCCceeEEEEEEecccc
Q 021027 110 FKMSLVFGKEDGRATHFVAVQVPIVS 135 (318)
Q Consensus 110 ~~~~~i~~~~~g~~~~~i~~~~DIte 135 (318)
....++.++.++++..++++-.=|++
T Consensus 83 t~~~~~~n~~~~~~~~Iv~~n~vlse 108 (111)
T PF14598_consen 83 TKATLFYNPWTSKPEFIVCTNTVLSE 108 (111)
T ss_dssp EEEEEEEETTTTCEEEEEEEEEEESC
T ss_pred EEEEEEECCCCCCccEEEEEEEEecc
Confidence 99999886345677777776655554
No 30
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=98.76 E-value=7e-08 Score=83.79 Aligned_cols=121 Identities=26% Similarity=0.531 Sum_probs=99.6
Q ss_pred HHHHHHHhcCC--C-eEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCC--CCcccCCCCChHHHHHHHHHHHhcCCe
Q 021027 18 LWVHEALDELP--D-SFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRN--GRMFQGPRTNRRTIMEIREAIREERPI 92 (318)
Q Consensus 18 ~~~~~~~~~~~--~-~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~ 92 (318)
.+++.++..+. + .+++-+.+..|..|+|+|++||.+.||.+.+++.++ +.++++..........+.+.+...+.-
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 34555554433 3 344455555668899999999999999999999987 566777777777788888888888778
Q ss_pred EEEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 93 ~~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
.++...+.++..+.|+.+.+.|+++ +.+.++.+++.+.|||..|+-
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 8898899999999999999999999 899999999999999999875
No 31
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=98.75 E-value=8.1e-08 Score=82.19 Aligned_cols=108 Identities=12% Similarity=0.075 Sum_probs=82.1
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
+..+.++.++++++++++++|.+ |+++++|+++++++|+++++.+|+++..+..+. . +...+..+.. ..
T Consensus 3 ~~~~~l~~~~~~~~~~i~~~d~~---g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~---~----~~~~l~~~~~-~~ 71 (333)
T TIGR02966 3 ALLSRFRAAAQALPDAVVVLDEE---GQIEWCNPAAERLLGLRWPDDLGQRITNLIRHP---E----FVEYLAAGRF-SE 71 (333)
T ss_pred hHHHHHHHHHHhCcCcEEEECCC---CcEEEEcHHHHHHhCCChHHHcCCcHHHHccCH---H----HHHHHHhccc-CC
Confidence 44567899999999999999999 999999999999999999999998876665432 2 2223333222 22
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
......+.|..+|+.+...|+.+ . + ++.+..|||++++.
T Consensus 72 ~~~~~~~~~~~~~~~~~~~p~~~-~-~----~~~~~~dit~~~~~ 110 (333)
T TIGR02966 72 PLELPSPINSERVLEIRIAPYGE-E-Q----KLLVARDVTRLRRL 110 (333)
T ss_pred CeEeecCCCCceEEEEEEEEcCC-C-c----eEEEEeCchHHHHH
Confidence 23344577888899999999876 2 2 67888999998886
No 32
>PRK13557 histidine kinase; Provisional
Probab=98.70 E-value=3.4e-08 Score=90.43 Aligned_cols=75 Identities=32% Similarity=0.762 Sum_probs=67.2
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
..|+.++++++++|+++|.++.|++|+|+|++|++++||+.+|++|+++..+.+|.+.......++..+..+.++
T Consensus 30 ~~~~~~~~~~~~~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 104 (540)
T PRK13557 30 DIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVRDAIAERREI 104 (540)
T ss_pred HHHHHHHHhCcCcEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHHHHHHHcCCCc
Confidence 347889999999999999876677999999999999999999999999999998888888888999888877665
No 33
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.70 E-value=1.6e-07 Score=81.18 Aligned_cols=111 Identities=14% Similarity=0.136 Sum_probs=84.2
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEE
Q 021027 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (318)
..+.+++++++++++++|.+ ++++++|+++++++|++..+++|.++..+.++.. .....+...+..+..+.....
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 35678999999999999999 9999999999999999999999998777765432 112333444555444433333
Q ss_pred EEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 98 NYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 98 ~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
....+|..+|+.++..|+.. .+++..++|+|++++.
T Consensus 82 ~~~~~g~~~~~~~~~~~~~~------~~~~~~~~dit~~~~~ 117 (348)
T PRK11073 82 TLVIDGRSHILSLTAQRLPE------GMILLEMAPMDNQRRL 117 (348)
T ss_pred EEEECCceEEEEEEEEEccC------ceeEEEEechhHHHHH
Confidence 44569999999999999853 2467778999998876
No 34
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=98.62 E-value=4.7e-07 Score=80.23 Aligned_cols=61 Identities=20% Similarity=0.316 Sum_probs=53.2
Q ss_pred EEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 254 i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
++++-.+ .|.+|+||.+.+..++||+++||+|+++.+|+|+.|...+.+-+.+.+.+|+-+
T Consensus 275 ~FvtRhs-~DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~ 335 (768)
T KOG3558|consen 275 MFVTRHS-LDMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVV 335 (768)
T ss_pred eeEEeee-cceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhcCccc
Confidence 5555444 467999999999999999999999999999999999999999999998888654
No 35
>PRK10060 RNase II stability modulator; Provisional
Probab=98.62 E-value=9.1e-08 Score=89.50 Aligned_cols=71 Identities=14% Similarity=0.132 Sum_probs=58.6
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCccccc-CCCCCHHHHHHHHHHHhccccee
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN-GVDTDTTVLYQIKESIQTEQACT 316 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~-~~~~~~~~~~~~~~~l~~~~~~~ 316 (318)
+..+++.++++|+++|.+| +|+++|+++++++||+.+|++|+++.+++ +|.+.......+...+..+.+|.
T Consensus 113 ~~~v~~~~~~gI~i~D~~g---~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 184 (663)
T PRK10060 113 AEQVVSEANSVIVILDSRG---NIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNIRGFFRSGNAYE 184 (663)
T ss_pred HHHHHhhCCceEEEEeCCC---CEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHHHHHHhcCCceE
Confidence 4457788899999999998 99999999999999999999999986655 45555666777777787777664
No 36
>PRK13559 hypothetical protein; Provisional
Probab=98.60 E-value=1.2e-07 Score=82.25 Aligned_cols=75 Identities=40% Similarity=0.759 Sum_probs=65.6
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
..+..++++++++|+++|.++.++.|+++|++|++++||+.++++|+++..+.++...+.....+..++..+.++
T Consensus 43 ~~~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 117 (361)
T PRK13559 43 RLFEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKIRAAIAAEREI 117 (361)
T ss_pred hHHHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHHHHHhccCCce
Confidence 347778999999999999876667999999999999999999999999998887777888888888888877655
No 37
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.58 E-value=9.1e-08 Score=60.52 Aligned_cols=45 Identities=22% Similarity=0.355 Sum_probs=37.0
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCccccc
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN 293 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~ 293 (318)
+++.+++++|++|+++| ++ +|+++|+++++|+||+ ..|+.+..+.
T Consensus 2 ~~~~l~~~~~~~i~i~d-~~---~i~~~N~~~~~l~g~~---~~~~~~~~~~ 46 (64)
T PF13188_consen 2 RYRSLFDNSPDGILIID-GG---RIIYVNPAFEELFGYS---LEGEDIGQLF 46 (64)
T ss_dssp HHHHHHCCSSSEEEEEE-TS---BEEEE-HHHHHHHCS----HTCCCHHCTS
T ss_pred HHHHHHHcCccceEEEE-CC---ChHHhhHHHHHHhCCC---CCCCCHHHhC
Confidence 57889999999999999 75 9999999999999999 6677665444
No 38
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=98.57 E-value=9.5e-07 Score=72.53 Aligned_cols=115 Identities=15% Similarity=0.232 Sum_probs=87.6
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
...+++..++..+.+|++.+|.. |+++.+|..+.+++|.+.++++|++...+..-.+.-.+ ...+........
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---GKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTF----EDLVEKNDSLLL 180 (459)
T ss_pred HHHHHHHHHHHHHcCceEeecCC---CcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccceeH----HHHHhcCCcEEE
Confidence 45578899999999999999999 99999999999999999999999986655443332222 222222222222
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~ 140 (318)
+ .+.+++....++..+.+.. +.|-+.|++.+.+|+|++.+.|
T Consensus 181 d---~~~~~E~~~lrv~Fs~i~r-EsGfisGlIaVlhDvTEqek~e 222 (459)
T COG5002 181 D---SSDEEEGYVLRVNFSVIQR-ESGFISGLIAVLHDVTEQEKVE 222 (459)
T ss_pred e---ecCCCccEEEEEEEEEEee-cccccceeEEEEecccHHHHHH
Confidence 2 2236777777888888888 8999999999999999998873
No 39
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=98.42 E-value=3e-06 Score=79.02 Aligned_cols=49 Identities=14% Similarity=0.127 Sum_probs=44.2
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccC
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNG 294 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~ 294 (318)
+..++++++++|+++|.+| +|+++|+++++++|++.++++|+++.+++.
T Consensus 205 ~~~il~~~~~gVl~vD~~G---~I~~~N~aa~~llg~s~~~l~G~~i~~l~~ 253 (638)
T PRK11388 205 LNALLESMDDGVIAWDEQG---NLQFLNAQAARLLRLDATASQGRAITELLT 253 (638)
T ss_pred HHHHHhccCCcEEEECCCC---eEehhhHHHHHHhCcCHHHHCCCcHHHHhc
Confidence 4457788899999999998 999999999999999999999999988873
No 40
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=98.36 E-value=3.1e-06 Score=76.62 Aligned_cols=108 Identities=13% Similarity=0.124 Sum_probs=77.8
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVN 95 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (318)
....+.++++++++|++++|.+ |+|+++|+++++++|++.++++|+++..+.++.. +...+..+......
T Consensus 78 e~~~L~aIL~sm~eGVi~vD~~---G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~-------l~~~le~~~~~~~~ 147 (520)
T PRK10820 78 EHRALSALLEALPEPVLSIDMK---GKVELANPASCQLFGQSEEKLRNHTAAQLINGFN-------FLRWLESEPQDSHN 147 (520)
T ss_pred HHHHHHHHHHhCCCcEEEECCC---CeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcch-------HHHHHHcCCCccce
Confidence 4567889999999999999999 9999999999999999999999999877765432 22334444331111
Q ss_pred EEEEecCCcEEEEEEEEEeec--cCCCCc--eeEEEEEEecccccc
Q 021027 96 LLNYKKDGTPFWMLFKMSLVF--GKEDGR--ATHFVAVQVPIVSRK 137 (318)
Q Consensus 96 ~~~~~~~g~~~~~~~~~~~i~--~~~~g~--~~~~i~~~~DIte~k 137 (318)
.....+|..++ +...|+. + ++|. ..|.+.+++|+++..
T Consensus 148 -~~v~~~g~~~~--v~~~PI~~~d-~~g~~~~~GaVivlrd~~~l~ 189 (520)
T PRK10820 148 -EHVVINGQDFL--MEITPVYLQD-ENDQHVLVGAVVMLRSTARMG 189 (520)
T ss_pred -EEEEECCEEEE--EEEEeeeecC-CCCceeEEEEEEEeccHHHHH
Confidence 12234566544 5667776 4 4554 379999999998753
No 41
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=98.27 E-value=2.6e-06 Score=75.86 Aligned_cols=106 Identities=13% Similarity=0.149 Sum_probs=73.2
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
...++++.++++++++++++|.+ |+++++|+++++++|++.++..|+++..+..+. .... .+... ....
T Consensus 95 ~~~~~~~~~~~~~~~~i~~~d~~---g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~---~~~~----~~~~~-~~~~ 163 (430)
T PRK11006 95 NLIKRFRSGAESLPDAVVLTTEE---GNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYP---EFTQ----YLKTR-DFSR 163 (430)
T ss_pred HHHHHHHHHHHhCCCeEEEEcCC---CceeHHHHHHHHHhCCCChHhCCCcHHHHhcCH---HHHH----HHHhc-ccCC
Confidence 45678999999999999999999 999999999999999999999999866554322 1111 11111 1111
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
.......+|. ++.+...|..+ + +.+.+.+|||++++.
T Consensus 164 ~~~~~~~~~~--~~~~~~~~~~~---~---~~~~~~~dit~~~~~ 200 (430)
T PRK11006 164 PLTLVLNNGR--HLEIRVMPYTE---G---QLLMVARDVTQMHQL 200 (430)
T ss_pred CeEEEcCCCC--EEEEEEEEcCC---C---cEEEEEehhhHHHHH
Confidence 2222234444 45566666643 2 356788999998887
No 42
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=98.23 E-value=3e-06 Score=53.43 Aligned_cols=42 Identities=24% Similarity=0.438 Sum_probs=35.5
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCC
Q 021027 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNG 66 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~ 66 (318)
++++.++++++.+++++| + ++++++|+++++++||+ ..|...
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 468899999999999999 9 89999999999999998 555554
No 43
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=98.20 E-value=1.8e-06 Score=82.71 Aligned_cols=74 Identities=14% Similarity=0.060 Sum_probs=63.4
Q ss_pred cchhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 239 ~~~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
....++.++++++++|+++|.+| +|+++|+++++++||+.++++|+++.+++++.............+..+.++
T Consensus 153 ~~~~l~~il~~~~~~i~~~D~~g---~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 226 (779)
T PRK11091 153 QSSLLRSFLDASPDLVYYRNEDG---EFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETDEKVFRHNVSL 226 (779)
T ss_pred HHHHHHHHHhcCcceEEEECCCC---cEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHHHHHHhcCCCe
Confidence 34558889999999999999997 999999999999999999999999999998877777777777777665544
No 44
>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=98.20 E-value=4.6e-06 Score=58.21 Aligned_cols=66 Identities=20% Similarity=0.313 Sum_probs=57.0
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHh
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQ 310 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~ 310 (318)
.+..+++.++.+++++|.++ .++++|+++++++|++..+++|+++..+.++.........+..++.
T Consensus 4 ~~~~~~~~~~~~~~~~d~~~---~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 69 (124)
T TIGR00229 4 RYRAIFESSPDAIIVIDLEG---NILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIERLLE 69 (124)
T ss_pred HHHHHHhhCCceEEEEcCCC---cEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHHHHc
Confidence 46778899999999999987 9999999999999999999999999888877777666666666665
No 45
>TIGR02938 nifL_nitrog nitrogen fixation negative regulator NifL. NifL is a modulator of the nitrogen fixation positive regulator protein NifA, and is therefore a negative regulator. It binds NifA. NifA and NifL are encoded by adjacent genes.
Probab=98.13 E-value=3.7e-06 Score=76.08 Aligned_cols=72 Identities=22% Similarity=0.412 Sum_probs=62.9
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
..++.+++.++++++++|.++ +++++|+++++++||++++++|++...+.++.........+.+.+..+.++
T Consensus 4 ~~~~~i~~~~~~~i~~~d~~g---~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (494)
T TIGR02938 4 EAYRQTVDQAPLAISITDLKA---NILYANDAFTRITGYTKEEIIGKNESVLSNHTTPPEVYQALWGSLAEQKPW 75 (494)
T ss_pred HHHHHHHHhCCceEEEECCCC---cEEEEchhheeecCCCHHHHhCCCchhhcCCCCCHHHHHHHHHHHHhCCcc
Confidence 357889999999999999997 999999999999999999999999888877777777788888877766665
No 46
>TIGR02966 phoR_proteo phosphate regulon sensor kinase PhoR. Members of this protein family are the regulatory histidine kinase PhoR associated with the phosphate ABC transporter in most Proteobacteria. Related proteins from Gram-positive organisms are not included in this model. The phoR gene usually is adjacent to the response regulator phoB gene (TIGR02154).
Probab=98.04 E-value=4.3e-06 Score=71.47 Aligned_cols=53 Identities=17% Similarity=0.171 Sum_probs=48.6
Q ss_pred chhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCC
Q 021027 240 SSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGV 295 (318)
Q Consensus 240 ~~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~ 295 (318)
...++.++++++++|+++|.+| .|+++|++|++++||++++++|+++..+..+
T Consensus 5 ~~~l~~~~~~~~~~i~~~d~~g---~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~ 57 (333)
T TIGR02966 5 LSRFRAAAQALPDAVVVLDEEG---QIEWCNPAAERLLGLRWPDDLGQRITNLIRH 57 (333)
T ss_pred HHHHHHHHHhCcCcEEEECCCC---cEEEEcHHHHHHhCCChHHHcCCcHHHHccC
Confidence 4568889999999999999998 9999999999999999999999999888754
No 47
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=98.03 E-value=9.1e-06 Score=70.20 Aligned_cols=67 Identities=22% Similarity=0.223 Sum_probs=54.2
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhccc
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ 313 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~ 313 (318)
.+..++++++++++++|.++ +|+++|+++++++||+.++++|+++.++.++.. .....+..++..+.
T Consensus 8 ~~~~il~~~~~gi~~~d~~~---~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~ 74 (348)
T PRK11073 8 DAGQILNSLINSILLLDDDL---AIHYANPAAQQLLAQSSRKLFGTPLPELLSYFS--LNIELMRESLQAGQ 74 (348)
T ss_pred hHHHHHhcCcCeEEEECCCC---eEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcch--hhHHHHHHHHHcCC
Confidence 47789999999999999987 999999999999999999999999998875432 22344455555444
No 48
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=98.01 E-value=0.00033 Score=54.07 Aligned_cols=118 Identities=25% Similarity=0.378 Sum_probs=83.7
Q ss_pred HHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChH-HHHHHHH-HHHhcCCeEE
Q 021027 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRR-TIMEIRE-AIREERPIEV 94 (318)
Q Consensus 17 ~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~-~~~~~~~-~~~~~~~~~~ 94 (318)
..++..+++..+.+++.+|.+ +.+.++|+.+..++|++..+..+.....+........ ....... ..........
T Consensus 111 ~~~~~~~~~~~~~~~~~~d~~---~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 187 (232)
T COG2202 111 EERLRALLEASPDGIWVLDED---GRILYANPAAEELLGYSPEEELGRGLSDLIHPEDEERRELELARALAEGRGGPLEI 187 (232)
T ss_pred HHHHHHHHhhCCceEEEEeCC---CCEEEeCHHHHHHhCCChHHhcCCChhheEecCCCchhhHHHHHHhhccCCCCcce
Confidence 344788999999999999999 9999999999999999988777766544433322211 1111111 1222334566
Q ss_pred EEEEEecCCcE-EEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTP-FWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~-~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
+......+|.. .+......+... .|.+..+.....|+++++..
T Consensus 188 ~~~~~~~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~d~~~~~~~ 231 (232)
T COG2202 188 EYRVRRKDGERVRWILSRISPVRD--DGEIVGVVGIARDITERKQA 231 (232)
T ss_pred EEEEEecCCCEEEEEEeeeeEecC--CCceEEEEEEEechHHHhhc
Confidence 77777889985 777776666643 58888888999999988764
No 49
>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=98.00 E-value=1.9e-05 Score=52.45 Aligned_cols=59 Identities=17% Similarity=0.278 Sum_probs=50.7
Q ss_pred CCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcc
Q 021027 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (318)
Q Consensus 251 ~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~ 312 (318)
+++++++|.++ .++++|+++++++|++..+++|+++..+.++.+.......+...+..+
T Consensus 2 ~~~i~~~d~~~---~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 60 (103)
T cd00130 2 PDGVIVLDLDG---RILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENLLSGG 60 (103)
T ss_pred CceEEEECCCC---cEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHHHhcC
Confidence 67889999887 999999999999999999999999988888888777777777766543
No 50
>PRK13558 bacterio-opsin activator; Provisional
Probab=97.98 E-value=1.8e-05 Score=74.65 Aligned_cols=73 Identities=37% Similarity=0.715 Sum_probs=63.0
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccce
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQAC 315 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~ 315 (318)
+..+++.++.+++++|..++++.++|+|+++++++||+.++++|+++..+.++.........+..++..+.++
T Consensus 150 ~~~~~~~~~~gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 222 (665)
T PRK13558 150 KERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAELREAIDEERPT 222 (665)
T ss_pred HHHHHhcCCccEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHHHHHHHHhcCCCe
Confidence 3568889999999998765667999999999999999999999999999988887777788888888777654
No 51
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=97.94 E-value=5.7e-05 Score=69.38 Aligned_cols=109 Identities=10% Similarity=0.139 Sum_probs=75.6
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCCh---hhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCe
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR---AEIIGRNGRMFQGPRTNRRTIMEIREAIREERPI 92 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~---~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~ 92 (318)
..+.+++++++++++++++|.+ |+++++|+++++++|++. .+.+|.....+.++ ..+...+..+.+.
T Consensus 219 l~~~~~~il~~~~~gIi~~D~~---g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~ 288 (542)
T PRK11086 219 LFEQRQAMLQSIKEGVIAVDDR---GEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPV-------SRLKEVLRTGTPR 288 (542)
T ss_pred HHHHHHHHHHHhcCcEEEECCC---CeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCc-------hhHHHHHhcCCCc
Confidence 4456688999999999999999 999999999999998753 34555554433322 1223344444443
Q ss_pred EEEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccccc
Q 021027 93 EVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHMR 140 (318)
Q Consensus 93 ~~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~~ 140 (318)
.... ...+|. ++.+...|+.+ +|.+.|++.+++|+|+.++.+
T Consensus 289 ~~~~--~~~~g~--~~~~~~~pi~~--~g~~~g~v~~~rDite~~~l~ 330 (542)
T PRK11086 289 RDEE--ININGR--LLLTNTVPVRV--NGEIIGAIATFRDKTEVRQLA 330 (542)
T ss_pred cceE--EEECCE--EEEEEEEEEeE--CCEEEEEEEEEEEchHHHHHH
Confidence 3221 122444 44566778876 788999999999999988763
No 52
>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=97.90 E-value=8.5e-06 Score=55.38 Aligned_cols=50 Identities=24% Similarity=0.379 Sum_probs=40.3
Q ss_pred eeEecHHHHHHhCCCcccccCCC----cccccCCCCCHHHHHHHHH-HHhccccee
Q 021027 266 MVYASDAFLKLTGYDRNEVVGQN----CRFLNGVDTDTTVLYQIKE-SIQTEQACT 316 (318)
Q Consensus 266 i~~~N~a~~~~~Gy~~~el~G~~----~~~l~~~~~~~~~~~~~~~-~l~~~~~~~ 316 (318)
|+|||+++++|+||+++++ |.. +..+++|++...+.+.+.+ ++..+.++.
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~ 55 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQAALQNGEPFE 55 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHHHHHHTT-EEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHHHhhccCcceE
Confidence 6899999999999999999 777 7889999999999999999 677776664
No 53
>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=97.90 E-value=3.5e-05 Score=46.81 Aligned_cols=63 Identities=21% Similarity=0.275 Sum_probs=51.6
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHH
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKES 308 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~ 308 (318)
+..+++.+++++++++..+ .+.++|+.+..++|++..++.|+.+..+.++.+.+.....+..+
T Consensus 3 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 65 (67)
T smart00091 3 LRAILESLPDGIFVLDLDG---RILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEALQRL 65 (67)
T ss_pred HHHHHhhCCceEEEEcCCC---eEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHHHHHH
Confidence 4567788899999999876 99999999999999999999999888888777765555555443
No 54
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=97.89 E-value=0.0001 Score=65.41 Aligned_cols=112 Identities=12% Similarity=0.037 Sum_probs=79.1
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCC-eEE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP-IEV 94 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~-~~~ 94 (318)
..++++.+++....|++..|.+ |.+..+|+++++|+|.+..+++|.+++.+.+. +...+...-..+.+ ...
T Consensus 368 rr~f~E~VLsgvtaGVi~~d~~---g~i~t~N~~ae~~l~~~~~~~~G~~lsa~ap~-----~~~vf~~~~a~~~~~~~~ 439 (712)
T COG5000 368 RRRFLEAVLSGLTAGVIGFDNR---GCITTVNPSAEQILGKPFDQLLGQSLSAIAPE-----LEEVFAEAGAAARTDKRV 439 (712)
T ss_pred HHHHHHHHHhcCceeEEEEcCC---CeeEeecchHHHHhcCChhHhhcchhhhhhhH-----HHHHHHHhhhhcCCCccc
Confidence 4467788999999999999999 99999999999999999999999886654321 22222222222222 223
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
+.. ....|+.+.+.+..+.... + .--|++.++.|||....+
T Consensus 440 ev~-~~r~g~~rtl~Vq~t~~~~-d--~~~gyVvt~DDITdLV~A 480 (712)
T COG5000 440 EVK-LAREGEERTLNVQATREPE-D--NGNGYVVTFDDITDLVIA 480 (712)
T ss_pred eee-cccCCCceeeeeeeeeccc-c--cCCceEEEecchHHHHHH
Confidence 332 3456677777777766544 3 234789999999998887
No 55
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=97.78 E-value=1.7e-05 Score=70.69 Aligned_cols=52 Identities=17% Similarity=0.146 Sum_probs=46.8
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCC
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGV 295 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~ 295 (318)
..++.++++++++|+++|.+| +|+++|+++++++||+.++++|+++..+..+
T Consensus 98 ~~~~~~~~~~~~~i~~~d~~g---~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~ 149 (430)
T PRK11006 98 KRFRSGAESLPDAVVLTTEEG---NIFWCNGLAQQLLGFRWPEDNGQNILNLLRY 149 (430)
T ss_pred HHHHHHHHhCCCeEEEEcCCC---ceeHHHHHHHHHhCCCChHhCCCcHHHHhcC
Confidence 347788999999999999987 9999999999999999999999999877643
No 56
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=97.78 E-value=1.4e-05 Score=67.64 Aligned_cols=72 Identities=19% Similarity=0.348 Sum_probs=62.3
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCC-CCHHHHHHHHHHHhcccceec
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVD-TDTTVLYQIKESIQTEQACTE 317 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~-~~~~~~~~~~~~l~~~~~~~~ 317 (318)
+..+++....+|-|+|.+. .|.||||+|+.|+||-..|++|+...++...+ ......+.+...+++|..|+-
T Consensus 159 lFaaLD~c~eAiEI~~ddh---ViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG 231 (775)
T KOG1229|consen 159 LFAALDECDEAIEICDDDH---VIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQG 231 (775)
T ss_pred HHHHHhhhhhhheeccchh---HHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccc
Confidence 6677888889999999886 99999999999999999999999999986544 466778889999999988863
No 57
>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=97.77 E-value=3.2e-05 Score=54.58 Aligned_cols=53 Identities=23% Similarity=0.259 Sum_probs=46.5
Q ss_pred CCCeeEecHH-HHHHhCCCcccccCCCcccccCCCCCHH-HHHHHHHHHhcccce
Q 021027 263 DMPMVYASDA-FLKLTGYDRNEVVGQNCRFLNGVDTDTT-VLYQIKESIQTEQAC 315 (318)
Q Consensus 263 ~~~i~~~N~a-~~~~~Gy~~~el~G~~~~~l~~~~~~~~-~~~~~~~~l~~~~~~ 315 (318)
||+|+++.+. ...++||.++||+|+++.+++||++... ..+..+..+.+|+..
T Consensus 11 dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~ 65 (111)
T PF14598_consen 11 DGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSV 65 (111)
T ss_dssp TSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEE
T ss_pred CcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcC
Confidence 4599999999 5999999999999999999999999997 778899988888754
No 58
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=97.76 E-value=2.1e-05 Score=71.24 Aligned_cols=54 Identities=17% Similarity=0.087 Sum_probs=49.0
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCC
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT 297 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~ 297 (318)
..+..+++++++||+++|.+| +|+++|+++++++|++.++++|+++.+++++..
T Consensus 80 ~~L~aIL~sm~eGVi~vD~~G---~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~ 133 (520)
T PRK10820 80 RALSALLEALPEPVLSIDMKG---KVELANPASCQLFGQSEEKLRNHTAAQLINGFN 133 (520)
T ss_pred HHHHHHHHhCCCcEEEECCCC---eeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcch
Confidence 447889999999999999998 999999999999999999999999999886533
No 59
>KOG1229 consensus 3'5'-cyclic nucleotide phosphodiesterases [Signal transduction mechanisms]
Probab=97.74 E-value=1.5e-05 Score=67.46 Aligned_cols=105 Identities=23% Similarity=0.375 Sum_probs=85.9
Q ss_pred HHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCC-ChHHHHHHHHHHHhcCCeEEEEEE
Q 021027 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRT-NRRTIMEIREAIREERPIEVNLLN 98 (318)
Q Consensus 20 ~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~ 98 (318)
+.+.++....++-++|.+ ..+.|+|++|+.++|+-..+++|+...++...+. ...+...+..+++.|..+.++...
T Consensus 159 lFaaLD~c~eAiEI~~dd---hViQYVNpAfE~mmG~hkgEliGke~adlpkkdknradlldtintcikkgke~qG~~~a 235 (775)
T KOG1229|consen 159 LFAALDECDEAIEICDDD---HVIQYVNPAFENMMGCHKGELIGKEEADLPKKDKNRADLLDTINTCIKKGKEAQGEEEA 235 (775)
T ss_pred HHHHHhhhhhhheeccch---hHHHHhcHHHHhhhcchhhhhcCCchhhccccccchhhhhhhhhHhhhcCccccchHHH
Confidence 345778888899999998 9999999999999999999999999888765443 445677888899999999888777
Q ss_pred EecCCcEEEEEEEEEeeccCCCCceeEEEE
Q 021027 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVA 128 (318)
Q Consensus 99 ~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~ 128 (318)
+++.|...-..+..+|+.+ ..|.+..++.
T Consensus 236 RRksgdS~dqh~~itP~~g-qggkirhfvs 264 (775)
T KOG1229|consen 236 RRKSGDSCDQHFIITPFAG-QGGKIRHFVS 264 (775)
T ss_pred hhccCCcccceEEEeeecC-CCCceeeehh
Confidence 7788877777788899988 6777766643
No 60
>PF12860 PAS_7: PAS fold
Probab=97.73 E-value=2e-05 Score=56.27 Aligned_cols=44 Identities=23% Similarity=0.310 Sum_probs=39.5
Q ss_pred HhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccc-cCCCccccc
Q 021027 247 LGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEV-VGQNCRFLN 293 (318)
Q Consensus 247 ~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el-~G~~~~~l~ 293 (318)
+++++.||+++|.++ ++++||++|.+|+|++.+.+ .|.++..+.
T Consensus 1 Ld~l~~Gv~v~D~~~---rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~ 45 (115)
T PF12860_consen 1 LDSLPQGVAVFDSDG---RLVFWNQRFRELFGLPPEMLRPGASFRDLL 45 (115)
T ss_pred CCCcCceEEEEcCCC---eEEeEcHHHHHHhCCCHHHhcCCCCHHHHH
Confidence 467899999999998 99999999999999999998 899876654
No 61
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=97.61 E-value=0.00055 Score=64.14 Aligned_cols=108 Identities=12% Similarity=0.228 Sum_probs=75.4
Q ss_pred HHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEE
Q 021027 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLN 98 (318)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 98 (318)
.+..+++..+++++++|.+ |+|+++|+++++++|++..+++|++...+++.. ..+..++..+.........
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 3456889999999999999 999999999999999999999999877665321 1123344555544332222
Q ss_pred EecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccc
Q 021027 99 YKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (318)
Q Consensus 99 ~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~ 138 (318)
...+|..+++.+...|+.+ ..|. +++.+..+++..+.
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 3345666678888899865 3442 35566678776443
No 62
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=97.60 E-value=3.6e-05 Score=54.04 Aligned_cols=66 Identities=14% Similarity=0.118 Sum_probs=46.7
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcc
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~ 312 (318)
|..++++++.+++++|.++ +|.+.|+++.++++... ..+|+++..+.++...+.+.+.+......+
T Consensus 1 L~~il~s~~~~i~~vD~~~---~I~~~n~~a~~~f~~~~-~~iGr~l~~~~~~~~~~~l~~~i~~~~~~~ 66 (106)
T PF13596_consen 1 LNNILDSMPIGIIFVDRNL---RIRYFNPAAARLFNLSP-SDIGRPLFDIHPPLSYPNLKKIIEQVRSGK 66 (106)
T ss_dssp HHHHHHHSSSEEEEEETTS---BEEEE-SCGC-SS---G-GGTTSBCCCSS-HHHHHHHHHHHHHHHTTS
T ss_pred ChHHHhcCCCCEEEEcCCC---eEEEeChhHhhhcCCCh-HHCCCCHHHcCCccchHHHHHHHHHHHcCC
Confidence 4568999999999999998 99999999999999764 558999999986645555555554444433
No 63
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=97.48 E-value=0.0013 Score=55.16 Aligned_cols=55 Identities=18% Similarity=0.248 Sum_probs=46.5
Q ss_pred HHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChH
Q 021027 20 VHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRR 77 (318)
Q Consensus 20 ~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~ 77 (318)
-..+++.....+++++++ |.|.|++..+.-.+|++.-|+.|....+.+++.+...
T Consensus 81 gshlLqtLDGF~fvva~d---GkimYISETaSvhLGLSQVElTGNsi~eYIH~~D~de 135 (598)
T KOG3559|consen 81 GSHLLQTLDGFIFVVAPD---GKIMYISETASVHLGLSQVELTGNSIYEYIHPQDHDE 135 (598)
T ss_pred HHhHHHhhcceEEEEeCC---CCEEEEecceeeeecceeeEeecchhhhhhcccchHH
Confidence 345677777788999999 9999999999999999999999998777777766544
No 64
>KOG3558 consensus Hypoxia-inducible factor 1/Neuronal PAS domain protein NPAS1 [Signal transduction mechanisms; Transcription]
Probab=97.40 E-value=0.0004 Score=62.30 Aligned_cols=95 Identities=11% Similarity=0.252 Sum_probs=78.9
Q ss_pred EcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCCcEEEEEEEEE
Q 021027 34 TDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMS 113 (318)
Q Consensus 34 ~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 113 (318)
.+.+ .+|.||.+.+..++||.+++++|+.+..++|..+...+.......+..|.....-+++..++|.+.|+...++
T Consensus 280 hs~D---mkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~KGQv~TgyYR~lak~GGyvWlQTqAT 356 (768)
T KOG3558|consen 280 HSLD---MKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTKGQVVTGYYRLLAKNGGYVWLQTQAT 356 (768)
T ss_pred eecc---eeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhcCccchhHHHHHHhcCCeEEEEeeeE
Confidence 4455 8999999999999999999999999999999998888888888888899888888888999999999999988
Q ss_pred eeccCCCCceeEEEEEEe
Q 021027 114 LVFGKEDGRATHFVAVQV 131 (318)
Q Consensus 114 ~i~~~~~g~~~~~i~~~~ 131 (318)
.+.+..++....++++-.
T Consensus 357 Vi~~tkn~q~q~IicVnY 374 (768)
T KOG3558|consen 357 VIYNTKNPQEQNIICVNY 374 (768)
T ss_pred EEecCCCCCcceEEEEEe
Confidence 887612333344444443
No 65
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins.
Probab=97.40 E-value=0.0072 Score=44.51 Aligned_cols=112 Identities=11% Similarity=0.102 Sum_probs=78.3
Q ss_pred HHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEE
Q 021027 18 LWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLL 97 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 97 (318)
..++.+++ .|.+|+-.+.. +|-.++|.|.++..+++++-+++++.+......+.........+.++...|-.....-.
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 34555555 88888877654 44789999999999999999999999866665565556666666677766654444444
Q ss_pred EEecCCcEEEEEE-EEEeeccCCCCceeEEEEEEec
Q 021027 98 NYKKDGTPFWMLF-KMSLVFGKEDGRATHFVAVQVP 132 (318)
Q Consensus 98 ~~~~~g~~~~~~~-~~~~i~~~~~g~~~~~i~~~~D 132 (318)
.+.+.|+.+++.- .+--+.+ ++|...|.-..+.+
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 5678888887753 2334456 67887776655554
No 66
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=97.39 E-value=0.0016 Score=65.86 Aligned_cols=42 Identities=10% Similarity=0.055 Sum_probs=37.1
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChh
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA 59 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~ 59 (318)
....+++.++++++.+++++|.+ |+++++|++++.++|.+..
T Consensus 573 ~~~~~~~~i~~~~~~~i~~~d~~---g~i~~~N~~~~~~~g~~~~ 614 (1197)
T PRK09959 573 NQISFRKALSDSLPNPTYVVNWQ---GNVISHNSAFEHYFTADYY 614 (1197)
T ss_pred HHHHHHHHHHhhCCCcEEEEcCC---CcEEEehHHHHHHhCcccc
Confidence 34567788999999999999999 9999999999999998643
No 67
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=97.39 E-value=0.0011 Score=58.45 Aligned_cols=109 Identities=13% Similarity=0.167 Sum_probs=81.1
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChh--hhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRA--EIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~--e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 93 (318)
..+...++++++..|++.+|.. |.+..+|.++++++|+... +.+|++...+++|+..- ...++.+++..
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---GVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSDL------PEVLETGKPQH 283 (537)
T ss_pred HHHHHHHHHHHhhceEEEECCC---CeEeehhHHHHHHhcccCcCcccccccceEeeccccCc------HHHHhcCCccc
Confidence 3445678899999999999999 9999999999999999765 68899888877763211 22234444433
Q ss_pred EEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 94 ~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
.+.. +-+|. ++.....|+.. ++++.|++..++|-|+-+..
T Consensus 284 ~~e~--~~ng~--~~i~nr~pI~~--~~~~~GaI~tFRdktei~~L 323 (537)
T COG3290 284 DEEI--RINGR--LLVANRVPIRS--GGQIVGAIITFRDKTEIKKL 323 (537)
T ss_pred chhh--hcCCe--EEEEEeccEEE--CCEEeEEEEEEecHHHHHHH
Confidence 3221 23444 55577788876 89999999999999998876
No 68
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=97.37 E-value=0.00087 Score=61.70 Aligned_cols=106 Identities=14% Similarity=0.096 Sum_probs=72.6
Q ss_pred HHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCCh--hhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEE
Q 021027 17 TLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR--AEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEV 94 (318)
Q Consensus 17 ~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~--~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 94 (318)
...++.+++...++++++|.+ |+++++|+++++++|++. .+++|++...+.++... .. .... ......
T Consensus 221 ~~~~~~il~~~~egii~~D~~---g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~~---~~---~~~~-~~~~~~ 290 (545)
T PRK15053 221 VRQQEALFSSVYEGLIAVDPH---GYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPADF---FT---EQID-EKRQDV 290 (545)
T ss_pred HHHHHHHHHHhCceEEEECCC---CeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCchh---hh---hhcC-Ccccce
Confidence 345678999999999999999 999999999999999965 46889886665543211 10 1111 111111
Q ss_pred EEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 95 NLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 95 ~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
. ...+|. .+.+...|+.. .+.+.|.+.+++|+|+.+..
T Consensus 291 ~---~~~~~~--~~~~~~~~i~~--~~~~~G~v~~~~d~te~~~l 328 (545)
T PRK15053 291 V---ANFNGL--SVIANREAIRS--GDDLLGAIISFRSKDEISTL 328 (545)
T ss_pred E---EEECCE--EEEEEeeeEEE--CCeEEEEEEEEEchHHHHHH
Confidence 1 122443 34466777765 56778999999999998776
No 69
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=97.27 E-value=0.0011 Score=55.79 Aligned_cols=114 Identities=16% Similarity=0.162 Sum_probs=89.2
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEE
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVN 95 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~ 95 (318)
....+++++++.|.-+..+|.+ +++.+.|+. .++|..++.. +|+... +.||..+......+.+.+++|..-..+
T Consensus 288 ~~~e~naif~~lP~Ditfvdk~---diV~ffs~~-~rif~rt~sv-iGr~v~-~chpPksv~iv~ki~~~fksG~kd~~e 361 (409)
T COG2461 288 SLEELNAIFKHLPVDITFVDKN---DIVRFFSGG-ERIFPRTPSV-IGRRVQ-LCHPPKSVHIVEKILKDFKSGEKDFAE 361 (409)
T ss_pred eHHHHHHHHhhCCCceEEeccc---ceEEecCCc-ceecccChHh-hCCccc-CCCCCchHHHHHHHHHHhhcCCcchHH
Confidence 3457889999999888889999 999999998 8888877664 577644 456667777788888888888765555
Q ss_pred EEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 96 LLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 96 ~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
+. .+..+ .++.++..++++ ++|+..|.+-+.+|||.-+..
T Consensus 362 fw-~~~~~--~~i~i~Y~av~d-e~ge~~g~le~~qdi~~i~~l 401 (409)
T COG2461 362 FW-INMGD--KFIHIRYFAVKD-EEGEYLGTLEVVQDITRIKEL 401 (409)
T ss_pred Hh-ccCCC--ceEEEEEEEEEc-CCCceeeeehhhhhhHHHHhc
Confidence 54 22223 356688889999 899999999999999998886
No 70
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=97.27 E-value=0.0029 Score=51.78 Aligned_cols=109 Identities=12% Similarity=0.106 Sum_probs=79.5
Q ss_pred HHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEe
Q 021027 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYK 100 (318)
Q Consensus 21 ~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (318)
..++++...++.++|.+ +.+.|+|++++.+||.+...+.|..+..+++.. ......+.+....+.++...-....
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 46899999999999999 999999999999999999999998877776443 2345556666666655442222233
Q ss_pred cCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccccc
Q 021027 101 KDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKH 138 (318)
Q Consensus 101 ~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~ 138 (318)
.+|....+...+.|+.. ..|. ++..++-+..+.+
T Consensus 85 ~~g~~~~v~~~v~~v~~-~~G~---vlle~~~~~~~~r 118 (363)
T COG3852 85 ILGRSHIVDLTVAPVPE-EPGS---VLLEFHPRDMQRR 118 (363)
T ss_pred ecCccceEEEEEeeccC-CCCe---EEEEechhHHHhH
Confidence 68888899999999976 5564 3444554444443
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=97.27 E-value=0.0014 Score=39.29 Aligned_cols=54 Identities=24% Similarity=0.417 Sum_probs=44.5
Q ss_pred HHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCC
Q 021027 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTN 75 (318)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~ 75 (318)
+++.+++..+.++++++.. +.+.++|+.+..++|++..++.+.....+.++...
T Consensus 2 ~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 55 (67)
T smart00091 2 RLRAILESLPDGIFVLDLD---GRILYANPAAEELLGYSPEELIGKSLLELIHPEDR 55 (67)
T ss_pred hHHHHHhhCCceEEEEcCC---CeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccH
Confidence 3566888899999999999 99999999999999999988888765555555443
No 72
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=97.24 E-value=0.00064 Score=63.16 Aligned_cols=67 Identities=19% Similarity=0.202 Sum_probs=54.6
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhccc
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQ 313 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~ 313 (318)
.+..++++++++++++|.++ .++++|+++++++||++++++|+++.++.++.. .....+.+.+..+.
T Consensus 263 ~~~~i~~~~~~~i~~~d~~g---~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~--~~~~~~~~~~~~~~ 329 (607)
T PRK11360 263 LNELILESIADGVIAIDRQG---KITTMNPAAEVITGLQRHELVGKPYSELFPPNT--PFASPLLDTLEHGT 329 (607)
T ss_pred HHHHHHHhccCeEEEEcCCC---CEEEECHHHHHHhCCChHHhcCCcHHHHcCCch--hHHHHHHHHHhcCC
Confidence 46678899999999999987 999999999999999999999999998886542 33445555655544
No 73
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=97.08 E-value=0.029 Score=42.87 Aligned_cols=52 Identities=23% Similarity=0.261 Sum_probs=42.9
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCC
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDT 297 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~ 297 (318)
+..++++++++++++|.++ .++++|+++++++||+..+..++....+.....
T Consensus 114 ~~~~~~~~~~~~~~~d~~~---~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~ 165 (232)
T COG2202 114 LRALLEASPDGIWVLDEDG---RILYANPAAEELLGYSPEEELGRGLSDLIHPED 165 (232)
T ss_pred HHHHHhhCCceEEEEeCCC---CEEEeCHHHHHHhCCChHHhcCCChhheEecCC
Confidence 4557777899999999876 999999999999999988888888766654433
No 74
>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=97.05 E-value=0.0016 Score=47.93 Aligned_cols=69 Identities=19% Similarity=0.160 Sum_probs=53.8
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcc
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~ 312 (318)
+...+=..|.+|+-.+.. +|..++|.|.++.+|++|+.+|++|.+.+.-..+.....-...+.++.+.|
T Consensus 33 ~~~~L~~ap~ailsh~~~-~dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v~~qG 101 (148)
T PF08670_consen 33 LAKALWHAPFAILSHGTK-ADPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQVMQQG 101 (148)
T ss_pred HHHHHHcCCCEEEEcCCC-CCCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHHHHhC
Confidence 333444489999988887 788999999999999999999999998876666666666666666666554
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=97.02 E-value=0.0094 Score=42.03 Aligned_cols=67 Identities=18% Similarity=0.076 Sum_probs=55.0
Q ss_pred HHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCC-cccCCCCChHHHHHHHHHHHhcC
Q 021027 21 HEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGR-MFQGPRTNRRTIMEIREAIREER 90 (318)
Q Consensus 21 ~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~-~l~~~~~~~~~~~~~~~~~~~~~ 90 (318)
..-++..|-|++-+|.+ |.++..|.+=..+.|++++.++|+++. ++-|....+.+...+......+.
T Consensus 19 ~eelD~lpFGvI~lD~~---G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~ 86 (124)
T TIGR02373 19 DAQFDALPFGAIQLDGS---GVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGT 86 (124)
T ss_pred HhHhhcCCcceEEECCC---CEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCC
Confidence 35689999999999999 999999999999999999999999844 45444556667777777666554
No 76
>TIGR02373 photo_yellow photoactive yellow protein. Members of this family are photoactive yellow protein, a cytosolic, 14-kDa light-sensing protein which has a 4-hydroxycinnamyl (p-coumaric acid) chromophore covalently linked to a Cys residue. The enzyme 4-coumarate--CoA ligase as described by TIGR02372 is required for its biosynthesis. The modified Cys is in a PAS (pfam00989) domain, frequently found in signal transducing proteins. Members are known in alpha and gamma Proteobacteria that include Rhodobacter capsulatus, Halorhodospira halophila, Rhodospirillum centenum, etc.
Probab=96.83 E-value=0.0025 Score=44.85 Aligned_cols=65 Identities=14% Similarity=0.118 Sum_probs=53.1
Q ss_pred HHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcc-cccCCCCCHHHHHHHHHHHhccc
Q 021027 246 SLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCR-FLNGVDTDTTVLYQIKESIQTEQ 313 (318)
Q Consensus 246 ~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~-~l~~~~~~~~~~~~~~~~l~~~~ 313 (318)
-++.+|-|++-.|.+| +|+..|.+-.++.|++++.++|+++- ++.+=...+.+..+..+..++|.
T Consensus 21 elD~lpFGvI~lD~~G---~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~g~~~g~ 86 (124)
T TIGR02373 21 QFDALPFGAIQLDGSG---VILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFMEGVASGT 86 (124)
T ss_pred HhhcCCcceEEECCCC---EEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHhhhhcCC
Confidence 3566799999999998 99999999999999999999999974 44433456668888877766653
No 77
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=96.68 E-value=0.0028 Score=53.16 Aligned_cols=59 Identities=17% Similarity=0.072 Sum_probs=52.2
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHH
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVL 302 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~ 302 (318)
..+...++++|++|+-+|..| .+..+|||++.++|.+.+++.|++...++..-+.+.+.
T Consensus 80 l~L~aLL~al~~pVlsvd~kg---~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~~~l 138 (511)
T COG3283 80 LALSALLEALPEPVLSVDMKG---KVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFLRWL 138 (511)
T ss_pred HHHHHHHHhCCCceEEecccC---ceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHHHHH
Confidence 347889999999999999998 99999999999999999999999999998776655444
No 78
>KOG0501 consensus K+-channel KCNQ [Inorganic ion transport and metabolism]
Probab=96.43 E-value=0.0024 Score=56.54 Aligned_cols=63 Identities=33% Similarity=0.718 Sum_probs=50.9
Q ss_pred CCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCc--ccccCCCCCHHHHHHHHHHHhccc
Q 021027 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNC--RFLNGVDTDTTVLYQIKESIQTEQ 313 (318)
Q Consensus 251 ~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~--~~l~~~~~~~~~~~~~~~~l~~~~ 313 (318)
...+++.++.--|+.|+|+|+.||++.||.+.|+..++| .+......+....+++++++++.+
T Consensus 27 dtsFlL~NAQiVD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~eN~~ 91 (971)
T KOG0501|consen 27 DTSFLLANAQIVDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLENYE 91 (971)
T ss_pred CcceeeccceeeccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHHhhh
Confidence 445566666667899999999999999999999999876 455555678888999999988654
No 79
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=96.40 E-value=0.0038 Score=57.48 Aligned_cols=52 Identities=12% Similarity=0.145 Sum_probs=45.2
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCc--ccccCCCcccccCCC
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR--NEVVGQNCRFLNGVD 296 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~--~el~G~~~~~l~~~~ 296 (318)
.+..+++++++||+++|.+| +|+++|+++++++|++. ++++|+++.++.++.
T Consensus 223 ~~~~il~~~~egii~~D~~g---~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~ 276 (545)
T PRK15053 223 QQEALFSSVYEGLIAVDPHG---YITAINRNARKMLGLSSPGRQWLGKPIAEVVRPA 276 (545)
T ss_pred HHHHHHHHhCceEEEECCCC---eEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCc
Confidence 36678899999999999998 99999999999999976 479999998877543
No 80
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=96.40 E-value=0.0052 Score=50.33 Aligned_cols=67 Identities=19% Similarity=0.262 Sum_probs=56.6
Q ss_pred HHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhccccee
Q 021027 245 ISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (318)
Q Consensus 245 ~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~ 316 (318)
.+++++..+|++.|.++ .|.|+|++++.+||-|..-+.|.+++.|+... .....-+.++..++.++.
T Consensus 11 ~~Ln~~~~pVl~vd~~~---~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~g--s~ll~ll~q~~~~~~~~~ 77 (363)
T COG3852 11 AILNNLINPVLLVDDEL---AIHYANPAAEQLLAVSARRLAGTRLSELLPFG--SLLLSLLDQVLERGQPVT 77 (363)
T ss_pred hHHhccCCceEEEcCCC---cEEecCHHHHHHHHHHHHHHhcCChHHHcCCC--cHHHHHHHHHHHhcCCcc
Confidence 57888999999999987 99999999999999999999999999887543 345677777777777653
No 81
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=96.14 E-value=0.017 Score=48.67 Aligned_cols=56 Identities=14% Similarity=0.158 Sum_probs=48.9
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCC
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRT 74 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~ 74 (318)
..-.+.+++++.++++..+|.. |.+..+|++++++||.+++.+.|.+...++....
T Consensus 78 ~hl~L~aLL~al~~pVlsvd~k---g~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~n 133 (511)
T COG3283 78 EHLALSALLEALPEPVLSVDMK---GKVDMANPAACQLFGRKEDRLRGHTAAQLINGFN 133 (511)
T ss_pred HhHHHHHHHHhCCCceEEeccc---CceeecCHHHHHHhCCChhhhcCccHHHhcCcCC
Confidence 3446788999999999999999 9999999999999999999999998776665543
No 82
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=96.10 E-value=0.019 Score=53.26 Aligned_cols=58 Identities=12% Similarity=0.182 Sum_probs=48.3
Q ss_pred EEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcc
Q 021027 254 FVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTE 312 (318)
Q Consensus 254 i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~ 312 (318)
|+++-.. +.+.|..|..++..++||-+.+|||+.+..++|+.+.....+.-.+.++.+
T Consensus 332 iFtT~HT-ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~ 389 (1114)
T KOG3753|consen 332 IFTTTHT-PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSG 389 (1114)
T ss_pred eeEeccC-CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhC
Confidence 4544433 567899999999999999999999999999999999887777777777755
No 83
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=96.05 E-value=0.0092 Score=54.86 Aligned_cols=51 Identities=16% Similarity=0.221 Sum_probs=43.1
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCC---cccccCCCcccccC
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD---RNEVVGQNCRFLNG 294 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~---~~el~G~~~~~l~~ 294 (318)
..+..++++++++|+++|.+| +|+++|+++++++|++ ..+.+|+.+..+.+
T Consensus 221 ~~~~~il~~~~~gIi~~D~~g---~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~ 274 (542)
T PRK11086 221 EQRQAMLQSIKEGVIAVDDRG---EVTLINDEAKRLFNYKKGLEDDPLGTDVESWMP 274 (542)
T ss_pred HHHHHHHHHhcCcEEEECCCC---eEEEEhHHHHHHhCCCcCCcccccCCcHHHhCC
Confidence 446789999999999999998 9999999999999876 35778888776654
No 84
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=95.94 E-value=0.0096 Score=49.70 Aligned_cols=56 Identities=16% Similarity=0.246 Sum_probs=48.5
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHH
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTT 300 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~ 300 (318)
+|..++.-+.|||+.+|..| .|+.+|+.+.+|+|.+.++++|+++.++..-.+.-.
T Consensus 112 kL~SvlayMtDGViATdRrG---~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~ 167 (459)
T COG5002 112 KLDSVLAYMTDGVIATDRRG---KIILINKPALKMLGVSKEDALGRSILELLKIEDTYT 167 (459)
T ss_pred HHHHHHHHHcCceEeecCCC---cEEEeccHHHHHhCcCHHHHhcccHHHHhCCcccee
Confidence 46667777899999999998 999999999999999999999999988876555433
No 85
>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=95.75 E-value=0.1 Score=27.15 Aligned_cols=39 Identities=31% Similarity=0.463 Sum_probs=31.7
Q ss_pred EEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccc
Q 021027 97 LNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (318)
Q Consensus 97 ~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~ 136 (318)
.....+|...|+.....++.+ ..+.+.+++++..|||++
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~di~~~ 43 (43)
T smart00086 5 RLRRKDGSYIWVLVSASPIRD-EDGEVEGILGVVRDITER 43 (43)
T ss_pred EEEecCCCEEEEEEEeEEEEC-CCCCEEEEEEEEEeccCC
Confidence 445678888898888888887 678888999999999863
No 86
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=95.70 E-value=0.016 Score=51.46 Aligned_cols=51 Identities=20% Similarity=0.201 Sum_probs=45.9
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcc--cccCCCcccccCCC
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRN--EVVGQNCRFLNGVD 296 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~--el~G~~~~~l~~~~ 296 (318)
...+|.++..||+.+|..| .|+.+|.++++|+|+... +.+|+++.++..|+
T Consensus 217 r~A~l~si~EGviAvd~~G---~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~ 269 (537)
T COG3290 217 RQAMLQSIKEGVIAVDKKG---VITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPD 269 (537)
T ss_pred HHHHHHHhhceEEEECCCC---eEeehhHHHHHHhcccCcCcccccccceEeeccc
Confidence 5568899999999999998 999999999999999875 79999999998763
No 87
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=95.65 E-value=0.0053 Score=57.30 Aligned_cols=63 Identities=16% Similarity=0.198 Sum_probs=48.8
Q ss_pred chhHHHHHhccCCcE-EEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHH
Q 021027 240 SSSLYISLGRIKQSF-VLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQI 305 (318)
Q Consensus 240 ~~~l~~~~~~~~~~i-~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~ 305 (318)
...|.-++-.+-||+ +++..+| +|+||.++...++||..+|++|+++.++++|.+....++.+
T Consensus 93 ~~eL~~LmLeAlDGF~fvV~cdG---~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~ql 156 (803)
T KOG3561|consen 93 NDELTHLILEALDGFLFVVNCDG---RIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPREQL 156 (803)
T ss_pred hHHHHHHHHHHhcCeEEEEecCc---eEEEEecchHHhhCcCHHHHhcchHHHhcCccccCcccccc
Confidence 445665444444554 6666666 99999999999999999999999999999998766655543
No 88
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=95.49 E-value=0.065 Score=47.25 Aligned_cols=93 Identities=14% Similarity=0.162 Sum_probs=75.1
Q ss_pred CcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCCcEEEEEEEEEeeccCCC
Q 021027 41 HPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKED 120 (318)
Q Consensus 41 ~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~i~~~~~ 120 (318)
+..+.+......++||...|+.|.....+++-++..-......+.++.|+..-.-++..+++|+..|+..++..++. +
T Consensus 293 fa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktgeSGmlvyR~qtk~grw~wvqssarllyk--n 370 (712)
T KOG3560|consen 293 FALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGESGMLVYREQTKAGRWAWVQSSARLLYK--N 370 (712)
T ss_pred cceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCCcceEEEEEeecCCcEEEeeccceeeee--c
Confidence 66778888899999999999999888888877766555667778888888888888888999999999888877775 7
Q ss_pred CceeEEEEEEecccc
Q 021027 121 GRATHFVAVQVPIVS 135 (318)
Q Consensus 121 g~~~~~i~~~~DIte 135 (318)
|.+..++...+-.++
T Consensus 371 gkPD~vi~thr~l~D 385 (712)
T KOG3560|consen 371 GKPDLVIDTHRGLGD 385 (712)
T ss_pred CCCCEEEecCCCccc
Confidence 888777766554444
No 89
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=95.29 E-value=0.39 Score=35.27 Aligned_cols=87 Identities=13% Similarity=0.155 Sum_probs=70.6
Q ss_pred CCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCCcEEEEEEEEEeeccCC
Q 021027 40 GHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWMLFKMSLVFGKE 119 (318)
Q Consensus 40 ~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~i~~~~ 119 (318)
+.++..+-...+.++|+ ++.|+++..++.+.........+..++....+..........+|....++...-|+.+ +
T Consensus 50 ~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~~~~~~~~~~g~~~~~e~l~LPL~~-~ 125 (137)
T PF07310_consen 50 DFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVRARGRAEDADGRYLEYERLLLPLRS-D 125 (137)
T ss_pred ceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEEEEEEEecCCCCeeEEEEEEcccCC-C
Confidence 46677888999999998 5679988888888777777778888888888877777777778888888888999998 7
Q ss_pred CCceeEEEEEE
Q 021027 120 DGRATHFVAVQ 130 (318)
Q Consensus 120 ~g~~~~~i~~~ 130 (318)
+|.+..++|..
T Consensus 126 ~~~v~rilG~~ 136 (137)
T PF07310_consen 126 GGTVDRILGAL 136 (137)
T ss_pred CCCccEEEEec
Confidence 78888887764
No 90
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=94.42 E-value=0.057 Score=48.68 Aligned_cols=48 Identities=13% Similarity=0.137 Sum_probs=43.4
Q ss_pred HHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCccccc
Q 021027 243 LYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN 293 (318)
Q Consensus 243 l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~ 293 (318)
+...++.++-||+..|.+| +|.-+||++++|+|.+.++++|++.+.+.
T Consensus 372 ~E~VLsgvtaGVi~~d~~g---~i~t~N~~ae~~l~~~~~~~~G~~lsa~a 419 (712)
T COG5000 372 LEAVLSGLTAGVIGFDNRG---CITTVNPSAEQILGKPFDQLLGQSLSAIA 419 (712)
T ss_pred HHHHHhcCceeEEEEcCCC---eeEeecchHHHHhcCChhHhhcchhhhhh
Confidence 5568888999999999998 99999999999999999999999977664
No 91
>KOG3561 consensus Aryl-hydrocarbon receptor nuclear translocator [Transcription]
Probab=93.70 E-value=0.061 Score=50.54 Aligned_cols=58 Identities=17% Similarity=0.292 Sum_probs=48.7
Q ss_pred HHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHH
Q 021027 19 WVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTI 79 (318)
Q Consensus 19 ~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~ 79 (318)
+-..+++++...++++.-+ |+|+||++....++||..+|++|.++..+.++.+.....
T Consensus 96 L~~LmLeAlDGF~fvV~cd---G~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~ 153 (803)
T KOG3561|consen 96 LTHLILEALDGFLFVVNCD---GRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPR 153 (803)
T ss_pred HHHHHHHHhcCeEEEEecC---ceEEEEecchHHhhCcCHHHHhcchHHHhcCccccCccc
Confidence 3345778887778899999 999999999999999999999999988888877654433
No 92
>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=92.62 E-value=0.15 Score=35.87 Aligned_cols=42 Identities=29% Similarity=0.521 Sum_probs=33.9
Q ss_pred EEEecCCCCCCCeeEecHHHHHHhCCC---cccccCCCcccccCCCC
Q 021027 254 FVLIDPHLPDMPMVYASDAFLKLTGYD---RNEVVGQNCRFLNGVDT 297 (318)
Q Consensus 254 i~i~d~~~~~~~i~~~N~a~~~~~Gy~---~~el~G~~~~~l~~~~~ 297 (318)
++..|.. +++|+.++.....++|.+ .++++|+++..++.+..
T Consensus 18 LLa~d~~--~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~ 62 (110)
T PF08446_consen 18 LLALDPD--DLRIVQASENIAELLGIPPELPEELLGRPLSELLGAES 62 (110)
T ss_dssp EEEEETT--TTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCC
T ss_pred EEEEECC--CCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHH
Confidence 3445554 369999999999999999 99999999999986544
No 93
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=91.00 E-value=0.36 Score=49.24 Aligned_cols=42 Identities=10% Similarity=-0.047 Sum_probs=35.7
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCccccc
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVV 285 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~ 285 (318)
..++.++++++++|+++|.+| +|+++|+++++++|++.....
T Consensus 576 ~~~~~i~~~~~~~i~~~d~~g---~i~~~N~~~~~~~g~~~~~~~ 617 (1197)
T PRK09959 576 SFRKALSDSLPNPTYVVNWQG---NVISHNSAFEHYFTADYYKNA 617 (1197)
T ss_pred HHHHHHHhhCCCcEEEEcCCC---cEEEehHHHHHHhCccccccc
Confidence 346678999999999999987 999999999999998754433
No 94
>KOG3559 consensus Transcriptional regulator SIM1 [Transcription]
Probab=90.63 E-value=0.54 Score=40.16 Aligned_cols=85 Identities=8% Similarity=0.051 Sum_probs=58.0
Q ss_pred eEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecCCcEEEEE
Q 021027 30 SFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKDGTPFWML 109 (318)
Q Consensus 30 ~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 109 (318)
.+++...+ ..+++......+++||.+.+++++.+...++..+...+.......+..|....--+++..+.|...|+.
T Consensus 227 FmfraslD---lkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll~kGqvtTkYYR~l~k~ggwvwvq 303 (598)
T KOG3559|consen 227 FMFRASLD---LKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLLVKGQVTTKYYRFLLKQGGWVWVQ 303 (598)
T ss_pred EEEEeecc---eEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHHhccccccHHHHHHHcCCceEEEE
Confidence 45566777 899999999999999999999999877666666555554444444444443333334456777777776
Q ss_pred EEEEeecc
Q 021027 110 FKMSLVFG 117 (318)
Q Consensus 110 ~~~~~i~~ 117 (318)
-....+.+
T Consensus 304 syat~vHn 311 (598)
T KOG3559|consen 304 SYATFVHN 311 (598)
T ss_pred EeeEEEec
Confidence 65555443
No 95
>KOG3560 consensus Aryl-hydrocarbon receptor [Transcription]
Probab=89.76 E-value=0.36 Score=42.83 Aligned_cols=63 Identities=14% Similarity=0.187 Sum_probs=54.6
Q ss_pred HHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHH
Q 021027 244 YISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESI 309 (318)
Q Consensus 244 ~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l 309 (318)
...+.+++.-++++..+| .|.|+....+..+|+-..+++-+++.+|+|.++...+.+.+.-++
T Consensus 114 e~lLqsLnGF~lVvt~eg---~ifyAS~tIedYLGFhQSDV~HQsVYdlIHseDR~dfqrQLhwa~ 176 (712)
T KOG3560|consen 114 ELLLQSLNGFALVVTAEG---EIFYASATIEDYLGFHQSDVMHQSVYDLIHSEDRQDFQRQLHWAM 176 (712)
T ss_pred HHHHHhcCCeEEEEecCc---eEEEehhhHHhhhcccccchhhhhHHHHhhhhhHHHHHHHHhhcc
Confidence 345666777778888887 999999999999999999999999999999999999888876554
No 96
>COG3284 AcoR Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]
Probab=88.33 E-value=13 Score=34.43 Aligned_cols=41 Identities=17% Similarity=0.212 Sum_probs=33.5
Q ss_pred cCCcEEEecCCCCCCCeeEecHHHHHHhCCC-cccccCCCccccc
Q 021027 250 IKQSFVLIDPHLPDMPMVYASDAFLKLTGYD-RNEVVGQNCRFLN 293 (318)
Q Consensus 250 ~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~-~~el~G~~~~~l~ 293 (318)
.+.+.+++|.++ +|...|+++..+++.+ ..-++|.....+.
T Consensus 231 ~~~~~lavd~~g---rvl~at~aA~~~La~~~~~~l~g~p~~~~~ 272 (606)
T COG3284 231 QSEALLAVDQDG---RVLGATRAARQLLALTDRQRLIGQPVEDFL 272 (606)
T ss_pred ccceeeeecCcc---hhhhccHHHHHhhccchhhHhhcCCccccc
Confidence 467888999887 9999999999999988 5566777766554
No 97
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3S7O_A 2O9B_A 3S7P_A 1ZTU_A 3S7N_A 3S7Q_A 2O9C_A 2OOL_A 3C2W_G 3NHQ_B ....
Probab=87.77 E-value=0.82 Score=32.09 Aligned_cols=43 Identities=26% Similarity=0.397 Sum_probs=34.4
Q ss_pred eEEEEcCCCCCCcEEEecHhHHHhcCCC---hhhhcCCCCCcccCCCC
Q 021027 30 SFTITDPSISGHPIVFASRGFLKMSGFS---RAEIIGRNGRMFQGPRT 74 (318)
Q Consensus 30 ~i~~~d~~~~~~~i~~~N~~~~~~~G~~---~~e~~g~~~~~l~~~~~ 74 (318)
.++++|.+ +++|+.++.....++|.+ .++++|+++..++.+..
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 34566654 499999999999999999 99999999888876543
No 98
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=87.67 E-value=6.5 Score=39.05 Aligned_cols=42 Identities=7% Similarity=0.025 Sum_probs=34.6
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCCh
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSR 58 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~ 58 (318)
..++.++.+++..|.++++++.. ++.++++|+.+..++|+..
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 45567889999999999999743 3999999999999888743
No 99
>KOG3753 consensus Circadian clock protein period [Signal transduction mechanisms]
Probab=87.08 E-value=1.9 Score=40.85 Aligned_cols=90 Identities=9% Similarity=0.092 Sum_probs=64.1
Q ss_pred CCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCe---EEEEEEEecCCcEEEEEEEEEee
Q 021027 39 SGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPI---EVNLLNYKKDGTPFWMLFKMSLV 115 (318)
Q Consensus 39 ~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~g~~~~~~~~~~~i 115 (318)
++..+..+..++..++||-+.++||+.+..++++.+...+.....+.++.+... .-.+++..++|.++.+......+
T Consensus 339 ptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~q~~G~p~F~~sp~Rf~aqNG~yv~ldTeWSsF 418 (1114)
T KOG3753|consen 339 PTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVLQSGGKPVFSHSPIRFCAQNGSYVRLDTEWSSF 418 (1114)
T ss_pred CcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHHHhCCCCcccccceeeeecCCcEEEEechhhhc
Confidence 347788899999999999999999999888888888887777777777755332 23456677899877665554444
Q ss_pred ccCCCCceeEEEE
Q 021027 116 FGKEDGRATHFVA 128 (318)
Q Consensus 116 ~~~~~g~~~~~i~ 128 (318)
.++...++..+++
T Consensus 419 VNPWSRKieFVvG 431 (1114)
T KOG3753|consen 419 VNPWSRKIEFVVG 431 (1114)
T ss_pred cChhhhheeeeee
Confidence 4423344444444
No 100
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=80.00 E-value=3.8 Score=30.00 Aligned_cols=51 Identities=14% Similarity=0.179 Sum_probs=45.0
Q ss_pred CCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhccccee
Q 021027 263 DMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQACT 316 (318)
Q Consensus 263 ~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~~~ 316 (318)
+.++..+-...++++|+ |+.|+++.++..+.....+...+..++..+.|+.
T Consensus 50 ~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~~~~~p~~ 100 (137)
T PF07310_consen 50 DFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVVERPAPVR 100 (137)
T ss_pred ceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHHcCCceEE
Confidence 56788899999999998 6889999999989988889999999999888763
No 101
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=73.07 E-value=7.7 Score=32.54 Aligned_cols=86 Identities=13% Similarity=0.268 Sum_probs=54.6
Q ss_pred HHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHH--hcCCeEEEEEEE
Q 021027 22 EALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIR--EERPIEVNLLNY 99 (318)
Q Consensus 22 ~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ 99 (318)
.+-+....++++..+. +.+.+|+|.-+..++||+.++.+......+. .....+...+. ......+.....
T Consensus 291 sLreEnlgmlfVYs~k--~qRllFAN~~fk~wtGy~~edFl~~~~dIV~------eGl~qW~~dL~~~s~~E~~grlviK 362 (401)
T PF06785_consen 291 SLREENLGMLFVYSPK--SQRLLFANSQFKTWTGYSSEDFLKDFSDIVQ------EGLAQWETDLQLLSRQERSGRLVIK 362 (401)
T ss_pred hhcccccceEEEecch--hhHHHHhHHHHHHHhccCHHHHHhcchHHHH------hhHHHHHHHHHhhhhhhhhceEEEE
Confidence 3333455567788776 5789999999999999999998754322221 11222332222 233445667778
Q ss_pred ecCCcEEEEEEEEEee
Q 021027 100 KKDGTPFWMLFKMSLV 115 (318)
Q Consensus 100 ~~~g~~~~~~~~~~~i 115 (318)
+++|....+......+
T Consensus 363 TK~~g~ipf~ycL~ii 378 (401)
T PF06785_consen 363 TKNGGNIPFYYCLGII 378 (401)
T ss_pred ecCCCceeeEEEEeec
Confidence 8888877776666555
No 102
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=70.76 E-value=5.6 Score=38.69 Aligned_cols=46 Identities=13% Similarity=0.026 Sum_probs=38.2
Q ss_pred hHHHHHhccCCcEEEec-CCCCCCCeeEecHHHHHHhCCCcccccCCCccccc
Q 021027 242 SLYISLGRIKQSFVLID-PHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLN 293 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d-~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~ 293 (318)
....++..+|.|+++.| .++ .|+++|+.|..++| .+ ++|+++..+.
T Consensus 103 ~~~~~l~~~p~gi~~~~~~~~---~i~W~N~~~~~~~~--~~-~~g~~i~~~~ 149 (838)
T PRK14538 103 IGEEVLNELPIGIVLIDISSK---EIQWLNPYANFILK--NP-EINTPLAQIN 149 (838)
T ss_pred HHHHHHHhCCceEEEEeCCCC---EEEEECHHHHHHhC--cc-ccCCcHHHhc
Confidence 35678889999999999 566 99999999999988 33 8999988753
No 103
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=69.45 E-value=7.4 Score=30.85 Aligned_cols=36 Identities=14% Similarity=0.049 Sum_probs=31.5
Q ss_pred hHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCC
Q 021027 242 SLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD 280 (318)
Q Consensus 242 ~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~ 280 (318)
.+..++...+.++||-+.+| .+++.|.+|.+.+.-+
T Consensus 20 ~~~~~i~~~~~P~CiR~~~g---~fi~~N~~F~~~f~~~ 55 (217)
T PRK13719 20 SLTAFIDDYSYPACIRNESG---KFIFYNTLFLKEFLGQ 55 (217)
T ss_pred HHHHHHHcCCCCeEEECCCC---CeeecchHHHHHHHhc
Confidence 46678888899999999998 9999999999988754
No 104
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=68.60 E-value=12 Score=36.96 Aligned_cols=40 Identities=13% Similarity=0.075 Sum_probs=34.2
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCC
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGF 56 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~ 56 (318)
......+.+++.+|.|++++|.. +++++.+|+++.+++|.
T Consensus 340 ~~~~l~~~Ii~~lp~Gilv~D~~--~~~Ii~~N~aA~~ll~~ 379 (894)
T PRK10618 340 ILRALNEEIVSNLPLGLLVYDFE--SNRTVISNKIADHLLPH 379 (894)
T ss_pred HHHHHHHHHHHhCCceEEEEECC--CCeEEEEhHHHHHHhCc
Confidence 45567889999999999999943 38999999999999875
No 105
>PRK10618 phosphotransfer intermediate protein in two-component regulatory system with RcsBC; Provisional
Probab=68.02 E-value=6.9 Score=38.62 Aligned_cols=40 Identities=8% Similarity=-0.090 Sum_probs=33.6
Q ss_pred cchhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCC
Q 021027 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYD 280 (318)
Q Consensus 239 ~~~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~ 280 (318)
.....+.+++++|+|+++.|... ++|+++|+++++++|+.
T Consensus 341 ~~~l~~~Ii~~lp~Gilv~D~~~--~~Ii~~N~aA~~ll~~~ 380 (894)
T PRK10618 341 LRALNEEIVSNLPLGLLVYDFES--NRTVISNKIADHLLPHL 380 (894)
T ss_pred HHHHHHHHHHhCCceEEEEECCC--CeEEEEhHHHHHHhCcc
Confidence 34457789999999999999553 59999999999999874
No 106
>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=67.09 E-value=24 Score=25.12 Aligned_cols=45 Identities=16% Similarity=0.208 Sum_probs=35.4
Q ss_pred eEEEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEecccccccc
Q 021027 92 IEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSRKHM 139 (318)
Q Consensus 92 ~~~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~k~~ 139 (318)
+...+....++|+ .+..+...+++ ++|.+.|++++-.|+|....+
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 3444555677886 56677888898 899999999999999987765
No 107
>COG5388 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=66.75 E-value=45 Score=25.84 Aligned_cols=107 Identities=17% Similarity=0.220 Sum_probs=69.6
Q ss_pred HHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeEEEEEEEecC
Q 021027 23 ALDELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIEVNLLNYKKD 102 (318)
Q Consensus 23 ~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (318)
+-...++.+++.+...+.-.+..+-...|.+||. |+-|..+..++.+.+.......+..+.+...+.-.........
T Consensus 53 l~slL~d~FiL~~~~~G~~~FRLAGTriC~LfGR---ELr~~~F~sLW~~~~~~~~~r~~~~v~~~~tPvl~~~dg~s~~ 129 (209)
T COG5388 53 LKSLLPDVFILERDGRGKLPFRLAGTRICDLFGR---ELRGRDFLSLWAEADRLELKRAADGVRKRRTPVLVTADGRSHG 129 (209)
T ss_pred HHhhcCceEEEeccCCCCceEEecccchhhhhch---hhcCCchhHhccccchHHHHHHHHHHhhccCceEEecchhhcc
Confidence 3444566554443221122234566677787774 6778888878877777776666666766666666555556667
Q ss_pred CcEEEEEEEEEeeccCCCCceeEEEEEEecc
Q 021027 103 GTPFWMLFKMSLVFGKEDGRATHFVAVQVPI 133 (318)
Q Consensus 103 g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DI 133 (318)
|...-+++-..|+.. ..|+-..++|...-+
T Consensus 130 G~sl~fEmLl~PL~~-~~g~~~R~LGais~~ 159 (209)
T COG5388 130 GRSLGFEMLLAPLQG-ASGETDRFLGAISPI 159 (209)
T ss_pred CcccceeeeeecccC-CCCCccchhhhcccc
Confidence 777888899999987 677755666655443
No 108
>PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional
Probab=62.07 E-value=15 Score=29.22 Aligned_cols=39 Identities=18% Similarity=0.083 Sum_probs=34.1
Q ss_pred hHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCCC
Q 021027 16 YTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGFS 57 (318)
Q Consensus 16 ~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~ 57 (318)
..+.+..+++..+.++++-+.+ |.++++|.+|...|...
T Consensus 17 ~~~~~~~~i~~~~~P~CiR~~~---g~fi~~N~~F~~~f~~~ 55 (217)
T PRK13719 17 LPESLTAFIDDYSYPACIRNES---GKFIFYNTLFLKEFLGQ 55 (217)
T ss_pred hHHHHHHHHHcCCCCeEEECCC---CCeeecchHHHHHHHhc
Confidence 3456778999999999999999 99999999999998754
No 109
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=61.49 E-value=21 Score=32.94 Aligned_cols=39 Identities=13% Similarity=0.122 Sum_probs=34.3
Q ss_pred hhHHHHHHHHhcCCCeEEEEcCCCCCCcEEEecHhHHHhcCC
Q 021027 15 RYTLWVHEALDELPDSFTITDPSISGHPIVFASRGFLKMSGF 56 (318)
Q Consensus 15 ~~~~~~~~~~~~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~ 56 (318)
+.+..+..++.++|.|+++++.+ +.+.|+||-+..+|+-
T Consensus 72 ~~~~~~~~al~nmPiGii~~~e~---~~veW~Npf~~~if~~ 110 (655)
T COG3887 72 QAEKSLEEALTNMPIGIILFNET---NKVEWVNPFASKIFNK 110 (655)
T ss_pred HHHHHHHHHHHhCCceEEEEcCC---CceEEecHHHHHhcCh
Confidence 45566778999999999999988 9999999999998864
No 110
>COG2461 Uncharacterized conserved protein [Function unknown]
Probab=57.22 E-value=22 Score=30.85 Aligned_cols=68 Identities=9% Similarity=0.174 Sum_probs=54.0
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCCcccccCCCCCHHHHHHHHHHHhcccc
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQNCRFLNGVDTDTTVLYQIKESIQTEQA 314 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~~~~l~~~~~~~~~~~~~~~~l~~~~~ 314 (318)
..+..+|...|.-|-.+|.++ ++.|.|+. .++|-+++. ++|+++.. +||.-....+..+.++.+.|+.
T Consensus 290 ~e~naif~~lP~Ditfvdk~d---iV~ffs~~-~rif~rt~s-viGr~v~~-chpPksv~iv~ki~~~fksG~k 357 (409)
T COG2461 290 EELNAIFKHLPVDITFVDKND---IVRFFSGG-ERIFPRTPS-VIGRRVQL-CHPPKSVHIVEKILKDFKSGEK 357 (409)
T ss_pred HHHHHHHhhCCCceEEecccc---eEEecCCc-ceecccChH-hhCCcccC-CCCCchHHHHHHHHHHhhcCCc
Confidence 558889999998888888887 88899998 777776654 67898774 4577778888888888888763
No 111
>COG3887 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]
Probab=56.91 E-value=16 Score=33.67 Aligned_cols=35 Identities=14% Similarity=0.136 Sum_probs=31.1
Q ss_pred hhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhC
Q 021027 241 SSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTG 278 (318)
Q Consensus 241 ~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~G 278 (318)
..+..++.++|.||++.|.++ .+.|+||-...+|+
T Consensus 75 ~~~~~al~nmPiGii~~~e~~---~veW~Npf~~~if~ 109 (655)
T COG3887 75 KSLEEALTNMPIGIILFNETN---KVEWVNPFASKIFN 109 (655)
T ss_pred HHHHHHHHhCCceEEEEcCCC---ceEEecHHHHHhcC
Confidence 447789999999999999776 99999999999887
No 112
>PRK14538 putative bifunctional signaling protein/50S ribosomal protein L9; Provisional
Probab=53.38 E-value=25 Score=34.45 Aligned_cols=45 Identities=20% Similarity=0.072 Sum_probs=36.4
Q ss_pred HHHHHHHhcCCCeEEEEc-CCCCCCcEEEecHhHHHhcCCChhhhcCCCCCc
Q 021027 18 LWVHEALDELPDSFTITD-PSISGHPIVFASRGFLKMSGFSRAEIIGRNGRM 68 (318)
Q Consensus 18 ~~~~~~~~~~~~~i~~~d-~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~ 68 (318)
.-.+.++...|.|++++| .+ +.+.|+|+.|..++|- . ++|++...
T Consensus 102 ~~~~~~l~~~p~gi~~~~~~~---~~i~W~N~~~~~~~~~--~-~~g~~i~~ 147 (838)
T PRK14538 102 QIGEEVLNELPIGIVLIDISS---KEIQWLNPYANFILKN--P-EINTPLAQ 147 (838)
T ss_pred HHHHHHHHhCCceEEEEeCCC---CEEEEECHHHHHHhCc--c-ccCCcHHH
Confidence 444567889999999999 68 9999999999999872 2 78887554
No 113
>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=49.52 E-value=54 Score=21.47 Aligned_cols=33 Identities=15% Similarity=0.135 Sum_probs=25.5
Q ss_pred ecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccc
Q 021027 100 KKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIV 134 (318)
Q Consensus 100 ~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIt 134 (318)
...|.+.-+-+...|+++ .+|.+++.+++. |+|
T Consensus 51 P~~G~Y~G~PViV~PI~~-~~g~viaAiGvV-D~t 83 (84)
T PF09884_consen 51 PIEGPYKGVPVIVAPIKD-EDGEVIAAIGVV-DLT 83 (84)
T ss_pred cCCcccCCeeEEEEEEEc-CCCCEEEEEEEE-Ecc
Confidence 345666667788999999 789999999976 554
No 114
>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=31.58 E-value=2.9e+02 Score=22.55 Aligned_cols=91 Identities=11% Similarity=0.139 Sum_probs=52.2
Q ss_pred hHHHHHHHHh----cCCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCC
Q 021027 16 YTLWVHEALD----ELPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERP 91 (318)
Q Consensus 16 ~~~~~~~~~~----~~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 91 (318)
....|..+-. ..|+--++.+.+ + ++|.++-..++|.+...+ ..+......+..
T Consensus 56 l~~ff~~idq~~p~~~pDfRFi~~~~---~--~~WdDgN~~FYGi~~~~L------------------~~ls~~~~~~~~ 112 (238)
T PF09308_consen 56 LDQFFSSIDQSDPSNAPDFRFISSHD---G--VIWDDGNAPFYGISESSL------------------QHLSQKVAFSNN 112 (238)
T ss_dssp HHHHHHHHHHCCCCCS-SEEEEEETT---C--EEEE-SHHHHCT--HHHH------------------HHHHHHT-STTS
T ss_pred HHHHHhhccccCccCCCCEEEEEeCC---C--cEEeCCCCcccCcCHHHH------------------HHHhhcccccCc
Confidence 4455555543 466666777665 3 567777778888765433 223333334445
Q ss_pred eEEEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEe
Q 021027 92 IEVNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQV 131 (318)
Q Consensus 92 ~~~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~ 131 (318)
|.... .......+++.++-+|+.+..+|++.|++.+..
T Consensus 113 W~~i~--~~s~~g~~~lLvRR~pIi~~~tGEVlG~Ly~gv 150 (238)
T PF09308_consen 113 WHYIQ--TPSSMGNRYLLVRRTPIIDPKTGEVLGYLYIGV 150 (238)
T ss_dssp -EEEE--EEETTCEEEEEEEEEEEE-TTTSBEEEEEEEEE
T ss_pred eeEEE--ecCCCCceEEEEeecceeeCCCCeEEEEEEEEE
Confidence 55433 234566778888999998757899999876554
No 115
>PF06785 UPF0242: Uncharacterised protein family (UPF0242); InterPro: IPR009623 This is a group of proteins of unknown function.
Probab=30.02 E-value=25 Score=29.65 Aligned_cols=36 Identities=17% Similarity=0.375 Sum_probs=27.9
Q ss_pred CCcEEEecCCCCCCCeeEecHHHHHHhCCCcccccCCC
Q 021027 251 KQSFVLIDPHLPDMPMVYASDAFLKLTGYDRNEVVGQN 288 (318)
Q Consensus 251 ~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~~el~G~~ 288 (318)
..++++..+.. .+.+|+|.-+..++||+.++++...
T Consensus 297 lgmlfVYs~k~--qRllFAN~~fk~wtGy~~edFl~~~ 332 (401)
T PF06785_consen 297 LGMLFVYSPKS--QRLLFANSQFKTWTGYSSEDFLKDF 332 (401)
T ss_pred cceEEEecchh--hHHHHhHHHHHHHhccCHHHHHhcc
Confidence 34556655543 5899999999999999999998443
No 116
>COG4191 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]
Probab=28.82 E-value=5e+02 Score=24.47 Aligned_cols=97 Identities=15% Similarity=0.129 Sum_probs=53.7
Q ss_pred hhHHHHHHHHhc-CCCeEEEEcCCCCCCcEEEecHhHHHhcCCChhhhcCCCCCcccCCCCChHHHHHHHHHHHhcCCeE
Q 021027 15 RYTLWVHEALDE-LPDSFTITDPSISGHPIVFASRGFLKMSGFSRAEIIGRNGRMFQGPRTNRRTIMEIREAIREERPIE 93 (318)
Q Consensus 15 ~~~~~~~~~~~~-~~~~i~~~d~~~~~~~i~~~N~~~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ 93 (318)
+.+..++.+-.. -...++++|++ |..+-.+.. + .+.-.+|.++. +...+..+++++....
T Consensus 86 ~~n~~L~~in~~a~ss~iYlid~~---G~~iaASNw-----~-~p~SFVG~nya----------fRpYf~~Am~gg~~r~ 146 (603)
T COG4191 86 AANRYLEQINEAAGSSAIYLIDPT---GLTLAASNW-----N-LPTSFVGRNYA----------FRPYFQDAMAGGSGRF 146 (603)
T ss_pred HHHHHHHHHHhhccCCeEEEECCC---CcEEeeccC-----C-CCCcccccCcc----------cHHHHHHHHhcCCcee
Confidence 344555555443 33468999999 888866541 1 12334444332 3455667777665444
Q ss_pred EEEEEEecCCcEEEEEEEEEeeccCCCCceeEEEEEEeccccc
Q 021027 94 VNLLNYKKDGTPFWMLFKMSLVFGKEDGRATHFVAVQVPIVSR 136 (318)
Q Consensus 94 ~~~~~~~~~g~~~~~~~~~~~i~~~~~g~~~~~i~~~~DIte~ 136 (318)
+.+-. ..|++-+ ....|+.. .+.+.|++++--|+...
T Consensus 147 yalGt--ts~~pGy--y~a~pV~~--~~~ilGvivvKvdl~~l 183 (603)
T COG4191 147 YALGT--TSGRPGY--YLAAPVDD--GGGILGVIVVKVDLDRL 183 (603)
T ss_pred Eeecc--ccCCCce--eEeeeecc--CCceeEEEEEEEehHHH
Confidence 33321 2233222 23577776 56699988877665543
No 117
>PRK10841 hybrid sensory kinase in two-component regulatory system with RcsB and YojN; Provisional
Probab=26.41 E-value=94 Score=31.18 Aligned_cols=41 Identities=0% Similarity=-0.153 Sum_probs=33.2
Q ss_pred cchhHHHHHhccCCcEEEecCCCCCCCeeEecHHHHHHhCCCc
Q 021027 239 ISSSLYISLGRIKQSFVLIDPHLPDMPMVYASDAFLKLTGYDR 281 (318)
Q Consensus 239 ~~~~l~~~~~~~~~~i~i~d~~~~~~~i~~~N~a~~~~~Gy~~ 281 (318)
.+...+.+++++|.++++.+... +.++++|+.+..++|+..
T Consensus 332 ~e~~~r~iv~~~p~gi~i~~~~~--g~~~~~N~~a~~~~~l~~ 372 (924)
T PRK10841 332 HEQFNRKIVASAPVGICILRTSD--GTNILSNELAHNYLNMLT 372 (924)
T ss_pred HHHHHHHHHHhCCccEEEEEcCC--CcEEEehHHHHHHhccCC
Confidence 34557789999999999987542 599999999999998743
Done!