Query psy7682
Match_columns 383
No_of_seqs 301 out of 1080
Neff 6.9
Searched_HMMs 46136
Date Sat Aug 17 00:43:37 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7682.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7682hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3558|consensus 100.0 1.7E-59 3.6E-64 477.8 17.1 289 45-369 42-348 (768)
2 KOG3559|consensus 100.0 1.2E-46 2.6E-51 363.6 10.4 283 54-380 7-303 (598)
3 KOG3561|consensus 100.0 5.3E-44 1.1E-48 377.2 17.0 311 46-376 18-454 (803)
4 KOG3560|consensus 100.0 9.5E-38 2.1E-42 310.7 13.6 276 42-326 19-323 (712)
5 KOG3753|consensus 99.9 1.5E-23 3.2E-28 218.4 12.8 308 35-374 73-408 (1114)
6 PF14598 PAS_11: PAS domain; P 99.7 6.7E-18 1.5E-22 141.5 4.6 82 284-382 2-84 (111)
7 KOG3561|consensus 99.0 3.1E-10 6.8E-15 121.6 4.0 49 1-55 23-71 (803)
8 PF14598 PAS_11: PAS domain; P 98.9 1.1E-09 2.4E-14 91.8 4.9 73 143-236 2-76 (111)
9 PF00010 HLH: Helix-loop-helix 98.9 3.1E-09 6.8E-14 77.7 5.7 53 49-106 2-54 (55)
10 TIGR02040 PpsR-CrtJ transcript 98.8 5.5E-09 1.2E-13 106.8 6.3 150 140-325 3-183 (442)
11 cd00083 HLH Helix-loop-helix d 98.7 1.9E-08 4.2E-13 74.3 6.0 55 47-108 3-57 (60)
12 TIGR02040 PpsR-CrtJ transcript 98.7 3.1E-08 6.8E-13 101.2 6.6 158 134-326 134-303 (442)
13 smart00353 HLH helix loop heli 98.6 8.6E-08 1.9E-12 69.2 5.7 48 54-108 2-49 (53)
14 PF00989 PAS: PAS fold; Inter 98.5 5E-08 1.1E-12 78.9 3.1 61 135-195 3-63 (113)
15 KOG4304|consensus 98.5 7.4E-08 1.6E-12 91.6 4.7 68 42-111 26-93 (250)
16 PRK11359 cyclic-di-GMP phospho 98.5 9.9E-07 2.1E-11 96.1 12.1 167 135-330 15-190 (799)
17 PRK13560 hypothetical protein; 98.3 3E-06 6.5E-11 91.8 9.7 163 136-325 71-253 (807)
18 KOG1318|consensus 98.2 1.3E-06 2.8E-11 87.7 5.3 62 42-109 227-288 (411)
19 PRK13560 hypothetical protein; 98.1 5.5E-06 1.2E-10 89.8 7.4 163 135-324 206-381 (807)
20 PF13426 PAS_9: PAS domain; PD 98.0 6.1E-06 1.3E-10 65.4 4.3 51 146-196 4-54 (104)
21 PRK09776 putative diguanylate 97.9 8.4E-06 1.8E-10 92.0 4.4 151 137-319 287-453 (1092)
22 PF08447 PAS_3: PAS fold; Int 97.9 7.2E-06 1.6E-10 64.4 2.3 60 155-236 1-65 (91)
23 PF08448 PAS_4: PAS fold; Int 97.6 3E-05 6.5E-10 62.1 2.5 58 139-196 1-58 (110)
24 KOG3558|consensus 97.6 8E-06 1.7E-10 85.7 -1.3 53 143-195 274-326 (768)
25 PRK09776 putative diguanylate 97.5 8.8E-05 1.9E-09 83.8 5.5 158 137-327 414-587 (1092)
26 KOG1319|consensus 97.3 0.00026 5.6E-09 63.6 4.0 59 47-108 61-119 (229)
27 TIGR02938 nifL_nitrog nitrogen 97.2 0.00014 3.1E-09 73.6 2.3 160 133-325 4-179 (494)
28 cd00130 PAS PAS domain; PAS mo 97.2 0.00024 5.2E-09 50.9 2.6 52 144-195 3-54 (103)
29 PF08446 PAS_2: PAS fold; Int 97.2 0.00033 7.1E-09 58.6 3.4 56 142-197 14-73 (110)
30 smart00091 PAS PAS domain. PAS 97.0 0.00069 1.5E-08 45.0 3.3 58 137-194 5-62 (67)
31 TIGR00229 sensory_box PAS doma 97.0 0.00065 1.4E-08 51.3 3.5 59 136-194 6-64 (124)
32 PF13426 PAS_9: PAS domain; PD 96.6 0.0022 4.7E-08 50.4 3.3 37 289-327 6-42 (104)
33 PF08447 PAS_3: PAS fold; Int 96.4 0.002 4.4E-08 50.2 2.1 69 296-382 1-73 (91)
34 PF00989 PAS: PAS fold; Inter 96.4 0.0029 6.3E-08 50.6 3.0 42 285-328 12-53 (113)
35 PRK13557 histidine kinase; Pro 96.3 0.0029 6.4E-08 65.2 3.5 62 133-194 30-94 (540)
36 PRK11091 aerobic respiration c 96.2 0.0067 1.4E-07 66.6 5.8 62 133-194 155-216 (779)
37 TIGR02966 phoR_proteo phosphat 96.2 0.0031 6.6E-08 60.4 2.8 58 136-193 9-66 (333)
38 PRK10060 RNase II stability mo 96.1 0.0033 7.1E-08 68.1 2.5 61 134-194 112-173 (663)
39 PF13596 PAS_10: PAS domain; P 95.6 0.014 3E-07 47.5 3.9 58 137-195 3-60 (106)
40 PRK11073 glnL nitrogen regulat 95.1 0.013 2.8E-07 57.4 2.6 53 134-186 8-60 (348)
41 PRK13559 hypothetical protein; 95.1 0.02 4.3E-07 56.5 3.8 60 135-194 45-107 (361)
42 PF13188 PAS_8: PAS domain; PD 95.0 0.015 3.2E-07 42.8 1.9 41 135-179 3-43 (64)
43 KOG3753|consensus 94.9 0.014 3.1E-07 63.3 2.3 50 145-194 333-382 (1114)
44 smart00353 HLH helix loop heli 94.9 0.052 1.1E-06 38.7 4.6 43 5-54 3-45 (53)
45 cd00083 HLH Helix-loop-helix d 94.8 0.048 1E-06 39.8 4.3 46 3-55 9-54 (60)
46 PF00010 HLH: Helix-loop-helix 94.8 0.033 7.1E-07 40.3 3.4 46 3-53 6-51 (55)
47 PRK11006 phoR phosphate regulo 94.5 0.018 3.9E-07 58.5 1.8 56 135-190 100-155 (430)
48 KOG3559|consensus 94.3 0.019 4.2E-07 57.5 1.5 51 142-192 224-274 (598)
49 PRK10820 DNA-binding transcrip 94.0 0.027 5.9E-07 59.4 2.0 58 135-192 82-139 (520)
50 KOG4029|consensus 93.8 0.054 1.2E-06 51.0 3.3 59 47-111 108-166 (228)
51 KOG0561|consensus 93.7 0.079 1.7E-06 51.2 4.3 48 53-108 65-112 (373)
52 KOG1318|consensus 93.7 0.19 4.1E-06 51.1 7.1 84 5-110 240-323 (411)
53 KOG2483|consensus 93.0 0.15 3.2E-06 48.3 4.7 56 48-110 59-114 (232)
54 PRK13558 bacterio-opsin activa 92.9 0.25 5.5E-06 53.2 7.2 59 136-194 151-212 (665)
55 PRK11360 sensory histidine kin 91.9 0.096 2.1E-06 54.3 2.3 52 136-187 265-316 (607)
56 KOG3960|consensus 91.9 0.28 6.1E-06 46.4 5.1 48 54-109 124-171 (284)
57 cd00130 PAS PAS domain; PAS mo 91.7 0.32 7E-06 34.0 4.4 39 286-326 4-42 (103)
58 KOG2588|consensus 91.5 0.15 3.2E-06 56.4 3.2 53 48-109 276-328 (953)
59 PRK11359 cyclic-di-GMP phospho 91.3 0.15 3.2E-06 55.8 3.1 54 137-190 140-194 (799)
60 PLN03217 transcription factor 90.8 0.33 7.2E-06 38.4 3.7 45 60-108 19-63 (93)
61 PF08448 PAS_4: PAS fold; Int 90.4 0.2 4.4E-06 39.5 2.4 38 287-326 8-45 (110)
62 COG3829 RocR Transcriptional r 89.4 0.21 4.6E-06 52.4 2.1 47 136-182 120-166 (560)
63 PF12860 PAS_7: PAS fold 89.0 0.13 2.9E-06 42.2 0.3 42 141-182 3-45 (115)
64 COG2202 AtoS FOG: PAS/PAC doma 85.7 0.72 1.6E-05 37.7 2.9 52 136-187 115-166 (232)
65 PRK15053 dpiB sensor histidine 85.7 0.59 1.3E-05 48.8 2.9 51 136-186 225-277 (545)
66 PRK11388 DNA-binding transcrip 84.9 0.41 8.8E-06 51.8 1.3 46 138-183 208-253 (638)
67 PRK11086 sensory histidine kin 84.7 0.91 2E-05 47.0 3.7 56 136-191 224-282 (542)
68 PRK13557 histidine kinase; Pro 84.3 0.77 1.7E-05 47.3 3.0 33 291-325 50-82 (540)
69 TIGR02938 nifL_nitrog nitrogen 83.6 0.46 1E-05 48.0 0.9 58 136-193 133-190 (494)
70 TIGR00229 sensory_box PAS doma 83.4 2.2 4.8E-05 31.3 4.5 37 287-325 16-52 (124)
71 PRK10060 RNase II stability mo 82.9 0.79 1.7E-05 49.8 2.4 43 286-330 123-165 (663)
72 KOG3560|consensus 80.8 0.98 2.1E-05 47.2 2.1 51 283-336 120-170 (712)
73 COG4251 Bacteriophytochrome (l 78.4 0.75 1.6E-05 49.1 0.4 57 142-198 28-85 (750)
74 smart00091 PAS PAS domain. PAS 77.4 1.9 4E-05 27.5 2.0 38 286-325 13-50 (67)
75 TIGR02373 photo_yellow photoac 77.3 1.9 4.2E-05 36.8 2.5 51 146-196 29-80 (124)
76 KOG4304|consensus 75.6 3.4 7.3E-05 39.6 3.9 51 2-54 36-86 (250)
77 PRK13558 bacterio-opsin activa 74.5 3.5 7.7E-05 44.4 4.3 34 291-326 168-201 (665)
78 COG5002 VicK Signal transducti 73.3 2.7 5.8E-05 42.2 2.6 63 134-197 113-175 (459)
79 PRK13559 hypothetical protein; 71.2 4.2 9E-05 39.9 3.6 32 292-325 64-95 (361)
80 COG3290 CitA Signal transducti 66.5 6.2 0.00013 41.7 3.7 63 135-197 217-282 (537)
81 COG3852 NtrB Signal transducti 65.3 2.9 6.4E-05 41.2 1.0 54 133-186 7-60 (363)
82 TIGR02966 phoR_proteo phosphat 60.7 3 6.5E-05 39.6 0.2 38 286-325 18-55 (333)
83 PRK11091 aerobic respiration c 60.6 5.5 0.00012 43.8 2.3 37 287-325 168-204 (779)
84 PRK11073 glnL nitrogen regulat 51.0 4.6 9.9E-05 39.3 -0.3 40 286-327 19-58 (348)
85 COG3283 TyrR Transcriptional r 50.9 14 0.0003 37.5 3.0 57 136-192 83-139 (511)
86 PF08269 Cache_2: Cache domain 46.9 1E+02 0.0022 24.2 7.1 34 143-185 56-89 (95)
87 PF08446 PAS_2: PAS fold; Int 45.5 5.5 0.00012 33.0 -0.6 32 292-325 24-58 (110)
88 PRK11006 phoR phosphate regulo 41.5 6.6 0.00014 39.8 -0.9 38 287-326 111-148 (430)
89 KOG4447|consensus 40.7 20 0.00043 31.7 2.1 68 36-111 62-133 (173)
90 COG5000 NtrY Signal transducti 37.1 25 0.00053 38.0 2.5 38 145-182 382-419 (712)
91 TIGR02373 photo_yellow photoac 35.6 28 0.0006 29.8 2.1 34 287-322 29-62 (124)
92 KOG1229|consensus 35.0 10 0.00022 39.2 -0.8 43 140-182 164-206 (775)
93 PRK09959 hybrid sensory histid 28.9 44 0.00095 38.7 3.0 40 133-172 576-615 (1197)
94 PF13596 PAS_10: PAS domain; P 27.5 55 0.0012 25.9 2.6 36 287-325 12-47 (106)
95 COG2202 AtoS FOG: PAS/PAC doma 24.6 52 0.0011 26.3 2.0 44 285-330 123-166 (232)
96 PF09756 DDRGK: DDRGK domain; 24.3 59 0.0013 29.9 2.4 87 63-161 71-159 (188)
97 KOG3910|consensus 23.9 78 0.0017 33.3 3.4 46 57-108 535-580 (632)
98 PRK10820 DNA-binding transcrip 23.3 21 0.00046 37.7 -0.8 39 286-326 92-130 (520)
99 PRK11360 sensory histidine kin 22.9 34 0.00074 35.3 0.6 40 285-326 273-312 (607)
100 PF13983 YsaB: YsaB-like lipop 22.3 79 0.0017 24.2 2.3 18 142-159 58-75 (77)
101 KOG3054|consensus 22.0 2.3E+02 0.0049 27.3 5.8 56 94-160 200-259 (299)
102 KOG3898|consensus 20.5 69 0.0015 30.8 2.1 47 56-109 80-126 (254)
No 1
>KOG3558|consensus
Probab=100.00 E-value=1.7e-59 Score=477.83 Aligned_cols=289 Identities=19% Similarity=0.233 Sum_probs=221.4
Q ss_pred hhhhhhhhhhHH-HHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccCCCcccccCccCC
Q psy7682 45 ILQETVNQCLNE-KRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQETSSDAVQQGEVSS 123 (383)
Q Consensus 45 ~~~~~~~~~~~e-k~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~~~~~~~~~~~~~ 123 (383)
+...+++++|.+ |.||.|||.+|+|||.+||+ +. ++..+|||++|||+||+|||.++..+....+ +.+
T Consensus 42 ~~~~rkEkSRdAARsRRsKEn~~FyeLa~~lPl---p~---aisshLDkaSimRLtISyLRlrk~a~~g~~p----~~e- 110 (768)
T KOG3558|consen 42 LQELRKEKSRDAARSRRSKENEEFYELAKLLPL---PA---AISSHLDKASIMRLTISYLRLRKFAGAGDPP----RAE- 110 (768)
T ss_pred HHHHHhhhhhhhhhhhcccchHHHHHHHHhCCC---cc---hhhhhhhhHHHHHHHHHHHHHHHHhhcCCcc----ccc-
Confidence 444467888885 55999999999999999999 65 4568999999999999999987776553221 111
Q ss_pred CCCCcCCccchhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCC
Q psy7682 124 SKPTVITNEVLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNA 203 (383)
Q Consensus 124 ~~P~~~~~~~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~ 203 (383)
.+.......++.+||++||||++||+.||+|+|+||+|..|||++|.||+|.|||||+||+||+++.++|......+..
T Consensus 111 -~~~~~~e~~l~~~iLqsLDGFVm~l~~dG~~lYiSEtVS~yLGLSQvELTG~SvFDfiHP~DheE~~eqL~l~~~~p~~ 189 (768)
T KOG3558|consen 111 -GEPENLEQHLGDHILQSLDGFVMALTQDGDFLYISETVSIYLGLSQVELTGSSVFDFIHPCDHEEIAEQLGLRLTTPEV 189 (768)
T ss_pred -CCCcchhhhhhhhHHhhccceEEEEccCCCEEEEechhHhhhCccceeeecchhhhccCccCHHHHHHHhccccCCCcc
Confidence 1111113357899999999999999999999999999999999999999999999999999999999999877521111
Q ss_pred CCCCCCCCCCCCCCCCCCCCceeEEEEEEEcCC--------------eeeeee-ecCCCCCC-CCCCCCCCCCCCceEEE
Q psy7682 204 WTSDSGGQAGKRPSLTASTPNRTFNIRLLISST--------------HLTAGL-SRAGGENG-QDDSGDVSSEGGPCLMC 267 (383)
Q Consensus 204 ~~s~s~~~~g~~~~~~~~~~~rsF~cRmk~~~~--------------~i~~~~-~~~~~~~g-~d~~~~~~~~~~~~LVa 267 (383)
. .. .....+|+||+|||+..+ +++|+. .+.....+ ...-. ....+..|||+
T Consensus 190 ~-------es-----~~~~teRsFflRMKsTLT~RGRtlnlKSa~yKvlh~tgh~rv~~~~sh~s~~~-g~~~Pl~~lV~ 256 (768)
T KOG3558|consen 190 K-------ES-----TDTSTERSFFLRMKSTLTKRGRTLNLKSAGYKVLHCTGHLRVYNNPSHNSPLC-GYKEPLLGLVA 256 (768)
T ss_pred c-------cc-----ccCccceeEEEEeeeeeccCCceeeeeccceeEEEEeeeeeeccCCCCCCccc-Cccccchheee
Confidence 0 01 134568999999998432 234432 12111000 00000 01133789999
Q ss_pred EEeecCCCCc-ccCCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCCCCchhHHHHHHHHHHhhh
Q psy7682 268 VARRIPPTDK-QLSAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCPNSPLTSTKLLLKALLLSI 346 (383)
Q Consensus 268 v~r~ip~~~~-~i~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~~~~~~~~~~~~~~~~~~~ 346 (383)
+|.++|++.. ++.-.+.+|+|||++||||+|||+|+ +.++||.|+||+|+|+|+|| |. +|.++ +.++.
T Consensus 257 ~a~alp~ps~~EipL~~~~FvtRhs~DmkityCedRi--sdlm~y~PeeLvGrS~Ye~~---Ha-~Ds~~-----v~KSh 325 (768)
T KOG3558|consen 257 LAEALPPPSYTEIPLDCHMFVTRHSLDMKITYCEDRI--SDLMDYEPEELVGRSCYEFV---HA-LDSDR-----VRKSH 325 (768)
T ss_pred eeccCCCCcccccccCCceeEEeeecceeEEEEchhH--HHHhcCCHHHhhchhHHHhh---hH-hhhhH-----HHHHH
Confidence 9999999875 34444579999999999999999999 99999999999999999998 34 55544 35566
Q ss_pred hcccceeecccceecccCCcccc
Q psy7682 347 CTDYALVQTDTCMYRSSPSCFGL 369 (383)
Q Consensus 347 ~~~~~~~q~~t~~yR~~~~~~~~ 369 (383)
.+|+.|||+.|+|||+++++||+
T Consensus 326 ~dL~~KGQv~TgyYR~lak~GGy 348 (768)
T KOG3558|consen 326 HDLLTKGQVVTGYYRLLAKNGGY 348 (768)
T ss_pred HHHHhcCccchhHHHHHHhcCCe
Confidence 78999999999999999999986
No 2
>KOG3559|consensus
Probab=100.00 E-value=1.2e-46 Score=363.63 Aligned_cols=283 Identities=24% Similarity=0.303 Sum_probs=217.5
Q ss_pred hHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccCCCcccccCccCCCCCCcCCccc
Q psy7682 54 LNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQETSSDAVQQGEVSSSKPTVITNEV 133 (383)
Q Consensus 54 ~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~~~~~~~~~~~~~~~P~~~~~~~ 133 (383)
+++|.||++||.+|.||+.+||+ +. ++.+++||++|+|+|.+|||+...+.... ...+|..++..|-.-.+.+
T Consensus 7 naA~tRRekEN~EF~eLAklLPL---a~---AItsQlDKasiiRLtTsYlKmr~vFPeGL-Geawg~~S~a~~~~g~~~e 79 (598)
T KOG3559|consen 7 NAARTRREKENYEFYELAKLLPL---AS---AITSQLDKASIIRLTTSYLKMRNVFPEGL-GEAWGASSRADPLDGVDKE 79 (598)
T ss_pred hHHHHHHHhhcchHHHHHhhccc---hh---hhhhccchhhhhhHHHHHHHHHHhccccc-chhccCCCccccccchHHH
Confidence 45788999999999999999999 43 45689999999999999999877664311 1112222334444445678
Q ss_pred hhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCC
Q psy7682 134 LGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAG 213 (383)
Q Consensus 134 ~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g 213 (383)
|+..+|+.+||||+||+.||+|+|+||+++-+||.+|.||.|.++||||||.|++++...|+...+
T Consensus 80 lgshlLqtLDGF~fvva~dGkimYISETaSvhLGLSQVElTGNsi~eYIH~~D~demna~L~~h~H-------------- 145 (598)
T KOG3559|consen 80 LGSHLLQTLDGFIFVVAPDGKIMYISETASVHLGLSQVELTGNSIYEYIHPQDHDEMNAVLTAHQH-------------- 145 (598)
T ss_pred HHHhHHHhhcceEEEEeCCCCEEEEecceeeeecceeeEeecchhhhhhcccchHHHHHHHhhhhh--------------
Confidence 999999999999999999999999999999999999999999999999999999999999986542
Q ss_pred CCCCCCCCCCceeEEEEEEEcC----C--------eeee-eeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc-cc
Q psy7682 214 KRPSLTASTPNRTFNIRLLISS----T--------HLTA-GLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK-QL 279 (383)
Q Consensus 214 ~~~~~~~~~~~rsF~cRmk~~~----~--------~i~~-~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~-~i 279 (383)
.....-+|+||.||+|-. . .++| +|.+.... ..+.++..+......|||+|.++|.+.. +|
T Consensus 146 ----~qeyeIErsfflrmkCvlakrnaglt~sg~kvihcSgylKir~y-~~~m~p~dscyqn~glvAvG~slP~saitei 220 (598)
T KOG3559|consen 146 ----LQEYEIERSFFLRMKCVLAKRNAGLTCSGYKVIHCSGYLKIRQY-ELDMSPNDSCYQNVGLVAVGHSLPPSAITEI 220 (598)
T ss_pred ----hhhhhhhhhhhhhhhhhheeccccccccCcceEeecCcceEEEE-eeccCCccchhheeeeEEecCCCCcccceEE
Confidence 012456899999999832 1 3555 23321110 0111111223567889999999988764 45
Q ss_pred CCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCCCCchhHHHHHHHHHHhhhhcccceeecccce
Q psy7682 280 SAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCPNSPLTSTKLLLKALLLSICTDYALVQTDTCM 359 (383)
Q Consensus 280 ~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~t~~ 359 (383)
..+.++|+.|-++|++++|.|.|+ .+++||.|+||+|+++|+++ |. -|..++.-. | ..++.|||+.|.+
T Consensus 221 kl~sNmFmfraslDlkliF~D~rv--~qltgYepqdliektLY~~i---h~-~D~~~lr~~---H--~~ll~kGqvtTkY 289 (598)
T KOG3559|consen 221 KLHSNMFMFRASLDLKLIFLDSRV--HQLTGYEPQDLIEKTLYHHI---HG-CDSFHLRCA---H--HLLLVKGQVTTKY 289 (598)
T ss_pred EeccceEEEEeecceEEEeehhhH--HHhhCCCchhhhhHHHHHHh---hh-hhHHHHHHH---H--HHHHhccccccHH
Confidence 556699999999999999999999 89999999999999987665 44 455443211 1 1467899999999
Q ss_pred ecccCCccccccCCcceEEEE
Q psy7682 360 YRSSPSCFGLQGASRTSLWQR 380 (383)
Q Consensus 360 yR~~~~~~~~~~~~~~~~~~~ 380 (383)
|||+.+.+| |+||.
T Consensus 290 YR~l~k~gg-------wvwvq 303 (598)
T KOG3559|consen 290 YRFLLKQGG-------WVWVQ 303 (598)
T ss_pred HHHHHcCCc-------eEEEE
Confidence 999988765 88874
No 3
>KOG3561|consensus
Probab=100.00 E-value=5.3e-44 Score=377.19 Aligned_cols=311 Identities=26% Similarity=0.392 Sum_probs=219.6
Q ss_pred hhhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccCCCcccccCccCCCC
Q psy7682 46 LQETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQETSSDAVQQGEVSSSK 125 (383)
Q Consensus 46 ~~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~~~~~~~~~~~~~~~ 125 (383)
..++++|+++|||||||+|.+|+||++|||.+ +++.+|+||++|||+||.+||.++.++..... ...+|+
T Consensus 18 r~~Re~~~~~EKrRRdq~N~yI~ELs~Mvp~~------~~~~RK~DK~tVLr~aV~~lr~~k~~~~~~~~----~~~d~K 87 (803)
T KOG3561|consen 18 RKKRENRSEIEKRRRDQMNKYIEELSEMVPTN------ASLSRKPDKLTVLRMAVDHLRLIKEQESENSS----IDQDYK 87 (803)
T ss_pred hhccccchhHHHHHHHHHHHHHHHHHHhhhcc------hhcccCchHHHHHHHHHHHHHHHhhhhccccc----cccccc
Confidence 34488999999999999999999999999993 35779999999999999999999987521111 125799
Q ss_pred CCcCCccchhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCC-----
Q psy7682 126 PTVITNEVLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQ----- 200 (383)
Q Consensus 126 P~~~~~~~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~----- 200 (383)
|+++++++++++||||+|||+|||++||+|+|||+||+.+|||.|+||+|+|||+|+||.|.+.++.++.+....
T Consensus 88 pSflS~~eL~~LmLeAlDGF~fvV~cdG~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~ql~~r~~e~~f~~ 167 (803)
T KOG3561|consen 88 PSFLSNDELTHLILEALDGFLFVVNCDGRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPREQLSPRSNEHTFNC 167 (803)
T ss_pred ccccchHHHHHHHHHHhcCeEEEEecCceEEEEecchHHhhCcCHHHHhcchHHHhcCccccCcccccccccccccccch
Confidence 999999999999999999999999999999999999999999999999999999999999999999999854311
Q ss_pred -CCCCCCCC----------------------------------CCCCCCC--------------------CCCCCCCCce
Q psy7682 201 -VNAWTSDS----------------------------------GGQAGKR--------------------PSLTASTPNR 225 (383)
Q Consensus 201 -~~~~~s~s----------------------------------~~~~g~~--------------------~~~~~~~~~r 225 (383)
.+..+.+. ....+.+ ......+.+|
T Consensus 168 r~l~~~~~~~~~E~~~~~~~~~~~~~~~~~s~e~~~~~i~~~~~~~~~~~~~~~~~r~~~p~~~~~~~~id~~~~~~aRr 247 (803)
T KOG3561|consen 168 RLLDGKTGPPPEEAVKFYGNFQCFTNSQPKSIEGFQSTICRQRRKAEGDRVCFGVSRLTTPQLIGEMCIIDTRLCEGARR 247 (803)
T ss_pred hhhccCCCCchHHhhhhhhhcccccccCccccccccccceeeccccccCccccccccccchhhccceecccccccccccc
Confidence 11111111 0000110 0011233489
Q ss_pred eEEEEEEEcCC--------------------------------eeeee-eec-CC-C-----------CCCCCCC---CC
Q psy7682 226 TFNIRLLISST--------------------------------HLTAG-LSR-AG-G-----------ENGQDDS---GD 256 (383)
Q Consensus 226 sF~cRmk~~~~--------------------------------~i~~~-~~~-~~-~-----------~~g~d~~---~~ 256 (383)
+|+|||++... .++|+ |.. +. + -.....| ..
T Consensus 248 sfe~r~r~~~~r~~p~~gy~~~~~~g~~~~~~~~~~~~~~~y~~~h~~g~~~s~~~~c~~~~~t~~~q~~~~~~d~~i~~ 327 (803)
T KOG3561|consen 248 SFECRMRFCDHRAPPIIGYEPFEVLGTSRNYDYYHKDDLPNYRVIHCTGYIKSAGPSCKYRFLTKGQQWIWLPQDDYISY 327 (803)
T ss_pred chhhhhhhccccCCccccccceeeccccccccccccCcccceEEEeeeeeEeccCCcceeccccccccccccCccccccc
Confidence 99999997421 12332 211 11 0 0001111 11
Q ss_pred CCCCCCceEEEEEeecCCCC-------cc--c--------CCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCC
Q psy7682 257 VSSEGGPCLMCVARRIPPTD-------KQ--L--------SAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACK 319 (383)
Q Consensus 257 ~~~~~~~~LVav~r~ip~~~-------~~--i--------~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~ 319 (383)
....+..|+|++++...... .+ + ......|.+||..||+|++||.++ ..++||.+.++.|+
T Consensus 328 ~~~~s~p~~v~~~~~~vs~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~sr~~~~g~~~~~dqr~--~~i~~~~~~~~~g~ 405 (803)
T KOG3561|consen 328 HQWNSKPCLVAIGRLVVSYAEVRVPSRADMSIEGPRQQPSSPQSSEFISRSSSDGSFTFVDQRA--SAILGYQPQELLGR 405 (803)
T ss_pred cccCCCcceeEecccccchhhccCcccccCccccccccccCcccchhhcccCcCCceecccccc--ccccccCchhhcCc
Confidence 23345669999988765332 11 1 112378999999999999999998 89999999999999
Q ss_pred CccceecCCCCchhHHHHHHHHHHhhhhcccceeecccceecccCCccccccCCcce
Q psy7682 320 TSATVWTCPNSPLTSTKLLLKALLLSICTDYALVQTDTCMYRSSPSCFGLQGASRTS 376 (383)
Q Consensus 320 S~yd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~t~~yR~~~~~~~~~~~~~~~ 376 (383)
|.|.|. |++++....-.+ +.+. ....|..+..||+..+++.+.-.-.+|
T Consensus 406 ss~~s~-h~~d~~~~~~s~-~~~~------~~s~~~~~~~yr~~~~n~~~~~~~~~~ 454 (803)
T KOG3561|consen 406 SSYESS-HPADSSPLSESL-KQVQ------ALSEQRSTLLYRFRSKNGSSIPNKSSA 454 (803)
T ss_pred cccccc-CccccchhhchH-HHHH------HhcccccccccccccCCCCcccccccc
Confidence 999998 444423321111 1111 124567788888888887665444433
No 4
>KOG3560|consensus
Probab=100.00 E-value=9.5e-38 Score=310.69 Aligned_cols=276 Identities=21% Similarity=0.286 Sum_probs=195.5
Q ss_pred hhhhhhhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccCC--CcccccC
Q psy7682 42 KCAILQETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQETS--SDAVQQG 119 (383)
Q Consensus 42 ~~~~~~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~~--~~~~~~~ 119 (383)
|-+-+-+.+.+++.+||.||++|.+++-||+|||. +.+| .+||||+||||++|+|||....++.. .+..+.+
T Consensus 19 k~rpp~~a~tkSNPSKRHRdRLNaELD~lAsLLPf---pqdi---isKLDkLSVLRLSVSyLr~KSfFqvvl~~s~~~~~ 92 (712)
T KOG3560|consen 19 KQRPPPKALTKSNPSKRHRDRLNAELDHLASLLPF---PQDI---ISKLDKLSVLRLSVSYLRVKSFFQVVLHQSSRQPA 92 (712)
T ss_pred ccCCCccccccCCcchhHHHHhhhHHHHHHHhcCC---CHHH---HhhhhhhhhhhhhHHHHHHHHHHHHHHhcCccccC
Confidence 33444444789999999999999999999999999 5544 58999999999999999986665431 0111111
Q ss_pred cc-C---CCCCCc-CCccchhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 120 EV-S---SSKPTV-ITNEVLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 120 ~~-~---~~~P~~-~~~~~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
.. . +..|-- -..-..++++|++++||++||+++|.|.|+|.+|.+|||+.|.|++.+|+||+||.+|+++|.++|
T Consensus 93 gg~~s~~a~~~yr~gl~llege~lLqsLnGF~lVvt~eg~ifyAS~tIedYLGFhQSDV~HQsVYdlIHseDR~dfqrQL 172 (712)
T KOG3560|consen 93 GGPPSPHASCPYRNGLALLEGELLLQSLNGFALVVTAEGEIFYASATIEDYLGFHQSDVMHQSVYDLIHSEDRQDFQRQL 172 (712)
T ss_pred CCCCCccccchhhccccccchHHHHHhcCCeEEEEecCceEEEehhhHHhhhcccccchhhhhHHHHhhhhhHHHHHHHH
Confidence 10 0 001000 001234789999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCC-----CCCCCCCCC-------C-CCCCCCCCCCceeEEEEEEEcCCeeeeeeecC-----CC-CCCCCC--
Q psy7682 195 VPSSHQVNA-----WTSDSGGQA-------G-KRPSLTASTPNRTFNIRLLISSTHLTAGLSRA-----GG-ENGQDD-- 253 (383)
Q Consensus 195 ~~~~~~~~~-----~~s~s~~~~-------g-~~~~~~~~~~~rsF~cRmk~~~~~i~~~~~~~-----~~-~~g~d~-- 253 (383)
......+-. .+-+.++.. | ..++..+.-.+|+|+||+||-... +|+++.. .+ ..|+..
T Consensus 173 hwa~~ppq~~~s~q~~~e~~~~~~~~~~~~~d~~ppens~yleRcficR~RCLLDn-TsGFLamdfqGklk~LhGqkkk~ 251 (712)
T KOG3560|consen 173 HWAMDPPQVVFSQQPPLETGDDAILRAQEWGDGTPPENSAYLERCFICRFRCLLDN-TSGFLAMDFQGKLKFLHGQKKKA 251 (712)
T ss_pred hhccCCchhhccCCCccccccccceeeeccCccCCcccchHHhhhheeeEEEeecC-CcceeeeecccceeeecCCcccC
Confidence 755321100 000000000 0 112223455789999999994321 1222110 00 011100
Q ss_pred CCCCCCCCCceEEEEEeecCCCC-cccCCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 254 SGDVSSEGGPCLMCVARRIPPTD-KQLSAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 254 ~~~~~~~~~~~LVav~r~ip~~~-~~i~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
......++.+.|+|+|.|+-.++ .+|......|.|||.+|+..+.+|+++ ..+|||.-.||.|.+.|+|+|
T Consensus 252 ~~g~~lpP~LaLf~iatP~~pPS~lEi~~k~~i~rtKhklDfa~vs~Dak~--k~~lgy~eaEL~~m~gY~lvH 323 (712)
T KOG3560|consen 252 PSGAMLPPRLALFCIATPFLPPSALEIKMKSAILRTKHKLDFALVSMDAKV--KATLGYCEAELHGMPGYNLVH 323 (712)
T ss_pred CCCccCCCceeEEEEecCCCCchhhhhhhhhhhhhcccccccceeccchhh--hhhhccchhhccCCCccceee
Confidence 01123477899999999995554 366666789999999999999999999 899999999999999999984
No 5
>KOG3753|consensus
Probab=99.90 E-value=1.5e-23 Score=218.41 Aligned_cols=308 Identities=15% Similarity=0.178 Sum_probs=193.6
Q ss_pred cccCCCchhhhhhhhhhhh------hHHHH-HHHhhhH---hHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHH
Q psy7682 35 SLAVKPDKCAILQETVNQC------LNEKR-RREQENN---YIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIR 104 (383)
Q Consensus 35 ~~~~k~~~~~~~~~~~~~~------~~ek~-RR~~~n~---~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr 104 (383)
+++.+||.-...+...+|+ ..|.. |-+-..+ .+.||+.-||. .. ..+.++.-+.+|..+....+
T Consensus 73 ~~~qsP~~~~l~~~~sehsP~ts~~~seq~~~~~t~~El~~~~~e~K~~~p~---~~---~~kg~~stl~~l~yal~cv~ 146 (1114)
T KOG3753|consen 73 SARQSPDTFSLQMAKSEHSPSTSGCSSEQSDRVRTHKELIKVLKELKVHLPA---ER---RAKGKASTLATLKYALRCVK 146 (1114)
T ss_pred ccccCchHHHHHhhhccCCccccccchhhhhhcchHHHHHHHHHHHHhhccc---cc---cCCCCchhhhhhHHHhhhhh
Confidence 3457777555566666665 22222 2222222 56778888888 22 23467888888888877755
Q ss_pred hhhhccCCCcccccCccCCCCCCcCC-----cc----chhhHHHHhhcCcEEEEcC-CccEEEeecccccccCccccccc
Q psy7682 105 NIKQQETSSDAVQQGEVSSSKPTVIT-----NE----VLGPLLLEALEGFLFVVNP-DGYVNFCTENIKSFIRYSRQEVL 174 (383)
Q Consensus 105 ~~~~~~~~~~~~~~~~~~~~~P~~~~-----~~----~~~~lll~aldgfi~vvs~-dG~i~yvS~sv~~~LGy~~~el~ 174 (383)
+.. ...+..+.-...+-.|.... -+ -.++...++.|.|+++|+. ||+|+|+|+.++.+|||..+.|.
T Consensus 147 qv~---anse~~q~~~~~eg~Pcg~d~s~ytveE~~a~tSe~~~kn~DsF~~~vS~~dG~iLyis~q~a~ilg~krDv~s 223 (1114)
T KOG3753|consen 147 QVQ---ANSEYYQLLSSSEGHPCGADVSMYTVEELEAITSEHTVKNADSFVVAVSFLDGRILYISEQAALILGCKRDVLS 223 (1114)
T ss_pred hcc---cchHHHhhhhcccCCCCCCCccchhHHHhhhccCCCccccccceEEEEeccCCcEEEeechhhhhccCchhhhc
Confidence 422 21122222111222332111 11 1355667788999999998 99999999999999999999999
Q ss_pred CCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCCCCCCceeEEEEEEEcCCeee-eeeecCC-----CC
Q psy7682 175 GKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAGKRPSLTASTPNRTFNIRLLISSTHLT-AGLSRAG-----GE 248 (383)
Q Consensus 175 G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g~~~~~~~~~~~rsF~cRmk~~~~~i~-~~~~~~~-----~~ 248 (383)
|..|.||+||.|...|...+.... +..|...++.+++. ......++||||+.....+.. -.|.++. ..
T Consensus 224 ~a~FvdflapqD~~vF~sfta~~~--lp~ws~~s~~ds~~----~~c~~~ks~fcRisgr~~~~~~~~y~PFRl~pyl~e 297 (1114)
T KOG3753|consen 224 SAKFVDFLAPQDVGVFYSFTARYK--LPLWSMGSSADSFT----QECAEEKSFFCRISGRKDRENEIRYHPFRLTPYLVE 297 (1114)
T ss_pred cchhhhhcchhhhhhhhhcccccc--Cccccccccccchh----hhhhhhcceeeeeecccCCcCccccCcccccceeEE
Confidence 999999999999999999998764 44565443222221 134567999999987544221 1121110 00
Q ss_pred CCCCCCCCCCCCCCceEEEEEeecCCCCc--ccCCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 249 NGQDDSGDVSSEGGPCLMCVARRIPPTDK--QLSAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 249 ~g~d~~~~~~~~~~~~LVav~r~ip~~~~--~i~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
+. + ....+.+.|+..++..|...+. .|..+..+|+|||+.+|.|.+||.++ .++|||+|+||||+|+.+|||
T Consensus 298 v~-~---~~~~~s~~ccLllaerihSgYeAPrIps~KriFtT~HTptClf~hVDeaA--Vp~LGyLPqDLIG~sil~f~H 371 (1114)
T KOG3753|consen 298 VR-D---QQGAESQPCCLLLAERIHSGYEAPRIPSNKRIFTTTHTPTCLFQHVDEAA--VPLLGYLPQDLIGTSILAFVH 371 (1114)
T ss_pred ec-c---ccccCcCcceeehhhhhhcccccCcCCcccceeEeccCCcceeeecchhh--hhhhccCchhhhccchhhhhc
Confidence 10 0 0012334444444444654443 46666689999999999999999998 799999999999999999996
Q ss_pred CCCCchhHHHHHHHHHHhhhhcccceeecccceecccCCccccccCCc
Q psy7682 327 CPNSPLTSTKLLLKALLLSICTDYALVQTDTCMYRSSPSCFGLQGASR 374 (383)
Q Consensus 327 ~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~t~~yR~~~~~~~~~~~~~ 374 (383)
++|-++-.. +.. ++..+++.-. |-..++||-.|||+.
T Consensus 372 ~eDr~vm~q------~H~---~v~q~~G~p~--F~~sp~Rf~aqNG~y 408 (1114)
T KOG3753|consen 372 PEDRHVMVQ------IHQ---KVLQSGGKPV--FSHSPIRFCAQNGSY 408 (1114)
T ss_pred CCchHHHHH------HHH---HHHHhCCCCc--ccccceeeeecCCcE
Confidence 655433221 111 2222332221 667778888888874
No 6
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=99.71 E-value=6.7e-18 Score=141.55 Aligned_cols=82 Identities=18% Similarity=0.235 Sum_probs=62.9
Q ss_pred ceeEEEeCCCCcEEEEcCC-CCccccCCcccccccCCCccceecCCCCchhHHHHHHHHHHhhhhcccceeecccceecc
Q psy7682 284 EQFTMKLDRSGTIIGMDTS-GVSQTHTQYLNKAVACKTSATVWTCPNSPLTSTKLLLKALLLSICTDYALVQTDTCMYRS 362 (383)
Q Consensus 284 ~~F~tRHsldgkf~~vD~r-~l~~~ilGY~p~eLiG~S~yd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~t~~yR~ 362 (383)
++|+|||++||||+|||++ + ..+|||+|+||+|+|+|+|+ ||+| +. .. +......++.+||+.++.|||
T Consensus 2 ~~F~trhs~dgki~~~d~~~v--~~~lgy~~~eLvG~s~y~~~-H~~D-~~--~~----~~~~~~~~~~~g~~~~~~yR~ 71 (111)
T PF14598_consen 2 EEFTTRHSLDGKITYVDSRAV--SSLLGYLPEELVGRSIYDFV-HPDD-LQ--RV----LKQHHREVLQKGQSVSPYYRF 71 (111)
T ss_dssp -EEEEEEETTSBEEEEETTHH--HHHHSS-HHHHTTSBGGGGB-SCCT-HH--HH----HHHHHHHHHHHSSEEEEEEEE
T ss_pred ceEEEEECCCcEEEEEcCccC--hhhcCCCcHHHcCCchHHhC-CHhh-hh--hH----HHHHHHHHhhCCCcCcceEEE
Confidence 6899999999999999999 6 79999999999999999997 7777 32 11 112222456799999999997
Q ss_pred cCCccccccCCcceEEEEee
Q psy7682 363 SPSCFGLQGASRTSLWQRIR 382 (383)
Q Consensus 363 ~~~~~~~~~~~~~~~~~~~~ 382 (383)
+.++ +.|+|++.+
T Consensus 72 ~~k~-------g~~vwvqt~ 84 (111)
T PF14598_consen 72 RTKN-------GGYVWVQTK 84 (111)
T ss_dssp E-TT-------SSEEEEEEE
T ss_pred EecC-------CcEEEEEEE
Confidence 6654 478998864
No 7
>KOG3561|consensus
Probab=98.97 E-value=3.1e-10 Score=121.62 Aligned_cols=49 Identities=45% Similarity=0.632 Sum_probs=44.8
Q ss_pred CcchhHHHhHHHHhhHHHHHHhHhhhhhhhcccccccCCCchhhhhhhhhhhhhH
Q psy7682 1 AKCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQCLN 55 (383)
Q Consensus 1 ~~~~~~~~~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~k~~~~~~~~~~~~~~~~ 55 (383)
+.|..|||||+|||.||+||||||++| + .++||+|||+||+++|.|.+.
T Consensus 23 ~~~~~EKrRRdq~N~yI~ELs~Mvp~~--~----~~~RK~DK~tVLr~aV~~lr~ 71 (803)
T KOG3561|consen 23 NRSEIEKRRRDQMNKYIEELSEMVPTN--A----SLSRKPDKLTVLRMAVDHLRL 71 (803)
T ss_pred cchhHHHHHHHHHHHHHHHHHHhhhcc--h----hcccCchHHHHHHHHHHHHHH
Confidence 469999999999999999999999999 2 388999999999999999953
No 8
>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=98.93 E-value=1.1e-09 Score=91.80 Aligned_cols=73 Identities=19% Similarity=0.347 Sum_probs=58.7
Q ss_pred cCcEEEEcCCccEEEeecc-cccccCcccccccCCccccccCCCChHH-HHhhcCCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy7682 143 EGFLFVVNPDGYVNFCTEN-IKSFIRYSRQEVLGKSVYNLIHHGDHAR-FHNCLVPSSHQVNAWTSDSGGQAGKRPSLTA 220 (383)
Q Consensus 143 dgfi~vvs~dG~i~yvS~s-v~~~LGy~~~el~G~s~~d~iHp~D~~~-~~~~l~~~~~~~~~~~s~s~~~~g~~~~~~~ 220 (383)
+.|+.-.+.||+|+|+.++ +..+|||.++||+|+|+|+|+||+|... +...+...- .
T Consensus 2 ~~F~trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~---------------------~ 60 (111)
T PF14598_consen 2 EEFTTRHSLDGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVL---------------------Q 60 (111)
T ss_dssp -EEEEEEETTSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHH---------------------H
T ss_pred ceEEEEECCCcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHh---------------------h
Confidence 4688999999999999999 8999999999999999999999999997 766654321 1
Q ss_pred CCCceeEEEEEEEcCC
Q psy7682 221 STPNRTFNIRLLISST 236 (383)
Q Consensus 221 ~~~~rsF~cRmk~~~~ 236 (383)
.++..+...||+.+.+
T Consensus 61 ~g~~~~~~yR~~~k~g 76 (111)
T PF14598_consen 61 KGQSVSPYYRFRTKNG 76 (111)
T ss_dssp HSSEEEEEEEEE-TTS
T ss_pred CCCcCcceEEEEecCC
Confidence 2334677899999886
No 9
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=98.89 E-value=3.1e-09 Score=77.69 Aligned_cols=53 Identities=28% Similarity=0.471 Sum_probs=45.9
Q ss_pred hhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhh
Q psy7682 49 TVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNI 106 (383)
Q Consensus 49 ~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~ 106 (383)
+..|+..||+||+.+|..|++|+++||.+ . .+...++||++||+.||+||+.+
T Consensus 2 R~~h~~~Er~RR~~i~~~~~~L~~llp~~-~----~~~~~k~~K~~iL~~ai~yI~~L 54 (55)
T PF00010_consen 2 RQKHNERERRRRDRINDCFDELRELLPSC-S----AGSSRKLSKASILQKAIDYIKQL 54 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCCSSH-H----CCTTSSSSHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhccch-h----ccccccCCHHHHHHHHHHHHHHh
Confidence 56889999999999999999999999992 1 12357999999999999999975
No 10
>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=98.81 E-value=5.5e-09 Score=106.82 Aligned_cols=150 Identities=11% Similarity=0.145 Sum_probs=98.6
Q ss_pred HhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCCCCCCCC
Q psy7682 140 EALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAGKRPSLT 219 (383)
Q Consensus 140 ~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g~~~~~~ 219 (383)
++..+.++++|.+|+|++++++...++||..+||+|+++.+|+||+|.+.+...+..... . +
T Consensus 3 ~~~~d~~~~~d~~g~i~~~n~~~~~~~g~~~~el~G~~~~~~~~~~~~~~~~~~~~~~~~------~------~------ 64 (442)
T TIGR02040 3 ATAADVTLLLDAEGVVREVAANPHHPSFEQLSEWEGRRWEEIVTAESVEKFELRLSEALR------T------G------ 64 (442)
T ss_pred cccCcEEEEECCCCcEEEEEECCCcccccccccCCCCcHhHhhCcchHHHHHHHHHHHhc------c------C------
Confidence 344456889999999999999999999999999999999999999998888877643210 0 0
Q ss_pred CCCCceeEEEEEEEcCC-e--eeeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCC----------c---------
Q psy7682 220 ASTPNRTFNIRLLISST-H--LTAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTD----------K--------- 277 (383)
Q Consensus 220 ~~~~~rsF~cRmk~~~~-~--i~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~----------~--------- 277 (383)
.....+..+.+.+.+ . +.++..+. + ....++++++.+.... .
T Consensus 65 --~~~~~~e~~~~~~~g~~~~~~~~~~~~----~----------~~~~~~~i~rDi~~~~~~~~~l~~~~~~~e~~~~~l 128 (442)
T TIGR02040 65 --RGAVRVELNHIDPSSFELPMRFILVRL----G----------ADRGVLALGRDLRAVAELQQQLVAAQQAMERDYWTL 128 (442)
T ss_pred --CCcceEeeccCCCCCCccCeEEEEEEe----C----------CCCeEEEEecccHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 001122233333322 0 11111111 0 0124677888763100 0
Q ss_pred --------ccCCCCceeEEEeCC-CCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 278 --------QLSAPIEQFTMKLDR-SGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 278 --------~i~~~~~~F~tRHsl-dgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
.+-......+.-.+. +|+++++++.. ..++||.++|++|+++.+++
T Consensus 129 ~~~e~r~~~l~e~~~~~i~~~d~~~g~i~~~N~a~--~~l~G~~~~el~g~~~~~~~ 183 (442)
T TIGR02040 129 REMETRYRVVLEVSSDAVLLVDMSTGRIVEANSAA--AALLGGVGQSLVGRAFPQEF 183 (442)
T ss_pred HHHHHHHHHHHhhCCceEEEEECCCCEEEEEcHHH--HHHhCcCHHHHcCCCHHHhC
Confidence 011112344555676 89999999998 79999999999999988876
No 11
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=98.75 E-value=1.9e-08 Score=74.31 Aligned_cols=55 Identities=29% Similarity=0.465 Sum_probs=47.9
Q ss_pred hhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhh
Q psy7682 47 QETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQ 108 (383)
Q Consensus 47 ~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~ 108 (383)
.++..|+..||+||+++|..|.+|..+||.. . ...++||++||+.|+.||+.++.
T Consensus 3 ~~r~~~~~~Er~RR~~~n~~~~~L~~llp~~---~----~~~k~~k~~iL~~a~~yI~~L~~ 57 (60)
T cd00083 3 SRREAHNLRERRRRERINDAFDELRSLLPTL---P----PSKKLSKAEILRKAVDYIKSLQE 57 (60)
T ss_pred HHHHHHhHHHHHHHHHHHHHHHHHHHHCCCC---C----CCCCCCHHHHHHHHHHHHHHHHH
Confidence 3456889999999999999999999999993 1 24899999999999999998764
No 12
>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=98.66 E-value=3.1e-08 Score=101.24 Aligned_cols=158 Identities=16% Similarity=0.114 Sum_probs=99.4
Q ss_pred hhhHHHHhhcCcEEEEcC-CccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCC
Q psy7682 134 LGPLLLEALEGFLFVVNP-DGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQA 212 (383)
Q Consensus 134 ~~~lll~aldgfi~vvs~-dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~ 212 (383)
....+++++...++++|. +|+|+|+++++..++||++++++|+++.+++||+|.+.+...+.....
T Consensus 134 r~~~l~e~~~~~i~~~d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~~~------------- 200 (442)
T TIGR02040 134 RYRVVLEVSSDAVLLVDMSTGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNVRA------------- 200 (442)
T ss_pred HHHHHHhhCCceEEEEECCCCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHHHh-------------
Confidence 345677777778999997 899999999999999999999999999999999999988877743210
Q ss_pred CCCCCCCCCCCceeEEEEEEEcCCeeeeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc----------ccCCC
Q psy7682 213 GKRPSLTASTPNRTFNIRLLISSTHLTAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK----------QLSAP 282 (383)
Q Consensus 213 g~~~~~~~~~~~rsF~cRmk~~~~~i~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~----------~i~~~ 282 (383)
.+....+.++++.....+....... . . .+...+++..+.+..... .+-..
T Consensus 201 --------~g~~~~~~~~~~~~~~~~~~~~~~~-~---~--------~~~~~~l~~~~dit~~~~~e~~~~~~~~~l~e~ 260 (442)
T TIGR02040 201 --------TGSAAPVRILLRRSQKRLLVVVSVF-R---Q--------DGESLFLCQLSPAGATQPVGDELSENLARLYHE 260 (442)
T ss_pred --------cCCCcceEEEEcCCCeEEEEEEEEE-E---e--------CCceEEEEEEcccchhhhhhHHHHHHHHHHHHh
Confidence 0001112222221111110100000 0 0 011233333444432211 01011
Q ss_pred CceeEEEeCCCCcEEEEcCCCCccccCCcc-cccccCCCccceec
Q psy7682 283 IEQFTMKLDRSGTIIGMDTSGVSQTHTQYL-NKAVACKTSATVWT 326 (383)
Q Consensus 283 ~~~F~tRHsldgkf~~vD~r~l~~~ilGY~-p~eLiG~S~yd~~~ 326 (383)
...-+.-.+.+|.|++|++.. ..++||. +++|+|+++.+|+.
T Consensus 261 ~~d~I~v~D~~G~I~~~N~a~--~~l~G~~~~~~l~G~~~~~~~~ 303 (442)
T TIGR02040 261 APDAIVFSDADGTIRGANEAF--LELTDSSSLEAVRGRTLDRWLG 303 (442)
T ss_pred CCceEEEEcCCCcEEehhHHH--HHHhCCCChHHHcCCCHHHHhC
Confidence 233445578999999999998 8999997 47799999988774
No 13
>smart00353 HLH helix loop helix domain.
Probab=98.61 E-value=8.6e-08 Score=69.24 Aligned_cols=48 Identities=27% Similarity=0.428 Sum_probs=42.0
Q ss_pred hHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhh
Q psy7682 54 LNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQ 108 (383)
Q Consensus 54 ~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~ 108 (383)
..||+||+++|+.|.+|+.+||.. . ...++||++||..|++|++.++.
T Consensus 2 ~~Er~RR~~~n~~~~~L~~lip~~---~----~~~k~~k~~iL~~ai~yi~~L~~ 49 (53)
T smart00353 2 ARERRRRRKINEAFDELRSLLPTL---P----NNKKLSKAEILRLAIEYIKSLQE 49 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCC---C----CCCCCCHHHHHHHHHHHHHHHHH
Confidence 468999999999999999999982 1 24799999999999999998764
No 14
>PF00989 PAS: PAS fold; InterPro: IPR013767 PAS domains are involved in many signalling proteins where they are used as a signal sensor domain []. PAS domains appear in archaea, bacteria and eukaryotes. Several PAS-domain proteins are known to detect their signal by way of an associated cofactor. Haeme, flavin, and a 4-hydroxycinnamyl chromophore are used in different proteins. The PAS domain was named after three proteins that it occurs in: Per- period circadian protein Arnt- Ah receptor nuclear translocator protein Sim- single-minded protein. PAS domains are often associated with PAC domains IPR001610 from INTERPRO. It appears that these domains are directly linked, and that together they form the conserved 3D PAS fold. The division between the PAS and PAC domains is caused by major differences in sequences in the region connecting these two motifs []. In human PAS kinase, this region has been shown to be very flexible, and adopts different conformations depending on the bound ligand []. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels [].; GO: 0006355 regulation of transcription, DNA-dependent; PDB: 2GJ3_A 4F3L_B 1XFN_A 1OTD_A 2PYR_A 1KOU_A 1XFQ_A 2ZOI_A 2ZOH_A 1OTA_A ....
Probab=98.54 E-value=5e-08 Score=78.90 Aligned_cols=61 Identities=30% Similarity=0.555 Sum_probs=53.6
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcC
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLV 195 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~ 195 (383)
.+.+++++...++++|.+|+|+|+|+++..+|||++++++|+++++++||+|...+...+.
T Consensus 3 ~~~i~~~~~~~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 63 (113)
T PF00989_consen 3 YRAILENSPDGIFVIDEDGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLR 63 (113)
T ss_dssp HHHHHHCSSSEEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHH
T ss_pred HHHHHhcCCceEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHH
Confidence 4567888999999999999999999999999999999999999999999998766555554
No 15
>KOG4304|consensus
Probab=98.53 E-value=7.4e-08 Score=91.58 Aligned_cols=68 Identities=28% Similarity=0.406 Sum_probs=54.9
Q ss_pred hhhhhhhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccC
Q psy7682 42 KCAILQETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQET 111 (383)
Q Consensus 42 ~~~~~~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~ 111 (383)
.+....+.++|-..|||||++||+.|.||+.|||. .+..+ .....||+|+.||.+||.|||+++....
T Consensus 26 ~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e-~~~~~-~~~~sklEKAdILEltV~hL~~l~~~~~ 93 (250)
T KOG4304|consen 26 SKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPE-ALKKD-GQRHSKLEKADILELTVNHLRQLQRSQQ 93 (250)
T ss_pred hhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHH-HHhhc-chhhhhhHHHHHHHHHHHHHHHHhcccc
Confidence 44555667789999999999999999999999998 33332 1234799999999999999999886554
No 16
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=98.47 E-value=9.9e-07 Score=96.13 Aligned_cols=167 Identities=16% Similarity=0.166 Sum_probs=105.8
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCCC
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAGK 214 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g~ 214 (383)
...+.++.++ +++++.+|.|+|+++++..++||+++|++|+++.+++||++.......+..... . +.
T Consensus 15 ~~~le~~~~~-i~~~d~~g~i~~~N~~~~~l~G~s~eeliG~~~~~~~~~~~~~~~~~~~~~~~~------~------~~ 81 (799)
T PRK11359 15 FPALEQNMMG-AVLINENDEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHPEYIRHNRE------G------GK 81 (799)
T ss_pred HHHHHhhcCc-EEEEcCCCeEEEEcHHHHHHhCCCHHHHcCCCHHHhcCccccccchHHHhhhhc------c------CC
Confidence 3444455555 778899999999999999999999999999999999999887554443322110 0 00
Q ss_pred CCCCCCCCCceeEEEEEEEcCCeeeeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc---------ccCCCCce
Q psy7682 215 RPSLTASTPNRTFNIRLLISSTHLTAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK---------QLSAPIEQ 285 (383)
Q Consensus 215 ~~~~~~~~~~rsF~cRmk~~~~~i~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~---------~i~~~~~~ 285 (383)
.......+-+|++++.+......... ... + ..+....+++.+.+..... .+-.....
T Consensus 82 -----~~~~~~~~e~~~~~~dG~~~~v~~~~-~~~--~------~~g~~~~~~~~~DiT~~~~~~~~~~~~~~~~~~~~~ 147 (799)
T PRK11359 82 -----ARVEGMSRELQLEKKDGSKIWTRFAL-SKV--S------AEGKVYYLALVRDASVEMAQKEQTRQLIIAVDHLDR 147 (799)
T ss_pred -----ccccccceeeEEecCCcCEEEEEEEe-eee--c------cCCceEEEEEEeeccchhhhHHHHHHHHHHHhcCCC
Confidence 00111233456666554211100000 000 1 1223456777777754321 01112234
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCCCC
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCPNS 330 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~~~ 330 (383)
.+.-.+.+|+++++++.. ..++||.+++++|+...++++++++
T Consensus 148 ~i~~~d~~g~i~~~N~~~--~~l~G~~~~e~~g~~~~~~~~~~~~ 190 (799)
T PRK11359 148 PVIVLDPERRIVQCNRAF--TEMFGYCISEASGMQPDTLLNIPEF 190 (799)
T ss_pred cEEEEcCCCcEEEEChhh--HhhhCCCHHHHCCCChHHhcCCCCC
Confidence 456678999999999998 8999999999999999888766655
No 17
>PRK13560 hypothetical protein; Provisional
Probab=98.27 E-value=3e-06 Score=91.85 Aligned_cols=163 Identities=12% Similarity=0.078 Sum_probs=105.8
Q ss_pred hHHHHhhcCcEEEEcCCcc----EEEeecccccccCcccccccCC--ccccccCCCChHHHHhhcCCCCCCCCCCCCCCC
Q psy7682 136 PLLLEALEGFLFVVNPDGY----VNFCTENIKSFIRYSRQEVLGK--SVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSG 209 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~----i~yvS~sv~~~LGy~~~el~G~--s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~ 209 (383)
..+++++.+.+++.+.+|. +.|++++...++||.+.++++. .+..++||+|.+.+......... ... .
T Consensus 71 r~l~~~~p~~i~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~~-~~~--~--- 144 (807)
T PRK13560 71 RNLKANIPGGMFLFALDGDGTFSFPSLLDANGELAAIAKHDLMADKGLLAMLIGGDDGDFFFANPFRSAE-TIA--M--- 144 (807)
T ss_pred HHHHhcCCceEEEEEEcCccccccceeeccchhHHHhcCcccCCccchhhhhcCCCcchhhhhChhhHHH-HHH--H---
Confidence 5577888888887766555 3448999999999999998863 46689999999876543211100 000 0
Q ss_pred CCCCCCCCCCCCCCceeEEEEEEEcCCe-eeeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc-----------
Q psy7682 210 GQAGKRPSLTASTPNRTFNIRLLISSTH-LTAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK----------- 277 (383)
Q Consensus 210 ~~~g~~~~~~~~~~~rsF~cRmk~~~~~-i~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~----------- 277 (383)
....+....|..|++++.+. +.+...+.. + ..+...++++++.|.....
T Consensus 145 --------~~~~~~~~~~e~r~~~~dg~~~~~~~~~~~-----~------~~g~~~~~g~~~DIT~rk~ae~~l~~~~~~ 205 (807)
T PRK13560 145 --------ALQSDDWQEEEGHFRCGDGRFIDCCLRFER-----H------AHADDQVDGFAEDITERKRAEERIDEALHF 205 (807)
T ss_pred --------HhccCcccceEEEEEeCCccEEEEEeeeee-----c------CCCceEEEEEEEccchHHHHHHHHHHHHHH
Confidence 00112345788899987752 222221110 1 1123467888888864331
Q ss_pred --ccCCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 278 --QLSAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 278 --~i~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
.+-......+.-.+.+|+|+++++.+ ..++||.++|++|+++++++
T Consensus 206 l~~l~e~~~~~i~~~d~~g~i~~~N~~~--~~~~G~~~~e~~g~~~~~~~ 253 (807)
T PRK13560 206 LQQLLDNIADPAFWKDEDAKVFGCNDAA--CLACGFRREEIIGMSIHDFA 253 (807)
T ss_pred HHHHHhhCCCeEEEEcCCCCEEEEhHHH--HHHhCCCHHHHcCCcchhcC
Confidence 01112234455679999999999998 89999999999999998886
No 18
>KOG1318|consensus
Probab=98.23 E-value=1.3e-06 Score=87.68 Aligned_cols=62 Identities=31% Similarity=0.399 Sum_probs=52.5
Q ss_pred hhhhhhhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhc
Q psy7682 42 KCAILQETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQ 109 (383)
Q Consensus 42 ~~~~~~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~ 109 (383)
.-+-.+++-+|+..|||||++||..|.||..|||-++.++ .+..|-.||.-+++|+|.++.-
T Consensus 227 ~~rdr~Krd~HNeVERRRR~nIN~~IkeLg~liP~~~~~~------~~~nKgtILk~s~dYIr~Lqq~ 288 (411)
T KOG1318|consen 227 LERDRRKRDNHNEVERRRRENINDRIKELGQLIPKCNSED------MKSNKGTILKASCDYIRELQQT 288 (411)
T ss_pred hHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhCCCCCcch------hhcccchhhHHHHHHHHHHHHH
Confidence 3345567889999999999999999999999999954333 5888999999999999998754
No 19
>PRK13560 hypothetical protein; Provisional
Probab=98.10 E-value=5.5e-06 Score=89.84 Aligned_cols=163 Identities=12% Similarity=0.091 Sum_probs=103.0
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCCC
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAGK 214 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g~ 214 (383)
...+++++...++++|.+|+|+|+|+++..++||+++|++|+++.++.++.+...+........
T Consensus 206 l~~l~e~~~~~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~---------------- 269 (807)
T PRK13560 206 LQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADDYQEADAAKF---------------- 269 (807)
T ss_pred HHHHHhhCCCeEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHHHHHHHHHHh----------------
Confidence 3467778888899999999999999999999999999999999999987766655433221110
Q ss_pred CCCCCCCCCceeEEEEEEEcCCeeeeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc-------------ccCC
Q psy7682 215 RPSLTASTPNRTFNIRLLISSTHLTAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK-------------QLSA 281 (383)
Q Consensus 215 ~~~~~~~~~~rsF~cRmk~~~~~i~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~-------------~i~~ 281 (383)
..+....|-.+++.+.+....-........-.+ .......++++++.|+.... .+-.
T Consensus 270 -----~~~~~~~~e~~~~~~dG~~~~~~~~~~~~~~~~-----~~g~~~g~~~~~~DITerk~~e~~L~~se~~l~~l~~ 339 (807)
T PRK13560 270 -----DADGSQIIEAEFQNKDGRTRPVDVIFNHAEFDD-----KENHCAGLVGAITDISGRRAAERELLEKEDMLRAIIE 339 (807)
T ss_pred -----ccCCceEEEEEEEcCCCCEEEEEEEecceEEEc-----CCCCEEEEEEEEEechHHHHHHHHHHHHHHHHHHHHH
Confidence 001123455566555432110000000000001 01233568888888864321 0111
Q ss_pred CCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccce
Q psy7682 282 PIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATV 324 (383)
Q Consensus 282 ~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~ 324 (383)
.....+...+.+|.+++++.... ..++||.+.|++|+++.++
T Consensus 340 ~~~~~i~~~d~~g~i~~~nn~~~-~~~~G~~~~e~~g~~~~~~ 381 (807)
T PRK13560 340 AAPIAAIGLDADGNICFVNNNAA-ERMLGWSAAEVMGKPLPGM 381 (807)
T ss_pred hCcccEEEEcCCCCEEEecCHHH-HHHhCCCHHHHcCCCcccc
Confidence 22345666789999999965542 5699999999999987654
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=98.02 E-value=6.1e-06 Score=65.35 Aligned_cols=51 Identities=25% Similarity=0.630 Sum_probs=44.5
Q ss_pred EEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCC
Q psy7682 146 LFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVP 196 (383)
Q Consensus 146 i~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~ 196 (383)
++++|.+|.|+|+|+++..++||+++|++|+++.+++++++...+...+..
T Consensus 4 i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~ 54 (104)
T PF13426_consen 4 IFILDPDGRILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIER 54 (104)
T ss_dssp EEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHH
T ss_pred EEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHH
Confidence 788999999999999999999999999999999999999888777776654
No 21
>PRK09776 putative diguanylate cyclase; Provisional
Probab=97.90 E-value=8.4e-06 Score=91.99 Aligned_cols=151 Identities=12% Similarity=0.024 Sum_probs=97.1
Q ss_pred HHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCCCCC
Q psy7682 137 LLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAGKRP 216 (383)
Q Consensus 137 lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g~~~ 216 (383)
.++++...-++++|.+|+|+|+|+++..++||+++|++|+++.+++||+|.+.....+..... +
T Consensus 287 ~l~e~~~~~i~~~d~dG~i~~~N~~~~~l~G~~~~el~g~~~~~~~~~~d~~~~~~~~~~~~~-------------~--- 350 (1092)
T PRK09776 287 NAMEYSAIGMALVGTEGQWLQVNKALCQFLGYSQEELRGLTFQQLTWPEDLNKDLQQVEKLLS-------------G--- 350 (1092)
T ss_pred HHHHhCCceEEEEcCCCcEEehhHHHHHHhCCCHHHHccCCceeccCcchhHhHHHHHHHHHc-------------C---
Confidence 445555555889999999999999999999999999999999999999998877665532210 0
Q ss_pred CCCCCCCceeEEEEEEEcCCee---eeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc---c----------cC
Q psy7682 217 SLTASTPNRTFNIRLLISSTHL---TAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK---Q----------LS 280 (383)
Q Consensus 217 ~~~~~~~~rsF~cRmk~~~~~i---~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~---~----------i~ 280 (383)
......+..|++++.+.. .....+... . ......++++.+.+..... . +.
T Consensus 351 ----~~~~~~~e~~~~~~dG~~~~~~~~~~~~~~---~-------~g~~~~~i~~~~DITerk~~e~~l~~~~~~~~~~~ 416 (1092)
T PRK09776 351 ----EINSYSMEKRYYRRDGEVVWALLAVSLVRD---T-------DGTPLYFIAQIEDINELKRTEQVNERLMERITLAN 416 (1092)
T ss_pred ----CccceeeeeEEEcCCCCEEEEEEEEEEEEC---C-------CCCEeeehhhHHhhHHHHHHHHHHHHHHHHHHHHH
Confidence 011234556666655421 111111100 0 0222456666666543211 0 00
Q ss_pred CCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCC
Q psy7682 281 APIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACK 319 (383)
Q Consensus 281 ~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~ 319 (383)
......+..-++++.+++++++. ..++||.+++..+.
T Consensus 417 ~~~~~~i~~~d~~~~~~~~n~~~--~~l~G~~~~~~~~~ 453 (1092)
T PRK09776 417 EAGGIGIWEWDLKPNIISWDKRM--FELYEIPPHIKPTW 453 (1092)
T ss_pred HhcCceEEEEecCCCeEeeCHHH--HHHhCCCcccCCCH
Confidence 11233456668999999999998 79999999995553
No 22
>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=97.87 E-value=7.2e-06 Score=64.43 Aligned_cols=60 Identities=18% Similarity=0.311 Sum_probs=45.4
Q ss_pred EEEeecccccccCcccccccCCc----cccccCCCChHHHHhhcCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCceeEEE
Q psy7682 155 VNFCTENIKSFIRYSRQEVLGKS----VYNLIHHGDHARFHNCLVP-SSHQVNAWTSDSGGQAGKRPSLTASTPNRTFNI 229 (383)
Q Consensus 155 i~yvS~sv~~~LGy~~~el~G~s----~~d~iHp~D~~~~~~~l~~-~~~~~~~~~s~s~~~~g~~~~~~~~~~~rsF~c 229 (383)
|+|+|+++..++||+++++ |.. +++++||+|.+.+.+.+.. .. ..+....+.+
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~~~~---------------------~~~~~~~~e~ 58 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQAAL---------------------QNGEPFEIEY 58 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHHHHH---------------------HTT-EEEEEE
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHHHhh---------------------ccCcceEEEE
Confidence 6899999999999999999 777 8999999999999998875 21 1234567788
Q ss_pred EEEEcCC
Q psy7682 230 RLLISST 236 (383)
Q Consensus 230 Rmk~~~~ 236 (383)
|++++.+
T Consensus 59 R~~~~~G 65 (91)
T PF08447_consen 59 RIRRKDG 65 (91)
T ss_dssp EEEGTTS
T ss_pred EEECCCC
Confidence 8888765
No 23
>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=97.64 E-value=3e-05 Score=62.06 Aligned_cols=58 Identities=24% Similarity=0.545 Sum_probs=51.9
Q ss_pred HHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCC
Q psy7682 139 LEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVP 196 (383)
Q Consensus 139 l~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~ 196 (383)
++++...++++|.+|+|+|+|++...++|++..+++|+++.+++++.+.+.+...+..
T Consensus 1 l~~~p~~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~ 58 (110)
T PF08448_consen 1 LDSSPDGIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRR 58 (110)
T ss_dssp HHHCSSEEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHH
T ss_pred CCCCCceeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHH
Confidence 4667778999999999999999999999999999999999999999999888887754
No 24
>KOG3558|consensus
Probab=97.63 E-value=8e-06 Score=85.68 Aligned_cols=53 Identities=23% Similarity=0.490 Sum_probs=49.5
Q ss_pred cCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcC
Q psy7682 143 EGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLV 195 (383)
Q Consensus 143 dgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~ 195 (383)
+.|+.-++.|=+|.|+.+.|+.++||+++||+|+|+|+|+|+.|.+.++.-..
T Consensus 274 ~~FvtRhs~DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~ 326 (768)
T KOG3558|consen 274 HMFVTRHSLDMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHH 326 (768)
T ss_pred ceeEEeeecceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHH
Confidence 37899999999999999999999999999999999999999999999987654
No 25
>PRK09776 putative diguanylate cyclase; Provisional
Probab=97.54 E-value=8.8e-05 Score=83.79 Aligned_cols=158 Identities=9% Similarity=0.023 Sum_probs=106.0
Q ss_pred HHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCC-ccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCCCCC
Q psy7682 137 LLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGK-SVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQAGKR 215 (383)
Q Consensus 137 lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~-s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~g~~ 215 (383)
.+.++....++.++.+|.++|+|++...++||++++..+. .+.+++||+|.+.+...+....
T Consensus 414 ~~~~~~~~~i~~~d~~~~~~~~n~~~~~l~G~~~~~~~~~~~~~~~~~p~d~~~~~~~~~~~~----------------- 476 (1092)
T PRK09776 414 LANEAGGIGIWEWDLKPNIISWDKRMFELYEIPPHIKPTWQVWYACLHPEDRQRVEKEIRDAL----------------- 476 (1092)
T ss_pred HHHHhcCceEEEEecCCCeEeeCHHHHHHhCCCcccCCCHHHHHHhcCHhHHHHHHHHHHHHH-----------------
Confidence 4445556668899999999999999999999999986553 4677999999998877664321
Q ss_pred CCCCCCCCceeEEEEEEEcCCeeeeeeecCCC--CCCCCCCCCCCCCCCceEEEEEeecCCCCc-------------ccC
Q psy7682 216 PSLTASTPNRTFNIRLLISSTHLTAGLSRAGG--ENGQDDSGDVSSEGGPCLMCVARRIPPTDK-------------QLS 280 (383)
Q Consensus 216 ~~~~~~~~~rsF~cRmk~~~~~i~~~~~~~~~--~~g~d~~~~~~~~~~~~LVav~r~ip~~~~-------------~i~ 280 (383)
..+....+-.|++++.+ +.|... ..-.+. ......++++.+.+..... .+-
T Consensus 477 ----~~~~~~~~e~r~~~~dG-----~~w~~~~~~~~~d~-----~G~~~~~ig~~~DITerk~~e~~L~~~~~~l~~~l 542 (1092)
T PRK09776 477 ----QGRSPFKLEFRIVVKDG-----VRHIRALANRVLNK-----DGEVERLLGINMDMTEVRQLNEALFQEKERLHITL 542 (1092)
T ss_pred ----hcCCCeeEEEEEEcCCc-----eEEEEEeeEEEECC-----CCCEEEEEeeeeehhHHHHHHHHHHHHHHHHHHHH
Confidence 01122345566666553 111100 000011 1223467888888764321 011
Q ss_pred CCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecC
Q psy7682 281 APIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTC 327 (383)
Q Consensus 281 ~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~ 327 (383)
......+...+.+|+++++++.. ..++||.++|++|+++.++++.
T Consensus 543 ~~~~~~i~~~D~~g~i~~~N~a~--~~l~G~~~~e~iG~~~~~~~~~ 587 (1092)
T PRK09776 543 DSIGEAVVCTDMAMKVTFMNPVA--EKMTGWTQEEALGVPLLTVLHI 587 (1092)
T ss_pred hccccEEEEECCCCeEEEEcHHH--HHHhCCCHHHHcCCCHHHHccc
Confidence 12345566789999999999998 8999999999999998887743
No 26
>KOG1319|consensus
Probab=97.28 E-value=0.00026 Score=63.57 Aligned_cols=59 Identities=22% Similarity=0.357 Sum_probs=49.0
Q ss_pred hhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhh
Q psy7682 47 QETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQ 108 (383)
Q Consensus 47 ~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~ 108 (383)
+++..|.++|++|||.+|.-...|.+|+|-|--.+ +...|+.|+.||..+|.||..++.
T Consensus 61 rrr~aHtqaEqkRRdAIk~GYddLq~LvP~cq~~d---s~g~KlskA~ILqksidyi~~L~~ 119 (229)
T KOG1319|consen 61 RRRRAHTQAEQKRRDAIKRGYDDLQTLVPTCQQQD---SIGQKLSKAIILQKTIDYIQFLHK 119 (229)
T ss_pred HHHHHHHHHHHHHHHHHHhchHHHHHhcccccccc---chhHHHHHHHHHHHHHHHHHHHHH
Confidence 34678999999999999999999999999952222 234599999999999999987764
No 27
>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=97.24 E-value=0.00014 Score=73.64 Aligned_cols=160 Identities=10% Similarity=0.068 Sum_probs=96.0
Q ss_pred chhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCCCCCCCCCCCCCCCC
Q psy7682 133 VLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSSHQVNAWTSDSGGQA 212 (383)
Q Consensus 133 ~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~~~~~~~~s~s~~~~ 212 (383)
++...+++++..-+++++.+|+++|+|+++..++||++++++|++...+.++.+.......+..... .
T Consensus 4 ~~~~~i~~~~~~~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~------~------ 71 (494)
T TIGR02938 4 EAYRQTVDQAPLAISITDLKANILYANDAFTRITGYTKEEIIGKNESVLSNHTTPPEVYQALWGSLA------E------ 71 (494)
T ss_pred HHHHHHHHhCCceEEEECCCCcEEEEchhheeecCCCHHHHhCCCchhhcCCCCCHHHHHHHHHHHH------h------
Confidence 3455677777777999999999999999999999999999999998888877665544433321100 0
Q ss_pred CCCCCCCCCCCceeEEEEEEEcCCe---eeeeeecCCCCCCCCCCCCCCCCCCceEEEEEeecCCCCc------------
Q psy7682 213 GKRPSLTASTPNRTFNIRLLISSTH---LTAGLSRAGGENGQDDSGDVSSEGGPCLMCVARRIPPTDK------------ 277 (383)
Q Consensus 213 g~~~~~~~~~~~rsF~cRmk~~~~~---i~~~~~~~~~~~g~d~~~~~~~~~~~~LVav~r~ip~~~~------------ 277 (383)
+.......+.+.+.+. +.....+.. + .......++++.+.+.....
T Consensus 72 ---------~~~~~~~~~~~~~~g~~~~~~~~~~~~~-----~-----~~g~~~~~~~~~~DIt~~k~~e~~l~~~~~~~ 132 (494)
T TIGR02938 72 ---------QKPWAGKLLNRRKDGELYLAELTVAPVL-----N-----EAGETTHFLGMHRDITELHRLEQVVANQKLLI 132 (494)
T ss_pred ---------CCcccceeeccCCCccchhhheeeEEEE-----C-----CCCCEEEEEEehhhhhHHHHHHHHHHHHHHHH
Confidence 0000111122222210 001111110 0 01223467777777653211
Q ss_pred -ccCCCCceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 278 -QLSAPIEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 278 -~i~~~~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
.+......-+...+.+|.++++++.. ..++||.+.+..+..+.+++
T Consensus 133 ~~~~~~~~~~i~~~d~~~~i~~~N~~~--~~~~g~~~~~~~~~~~~~~~ 179 (494)
T TIGR02938 133 ESVVDAAPVAFVLLDPTGRVILDNQEY--KKLATDLRVKEPAHTVLDLL 179 (494)
T ss_pred HHHHhcccceEEEEcCCCCEEEechhH--HHhhchhhhhHHHHHHHHHh
Confidence 01111223345567899999999998 78899999888877655443
No 28
>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=97.21 E-value=0.00024 Score=50.93 Aligned_cols=52 Identities=27% Similarity=0.503 Sum_probs=46.9
Q ss_pred CcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcC
Q psy7682 144 GFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLV 195 (383)
Q Consensus 144 gfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~ 195 (383)
..+++++.+|.++++++++..++|+.+.+++|.++++++|+.+...+...+.
T Consensus 3 ~~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 54 (103)
T cd00130 3 DGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLE 54 (103)
T ss_pred ceEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHH
Confidence 4578899999999999999999999999999999999999999887766554
No 29
>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=97.17 E-value=0.00033 Score=58.55 Aligned_cols=56 Identities=23% Similarity=0.415 Sum_probs=50.2
Q ss_pred hcCcEEEEcC-CccEEEeecccccccCcc---cccccCCccccccCCCChHHHHhhcCCC
Q psy7682 142 LEGFLFVVNP-DGYVNFCTENIKSFIRYS---RQEVLGKSVYNLIHHGDHARFHNCLVPS 197 (383)
Q Consensus 142 ldgfi~vvs~-dG~i~yvS~sv~~~LGy~---~~el~G~s~~d~iHp~D~~~~~~~l~~~ 197 (383)
.-|++++++. +++|+++|+|+..+||.+ .++++|+++.+++-+.....+++.+...
T Consensus 14 phG~LLa~d~~~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~~~~l~~~~~~~ 73 (110)
T PF08446_consen 14 PHGALLALDPDDLRIVQASENIAELLGIPPELPEELLGRPLSELLGAESAERLREALQSE 73 (110)
T ss_dssp TTSEEEEEETTTTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCCHHHHHHHCTCC
T ss_pred CCEEEEEEECCCCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHHHHHHHHhhhcc
Confidence 4689999986 799999999999999999 9999999999999999999999887654
No 30
>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=97.02 E-value=0.00069 Score=45.00 Aligned_cols=58 Identities=31% Similarity=0.582 Sum_probs=50.4
Q ss_pred HHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 137 LLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 137 lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
.+++++...+++++.+|.+.++++.+..++|+...++.|.++.+++||.|...+...+
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 62 (67)
T smart00091 5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEAL 62 (67)
T ss_pred HHHhhCCceEEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHHH
Confidence 3456666678889999999999999999999999999999999999999988776654
No 31
>TIGR00229 sensory_box PAS domain S-box. The PAS domain was previously described. This sensory box, or S-box domain occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include heme in the oxygen sensor FixL, FAD in the redox potential sensor NifL, and a 4-hydroxycinnamyl chromophore in photoactive yellow protein. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator.
Probab=97.02 E-value=0.00065 Score=51.28 Aligned_cols=59 Identities=19% Similarity=0.437 Sum_probs=51.2
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
..+++++...+++++.+|.|+|+++.+..++|+...+++|.++.+++|+.+...+...+
T Consensus 6 ~~~~~~~~~~~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (124)
T TIGR00229 6 RAIFESSPDAIIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERI 64 (124)
T ss_pred HHHHhhCCceEEEEcCCCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHH
Confidence 34566677778899999999999999999999999999999999999999887766554
No 32
>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=96.55 E-value=0.0022 Score=50.42 Aligned_cols=37 Identities=16% Similarity=0.205 Sum_probs=30.9
Q ss_pred EeCCCCcEEEEcCCCCccccCCcccccccCCCccceecC
Q psy7682 289 KLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTC 327 (383)
Q Consensus 289 RHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~ 327 (383)
-.+.+|+|+++++.. ..++||.++|++|+++.+++..
T Consensus 6 i~d~~g~i~~~N~~~--~~~~g~~~~~~~g~~~~~~~~~ 42 (104)
T PF13426_consen 6 ILDPDGRILYVNPAF--ERLFGYSREELIGKSISDFFPE 42 (104)
T ss_dssp EEETTSBEEEE-HHH--HHHHTS-HHHHTTSBGGGGCST
T ss_pred EECCcCcEEehhHHH--HHHHCcCHHHHcCCCcccccCc
Confidence 456799999999998 8999999999999999988853
No 33
>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=96.37 E-value=0.002 Score=50.25 Aligned_cols=69 Identities=14% Similarity=0.107 Sum_probs=39.4
Q ss_pred EEEEcCCCCccccCCcccccccCCC----ccceecCCCCchhHHHHHHHHHHhhhhcccceeecccceecccCCcccccc
Q psy7682 296 IIGMDTSGVSQTHTQYLNKAVACKT----SATVWTCPNSPLTSTKLLLKALLLSICTDYALVQTDTCMYRSSPSCFGLQG 371 (383)
Q Consensus 296 f~~vD~r~l~~~ilGY~p~eLiG~S----~yd~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~t~~yR~~~~~~~~~~ 371 (383)
++|+++++ ..++||.|+|+ |.. +++++ ||+|...+...+.++ ....++.-+..|| +..
T Consensus 1 ~i~~s~~~--~~i~G~~~~~~-~~~~~~~~~~~i-hpdD~~~~~~~~~~~-------~~~~~~~~~~e~R-------~~~ 62 (91)
T PF08447_consen 1 IIYWSDNF--YEIFGYSPEEI-GKPDFEEWLERI-HPDDRERVRQAIQQA-------ALQNGEPFEIEYR-------IRR 62 (91)
T ss_dssp -EEE-THH--HHHHTS-HHHH-TCBEHHHHHHHB--TTTHHHHHHHHHHH-------HHHTT-EEEEEEE-------EEG
T ss_pred CEEEeHHH--HHHhCCCHHHh-ccCCHHHHHhhc-CHHHHHHHHHHHHHH-------hhccCcceEEEEE-------EEC
Confidence 57999998 79999999999 776 56655 666633332222211 1223444555666 556
Q ss_pred CCcceEEEEee
Q psy7682 372 ASRTSLWQRIR 382 (383)
Q Consensus 372 ~~~~~~~~~~~ 382 (383)
.++.+.|++.+
T Consensus 63 ~~G~~~wi~~~ 73 (91)
T PF08447_consen 63 KDGEYRWIEVR 73 (91)
T ss_dssp TTSTEEEEEEE
T ss_pred CCCCEEEEEEE
Confidence 66667777654
No 34
>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=96.35 E-value=0.0029 Score=50.61 Aligned_cols=42 Identities=12% Similarity=0.145 Sum_probs=34.7
Q ss_pred eeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCC
Q psy7682 285 QFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCP 328 (383)
Q Consensus 285 ~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~ 328 (383)
..+.-.+.+|+|+|+++.+ ..++||.++|++|++++++++.+
T Consensus 12 ~~i~~~d~~g~I~~~N~a~--~~l~g~~~~~~~g~~~~~~~~~~ 53 (113)
T PF00989_consen 12 DGIFVIDEDGRILYVNQAA--EELLGYSREELIGKSLFDLIHPE 53 (113)
T ss_dssp SEEEEEETTSBEEEECHHH--HHHHSS-HHHHTTSBGGGGCSGG
T ss_pred ceEEEEeCcCeEEEECHHH--HHHHccCHHHHcCCcHHHhcCch
Confidence 3344556899999999998 89999999999999999998443
No 35
>PRK13557 histidine kinase; Provisional
Probab=96.31 E-value=0.0029 Score=65.25 Aligned_cols=62 Identities=15% Similarity=0.156 Sum_probs=50.3
Q ss_pred chhhHHHHhhcCcEEEEcC---CccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 133 VLGPLLLEALEGFLFVVNP---DGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 133 ~~~~lll~aldgfi~vvs~---dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
.+-..+++++..-+++++. +|.|+|+|+++..++||+.+|++|+++.+++||++.......+
T Consensus 30 ~~~~~~~~~~~~~i~v~d~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~ 94 (540)
T PRK13557 30 DIFFAAVETTRMPMIVTDPNQPDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEV 94 (540)
T ss_pred HHHHHHHHhCcCcEEEEcCCCCCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHH
Confidence 3445566666666888885 8999999999999999999999999999999998766554433
No 36
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=96.21 E-value=0.0067 Score=66.57 Aligned_cols=62 Identities=15% Similarity=0.213 Sum_probs=54.2
Q ss_pred chhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 133 VLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 133 ~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
.+...+++++.+.|+++|.+|+|+|+|+++..++||+.++++|+++.++++|++...+....
T Consensus 155 ~~l~~il~~~~~~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~ 216 (779)
T PRK11091 155 SLLRSFLDASPDLVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETD 216 (779)
T ss_pred HHHHHHHhcCcceEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHH
Confidence 34566788888889999999999999999999999999999999999999998877665443
No 37
>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=96.20 E-value=0.0031 Score=60.41 Aligned_cols=58 Identities=19% Similarity=0.428 Sum_probs=50.3
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhh
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNC 193 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~ 193 (383)
..+++++..-++++|.+|+|+|+|+++..++||++++++|+.+.+++++.|.......
T Consensus 9 ~~~~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~l~~ 66 (333)
T TIGR02966 9 RAAAQALPDAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHPEFVEYLAA 66 (333)
T ss_pred HHHHHhCcCcEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCHHHHHHHHh
Confidence 4566777777999999999999999999999999999999999999998876655443
No 38
>PRK10060 RNase II stability modulator; Provisional
Probab=96.08 E-value=0.0033 Score=68.12 Aligned_cols=61 Identities=11% Similarity=0.322 Sum_probs=49.1
Q ss_pred hhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCcccccc-CCCChHHHHhhc
Q psy7682 134 LGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLI-HHGDHARFHNCL 194 (383)
Q Consensus 134 ~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~i-Hp~D~~~~~~~l 194 (383)
+...+++++..-|+++|.+|+|+|+++++..++||+.+|++|+++++++ ||+|...+...+
T Consensus 112 ~~~~v~~~~~~gI~i~D~~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~~~~~~ 173 (663)
T PRK10060 112 FAEQVVSEANSVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAASRRNI 173 (663)
T ss_pred HHHHHHhhCCceEEEEeCCCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHHHHHHH
Confidence 3344667677779999999999999999999999999999999998865 566655554444
No 39
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=95.63 E-value=0.014 Score=47.46 Aligned_cols=58 Identities=7% Similarity=0.177 Sum_probs=44.4
Q ss_pred HHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcC
Q psy7682 137 LLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLV 195 (383)
Q Consensus 137 lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~ 195 (383)
.++++++.=++++|.+++|.|.++++..+++..+. .+|+++.++.++.+.+.+...+.
T Consensus 3 ~il~s~~~~i~~vD~~~~I~~~n~~a~~~f~~~~~-~iGr~l~~~~~~~~~~~l~~~i~ 60 (106)
T PF13596_consen 3 NILDSMPIGIIFVDRNLRIRYFNPAAARLFNLSPS-DIGRPLFDIHPPLSYPNLKKIIE 60 (106)
T ss_dssp HHHHHSSSEEEEEETTSBEEEE-SCGC-SS---GG-GTTSBCCCSS-HHHHHHHHHHHH
T ss_pred HHHhcCCCCEEEEcCCCeEEEeChhHhhhcCCChH-HCCCCHHHcCCccchHHHHHHHH
Confidence 46788888899999999999999999999997764 57999999988877777777664
No 40
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=95.15 E-value=0.013 Score=57.35 Aligned_cols=53 Identities=11% Similarity=0.234 Sum_probs=46.7
Q ss_pred hhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCC
Q psy7682 134 LGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGD 186 (383)
Q Consensus 134 ~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D 186 (383)
..+.+++++..-++++|.+|.|+|+|+++..++||+..+++|+.+.++.++.+
T Consensus 8 ~~~~il~~~~~gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~ 60 (348)
T PRK11073 8 DAGQILNSLINSILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFS 60 (348)
T ss_pred hHHHHHhcCcCeEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcch
Confidence 34567777777799999999999999999999999999999999999887654
No 41
>PRK13559 hypothetical protein; Provisional
Probab=95.09 E-value=0.02 Score=56.48 Aligned_cols=60 Identities=13% Similarity=0.149 Sum_probs=47.6
Q ss_pred hhHHHHhhcCcEEEEcC---CccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 135 GPLLLEALEGFLFVVNP---DGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~---dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
...++++...-++++|. +|.|+|+++++..++||+.++++|+++.++.++.+.......+
T Consensus 45 ~~~~~e~~~~~i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~~ 107 (361)
T PRK13559 45 FEQAMEQTRMAMCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAKI 107 (361)
T ss_pred HHHHHHhCCCcEEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHHH
Confidence 34456666666888986 6789999999999999999999999998888877765544433
No 42
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=94.97 E-value=0.015 Score=42.81 Aligned_cols=41 Identities=12% Similarity=0.308 Sum_probs=31.3
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccc
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVY 179 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~ 179 (383)
.+.+++++..-|++++ +|+|+|+++++..++||+ +.|+.+.
T Consensus 3 ~~~l~~~~~~~i~i~d-~~~i~~~N~~~~~l~g~~---~~~~~~~ 43 (64)
T PF13188_consen 3 YRSLFDNSPDGILIID-GGRIIYVNPAFEELFGYS---LEGEDIG 43 (64)
T ss_dssp HHHHHCCSSSEEEEEE-TSBEEEE-HHHHHHHCS----HTCCCHH
T ss_pred HHHHHHcCccceEEEE-CCChHHhhHHHHHHhCCC---CCCCCHH
Confidence 3456777777799999 899999999999999998 5555544
No 43
>KOG3753|consensus
Probab=94.94 E-value=0.014 Score=63.26 Aligned_cols=50 Identities=18% Similarity=0.327 Sum_probs=43.1
Q ss_pred cEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 145 FLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 145 fi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
|+.--+..+.|..|-++...+|||.+.||||+++.+|+||.|+..+...-
T Consensus 333 FtT~HTptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H 382 (1114)
T KOG3753|consen 333 FTTTHTPTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIH 382 (1114)
T ss_pred eEeccCCcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHH
Confidence 44555668999999999999999999999999999999999977666543
No 44
>smart00353 HLH helix loop helix domain.
Probab=94.92 E-value=0.052 Score=38.70 Aligned_cols=43 Identities=28% Similarity=0.363 Sum_probs=37.7
Q ss_pred hHHHhHHHHhhHHHHHHhHhhhhhhhcccccccCCCchhhhhhhhhhhhh
Q psy7682 5 NEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQCL 54 (383)
Q Consensus 5 ~~~~~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~k~~~~~~~~~~~~~~~ 54 (383)
.|++||++.|..+++|.+++... . -..+.+|+.|+..+++.+.
T Consensus 3 ~Er~RR~~~n~~~~~L~~lip~~--~-----~~~k~~k~~iL~~ai~yi~ 45 (53)
T smart00353 3 RERRRRRKINEAFDELRSLLPTL--P-----NNKKLSKAEILRLAIEYIK 45 (53)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCC--C-----CCCCCCHHHHHHHHHHHHH
Confidence 59999999999999999999986 1 3488999999999988774
No 45
>cd00083 HLH Helix-loop-helix domain, found in specific DNA- binding proteins that act as transcription factors; 60-100 amino acids long. A DNA-binding basic region is followed by two alpha-helices separated by a variable loop region; HLH forms homo- and heterodimers, dimerization creates a parallel, left-handed, four helix bundle; the basic region N-terminal to the first amphipathic helix mediates high-affinity DNA-binding; there are several groups of HLH proteins: those (E12/E47) which bind specific hexanucleotide sequences such as E-box (5-CANNTG-3) or StRE 5-ATCACCCCAC-3), those lacking the basic domain (Emc, Id) function as negative regulators since they fail to bind DNA, those (hairy, E(spl), deadpan) which repress transcription although they can bind specific hexanucleotide sequences such as N-box (5-CACGc/aG-3), those which have a COE domain (Collier/Olf-1/EBF) which is involved in both in dimerization and in DNA binding, and those which bind pentanucleotides ACGTG or GCGTG and
Probab=94.84 E-value=0.048 Score=39.75 Aligned_cols=46 Identities=33% Similarity=0.451 Sum_probs=39.4
Q ss_pred chhHHHhHHHHhhHHHHHHhHhhhhhhhcccccccCCCchhhhhhhhhhhhhH
Q psy7682 3 CLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQCLN 55 (383)
Q Consensus 3 ~~~~~~~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~k~~~~~~~~~~~~~~~~ 55 (383)
...||+||++++.++++|.++++... ...+.+|..|+..+++.+..
T Consensus 9 ~~~Er~RR~~~n~~~~~L~~llp~~~-------~~~k~~k~~iL~~a~~yI~~ 54 (60)
T cd00083 9 NLRERRRRERINDAFDELRSLLPTLP-------PSKKLSKAEILRKAVDYIKS 54 (60)
T ss_pred hHHHHHHHHHHHHHHHHHHHHCCCCC-------CCCCCCHHHHHHHHHHHHHH
Confidence 35799999999999999999999871 35889999999999887753
No 46
>PF00010 HLH: Helix-loop-helix DNA-binding domain only nuclear translocator protein (Arnt).; InterPro: IPR011598 The helix-loop-helix (HLH) DNA-binding domain consists of a closed bundle of four helices in a left-handed twist with two crossover connections. The HLH domain directs dimerisation, and is juxtaposed to basic regions to create a DNA interaction interface surface that recognises specific DNA sequences. Basic region/HLH (bHLH) proteins regulate diverse biological pathways []. bHLH proteins include MyoD [], SREBPs (sterol regulatory element binding proteins) [], and yeast Pho4 (phosphatase system) []. In certain proteins the bHLH domain contains a leucine-zipper motif. The bHLH/leucine zipper (bHLHZip) domain specifies dimerisation within a network of proteins and determines sequence-specific DNA binding []. bHLHZip domains occur in the transcription factors Myc, Mad, Max and Usf [, ]. This entry is bHLHZip, which covers the bHLH domain and the leucine zipper motif, when present.; PDB: 1NLW_A 1NKP_D 1A93_A 2A93_A 1AM9_C 3U5V_A 1A0A_B 2QL2_C 1UKL_C 1AN4_B ....
Probab=94.83 E-value=0.033 Score=40.29 Aligned_cols=46 Identities=33% Similarity=0.494 Sum_probs=38.3
Q ss_pred chhHHHhHHHHhhHHHHHHhHhhhhhhhcccccccCCCchhhhhhhhhhhh
Q psy7682 3 CLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQC 53 (383)
Q Consensus 3 ~~~~~~~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~k~~~~~~~~~~~~~~ 53 (383)
...|++||++.+.++++|.+++.... ..-..|.+|+.|++.+++.+
T Consensus 6 ~~~Er~RR~~i~~~~~~L~~llp~~~-----~~~~~k~~K~~iL~~ai~yI 51 (55)
T PF00010_consen 6 NERERRRRDRINDCFDELRELLPSCS-----AGSSRKLSKASILQKAIDYI 51 (55)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCCSSHH-----CCTTSSSSHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhccchh-----ccccccCCHHHHHHHHHHHH
Confidence 35799999999999999999999861 22347899999999987765
No 47
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=94.49 E-value=0.018 Score=58.52 Aligned_cols=56 Identities=14% Similarity=0.301 Sum_probs=48.2
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHH
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARF 190 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~ 190 (383)
.+.+++++..-++++|.+|+|+|+++++..+|||+..+++|+++.+++.+.|....
T Consensus 100 ~~~~~~~~~~~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~~~~~ 155 (430)
T PRK11006 100 FRSGAESLPDAVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPEFTQY 155 (430)
T ss_pred HHHHHHhCCCeEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHHHHHH
Confidence 34567788888999999999999999999999999999999999998876665443
No 48
>KOG3559|consensus
Probab=94.35 E-value=0.019 Score=57.48 Aligned_cols=51 Identities=22% Similarity=0.370 Sum_probs=47.5
Q ss_pred hcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHh
Q psy7682 142 LEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHN 192 (383)
Q Consensus 142 ldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~ 192 (383)
.+.|++..+.|-+|+|..+.|.+++||++.+|+|+++|.+||-+|...++.
T Consensus 224 sNmFmfraslDlkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~ 274 (598)
T KOG3559|consen 224 SNMFMFRASLDLKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRC 274 (598)
T ss_pred cceEEEEeecceEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHH
Confidence 577888889999999999999999999999999999999999999887765
No 49
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=94.03 E-value=0.027 Score=59.43 Aligned_cols=58 Identities=19% Similarity=0.219 Sum_probs=50.3
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHh
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHN 192 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~ 192 (383)
-..+++++..=|+++|.+|+|+++|+++..+||++.++++|+++.++++..+...+.+
T Consensus 82 L~aIL~sm~eGVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~l~~~le 139 (520)
T PRK10820 82 LSALLEALPEPVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAAQLINGFNFLRWLE 139 (520)
T ss_pred HHHHHHhCCCcEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcchHHHHHH
Confidence 3567888777799999999999999999999999999999999999999877554433
No 50
>KOG4029|consensus
Probab=93.80 E-value=0.054 Score=51.00 Aligned_cols=59 Identities=19% Similarity=0.223 Sum_probs=47.1
Q ss_pred hhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccC
Q psy7682 47 QETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQET 111 (383)
Q Consensus 47 ~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~ 111 (383)
..+...+..|+.|=...|.-|.+|..+||.. +. -..||.|..+||+|+.||+.+..+..
T Consensus 108 ~~~~~~n~RER~Rv~~vN~~f~~Lr~~lP~~--~~----~~kklSKveTLr~A~~YI~~L~~lL~ 166 (228)
T KOG4029|consen 108 AQRQARNARERQRVQSVNSAFAELRALLPTE--PP----QSKKLSKVETLRLATSYIRYLTKLLA 166 (228)
T ss_pred hhhhhhhhhhhhcccchhhhhHHHHhcCCCC--CC----cccccCcccchHHHHHHHHHHHHHhc
Confidence 3344555558888899999999999999993 11 04899999999999999999876543
No 51
>KOG0561|consensus
Probab=93.72 E-value=0.079 Score=51.23 Aligned_cols=48 Identities=33% Similarity=0.408 Sum_probs=41.1
Q ss_pred hhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhh
Q psy7682 53 CLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQ 108 (383)
Q Consensus 53 ~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~ 108 (383)
+-+||||=.-+|+-|.-|+.|||- .+ ..||.|++||+.|.+|+-.+..
T Consensus 65 NsNERRRMQSINAGFqsLr~LlPr---~e-----GEKLSKAAILQQTa~yI~~Le~ 112 (373)
T KOG0561|consen 65 NSNERRRMQSINAGFQSLRALLPR---KE-----GEKLSKAAILQQTADYIHQLEG 112 (373)
T ss_pred cchHHHHHHhhhHHHHHHHHhcCc---cc-----chhhHHHHHHHHHHHHHHHHHh
Confidence 345888889999999999999999 33 3799999999999999987653
No 52
>KOG1318|consensus
Probab=93.68 E-value=0.19 Score=51.12 Aligned_cols=84 Identities=21% Similarity=0.339 Sum_probs=58.0
Q ss_pred hHHHhHHHHhhHHHHHHhHhhhhhhhcccccccCCCchhhhhhhhhhhhhHHHHHHHhhhHhHHHHHhhccccccccccc
Q psy7682 5 NEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQCLNEKRRREQENNYIEELAELISAASFAESMS 84 (383)
Q Consensus 5 ~~~~~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~k~~~~~~~~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~ 84 (383)
.|+|||+.=|.+|-||..||.-+. .++ .|..|-.||++.++-++.-++-+++.- ++...+..|
T Consensus 240 VERRRR~nIN~~IkeLg~liP~~~-~~~-----~~~nKgtILk~s~dYIr~Lqq~~q~~~-E~~~rqk~l---------- 302 (411)
T KOG1318|consen 240 VERRRRENINDRIKELGQLIPKCN-SED-----MKSNKGTILKASCDYIRELQQTLQRAR-ELENRQKKL---------- 302 (411)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCC-cch-----hhcccchhhHHHHHHHHHHHHHHHHHH-HHHhhhhHH----------
Confidence 699999999999999999999761 222 344488999999998865443333222 222222222
Q ss_pred ccCCCCChhhhhHHHHHHHHhhhhcc
Q psy7682 85 SLAVKPDKCAILQETVNQIRNIKQQE 110 (383)
Q Consensus 85 ~~~~klDK~siLr~ai~~lr~~~~~~ 110 (383)
. -+..+|++.|++|+.+....
T Consensus 303 ----e-~~n~~L~~rieeLk~~~~~~ 323 (411)
T KOG1318|consen 303 ----E-STNQELALRIEELKSEAGRH 323 (411)
T ss_pred ----H-hHHHHHHHHHHHHHHHHHHh
Confidence 1 46789999999999866543
No 53
>KOG2483|consensus
Probab=92.97 E-value=0.15 Score=48.27 Aligned_cols=56 Identities=18% Similarity=0.351 Sum_probs=44.5
Q ss_pred hhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhcc
Q psy7682 48 ETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQE 110 (383)
Q Consensus 48 ~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~ 110 (383)
.+..|+.-||+||+++...|+.|+..+|. .++. ..=+.++||+-|..|+..+....
T Consensus 59 ~R~~HN~LEk~RRahlk~~~~~Lk~~vP~---~~~~----~~~t~lsiL~kA~~~i~~l~~~~ 114 (232)
T KOG2483|consen 59 SRAHHNALEKRRRAHLKDCFESLKDSVPL---LNGE----TRSTTLSILDKALEHIQSLERKS 114 (232)
T ss_pred chhhhhhhhHHHHHHHHHHHHHHHHhCCC---CCCc----chhhhhHhhhhHHHHHHHHHhHH
Confidence 35567777999999999999999999999 3322 22238999999999999877543
No 54
>PRK13558 bacterio-opsin activator; Provisional
Probab=92.91 E-value=0.25 Score=53.20 Aligned_cols=59 Identities=19% Similarity=0.222 Sum_probs=47.4
Q ss_pred hHHHHhhcCcEEEEc---CCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhc
Q psy7682 136 PLLLEALEGFLFVVN---PDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCL 194 (383)
Q Consensus 136 ~lll~aldgfi~vvs---~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l 194 (383)
..+++.....+++++ .+|.|+|+|+.+..++||++++++|+++.++.||++.......+
T Consensus 151 ~~~~~~~~~gi~~~d~~~~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~~~ 212 (665)
T PRK13558 151 ERALDEAPVGITIADATLPDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVAEL 212 (665)
T ss_pred HHHHhcCCccEEEEcCCCCCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHHHH
Confidence 345555555577776 37999999999999999999999999999999988876655443
No 55
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=91.91 E-value=0.096 Score=54.34 Aligned_cols=52 Identities=17% Similarity=0.309 Sum_probs=45.5
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCCh
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDH 187 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~ 187 (383)
..++++++.-++++|.+|.|++++++...++||.+.+++|+++.+++++++.
T Consensus 265 ~~i~~~~~~~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~~ 316 (607)
T PRK11360 265 ELILESIADGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELFPPNTP 316 (607)
T ss_pred HHHHHhccCeEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHHHHcCCchh
Confidence 4556677777999999999999999999999999999999999998876543
No 56
>KOG3960|consensus
Probab=91.89 E-value=0.28 Score=46.40 Aligned_cols=48 Identities=23% Similarity=0.343 Sum_probs=39.2
Q ss_pred hHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhc
Q psy7682 54 LNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQ 109 (383)
Q Consensus 54 ~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~ 109 (383)
.-||||=.|.|+.|+.|+.---.+ | ..+|=|..|||-||+||-.+..+
T Consensus 124 MRERRRLkKVNEAFE~LKRrT~~N--P------NQRLPKVEILRsAI~YIE~Lq~L 171 (284)
T KOG3960|consen 124 MRERRRLKKVNEAFETLKRRTSSN--P------NQRLPKVEILRSAIRYIERLQAL 171 (284)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCCC--c------cccccHHHHHHHHHHHHHHHHHH
Confidence 347888899999999999875442 3 37999999999999999876643
No 57
>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=91.73 E-value=0.32 Score=33.99 Aligned_cols=39 Identities=15% Similarity=0.161 Sum_probs=34.0
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
++...+.+|.++++++.. ..++||.+.+++|.+++++++
T Consensus 4 ~i~~~d~~~~~~~~n~~~--~~~~g~~~~~~~~~~~~~~~~ 42 (103)
T cd00130 4 GVIVLDLDGRILYANPAA--EQLLGYSPEELIGKSLLDLIH 42 (103)
T ss_pred eEEEECCCCcEEEECHHH--HHHhCCCHHHHcCccHHHhcC
Confidence 456678899999999998 789999999999999888763
No 58
>KOG2588|consensus
Probab=91.50 E-value=0.15 Score=56.36 Aligned_cols=53 Identities=26% Similarity=0.422 Sum_probs=46.7
Q ss_pred hhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhc
Q psy7682 48 ETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQ 109 (383)
Q Consensus 48 ~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~ 109 (383)
++..|+.+|||=|.-+|.-|.||+.++|. . ..|+-|.++||.|++|++-....
T Consensus 276 kRtAHN~IEKRYRsSINDKI~eLk~lV~g---~------~aKl~kSavLr~ai~~i~dl~~~ 328 (953)
T KOG2588|consen 276 KRTAHNIIEKRYRSSINDKIIELKDLVPG---T------EAKLNKSAVLRKAIDYIEDLQGY 328 (953)
T ss_pred ccchhhHHHHHhhcchhHHHHHHHHhcCc---c------HhhhhhhhhHHHHHHHHHHhhcc
Confidence 36789999999999999999999999998 2 37999999999999999965443
No 59
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=91.33 E-value=0.15 Score=55.84 Aligned_cols=54 Identities=17% Similarity=0.281 Sum_probs=45.6
Q ss_pred HHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCC-CChHHH
Q psy7682 137 LLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHH-GDHARF 190 (383)
Q Consensus 137 lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp-~D~~~~ 190 (383)
.++++....+++++.+|.|+|+++++..++||+.++++|+.+.+++|+ .+....
T Consensus 140 ~~~~~~~~~i~~~d~~g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~~~~~~~ 194 (799)
T PRK11359 140 IAVDHLDRPVIVLDPERRIVQCNRAFTEMFGYCISEASGMQPDTLLNIPEFPADN 194 (799)
T ss_pred HHHhcCCCcEEEEcCCCcEEEEChhhHhhhCCCHHHHCCCChHHhcCCCCCcHHH
Confidence 456777778999999999999999999999999999999999998764 444333
No 60
>PLN03217 transcription factor ATBS1; Provisional
Probab=90.79 E-value=0.33 Score=38.42 Aligned_cols=45 Identities=31% Similarity=0.430 Sum_probs=34.6
Q ss_pred HHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhh
Q psy7682 60 REQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQ 108 (383)
Q Consensus 60 R~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~ 108 (383)
-|++|+.+..|..+||.. .. ..-..|..-+-||++||.|||.++.
T Consensus 19 ddqi~dLvsKLq~llPe~---r~-~r~s~k~saskvLqEtC~YIrsLhr 63 (93)
T PLN03217 19 EDQINDLIIKLQQLLPEL---RD-SRRSDKVSAARVLQDTCNYIRNLHR 63 (93)
T ss_pred HHHHHHHHHHHHHHChHH---Hh-hhccccccHHHHHHHHHHHHHHHHH
Confidence 478999999999999992 11 0123577778899999999998763
No 61
>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=90.41 E-value=0.2 Score=39.47 Aligned_cols=38 Identities=8% Similarity=0.096 Sum_probs=32.3
Q ss_pred EEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 287 TMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 287 ~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
+.-.+.||+|+++++.. ..++|+.+++++|+++.++++
T Consensus 8 i~v~D~~~~i~~~N~~~--~~~~~~~~~~~~G~~~~~~~~ 45 (110)
T PF08448_consen 8 IFVIDPDGRIVYANQAA--AELFGVSPEELIGRSLFDLLP 45 (110)
T ss_dssp EEEEETTSBEEEE-HHH--HHHHTSTHHHHTTSBHHHHSC
T ss_pred eEEECCCCEEEEEHHHH--HHHhCCCHHHHhhccchhccc
Confidence 33448999999999998 789999999999999999873
No 62
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=89.45 E-value=0.21 Score=52.43 Aligned_cols=47 Identities=26% Similarity=0.540 Sum_probs=42.7
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCcccccc
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLI 182 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~i 182 (383)
+.+++.++.=|+|+|.+|+++|.|......+|+++++++|+++.|++
T Consensus 120 ~~il~~~~~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~ 166 (560)
T COG3829 120 EAILDSIDDGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGKHLLDVV 166 (560)
T ss_pred HHHHhhccCceEEEcCCCcEEEEcHHHHHHhCCCHHHHcCCcHHHHH
Confidence 45667777779999999999999999999999999999999999886
No 63
>PF12860 PAS_7: PAS fold
Probab=88.96 E-value=0.13 Score=42.18 Aligned_cols=42 Identities=19% Similarity=0.334 Sum_probs=36.3
Q ss_pred hhcCcEEEEcCCccEEEeecccccccCcccccc-cCCcccccc
Q psy7682 141 ALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEV-LGKSVYNLI 182 (383)
Q Consensus 141 aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el-~G~s~~d~i 182 (383)
+++.=|++.|.+|+++|.|+.+..++|+++..+ .|.++-+++
T Consensus 3 ~l~~Gv~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~ 45 (115)
T PF12860_consen 3 SLPQGVAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASFRDLL 45 (115)
T ss_pred CcCceEEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCHHHHH
Confidence 444448899999999999999999999999998 798886664
No 64
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=85.71 E-value=0.72 Score=37.73 Aligned_cols=52 Identities=31% Similarity=0.528 Sum_probs=43.9
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCCh
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDH 187 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~ 187 (383)
..++++....+++++.+|.++|+++.+..++||...+..+....++.+....
T Consensus 115 ~~~~~~~~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~ 166 (232)
T COG2202 115 RALLEASPDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLSDLIHPEDE 166 (232)
T ss_pred HHHHhhCCceEEEEeCCCCEEEeCHHHHHHhCCChHHhcCCChhheEecCCC
Confidence 4577777777888999999999999999999999888888888887665554
No 65
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=85.70 E-value=0.59 Score=48.81 Aligned_cols=51 Identities=24% Similarity=0.460 Sum_probs=42.7
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCccc--ccccCCccccccCCCC
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSR--QEVLGKSVYNLIHHGD 186 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~--~el~G~s~~d~iHp~D 186 (383)
+.+++++..=++++|.+|+|+++++++..+||+.. .+++|+.+.+++++.+
T Consensus 225 ~~il~~~~egii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~ 277 (545)
T PRK15053 225 EALFSSVYEGLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPAD 277 (545)
T ss_pred HHHHHHhCceEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCch
Confidence 34566656668899999999999999999999976 4799999999887654
No 66
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=84.92 E-value=0.41 Score=51.75 Aligned_cols=46 Identities=17% Similarity=0.398 Sum_probs=40.6
Q ss_pred HHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccC
Q psy7682 138 LLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIH 183 (383)
Q Consensus 138 ll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iH 183 (383)
++++++.=|+++|.+|+|+|+|+++..+||++..+++|+++.++++
T Consensus 208 il~~~~~gVl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~ 253 (638)
T PRK11388 208 LLESMDDGVIAWDEQGNLQFLNAQAARLLRLDATASQGRAITELLT 253 (638)
T ss_pred HHhccCCcEEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHHHHhc
Confidence 4555555589999999999999999999999999999999999875
No 67
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=84.67 E-value=0.91 Score=46.99 Aligned_cols=56 Identities=16% Similarity=0.299 Sum_probs=45.6
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcc---cccccCCccccccCCCChHHHH
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYS---RQEVLGKSVYNLIHHGDHARFH 191 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~---~~el~G~s~~d~iHp~D~~~~~ 191 (383)
+.++++++.-|+++|.+|+|+|+++++..+||++ ..+.+|..+.++.++.+...+.
T Consensus 224 ~~il~~~~~gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~~~~~~~~ 282 (542)
T PRK11086 224 QAMLQSIKEGVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPVSRLKEVL 282 (542)
T ss_pred HHHHHHhcCcEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCchhHHHHH
Confidence 4567777777999999999999999999999765 4578899998888766654443
No 68
>PRK13557 histidine kinase; Provisional
Probab=84.33 E-value=0.77 Score=47.27 Aligned_cols=33 Identities=9% Similarity=0.044 Sum_probs=30.0
Q ss_pred CCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 291 DRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 291 sldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
+.||+++|+++.+ ..++||.++|++|++++.++
T Consensus 50 ~~~g~i~~~N~a~--~~~~G~~~~e~~g~~~~~l~ 82 (540)
T PRK13557 50 QPDNPIVFANRAF--LEMTGYAAEEIIGNNCRFLQ 82 (540)
T ss_pred CCCCCEEEEcHHH--HHHhCCCHHHhcCCChHhhc
Confidence 4689999999998 89999999999999988776
No 69
>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=83.58 E-value=0.46 Score=48.00 Aligned_cols=58 Identities=14% Similarity=0.186 Sum_probs=49.7
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhh
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNC 193 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~ 193 (383)
+.+++++..-+++++.+|.++|+++++..++|+...+..+..+.+++||++...+...
T Consensus 133 ~~~~~~~~~~i~~~d~~~~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~ 190 (494)
T TIGR02938 133 ESVVDAAPVAFVLLDPTGRVILDNQEYKKLATDLRVKEPAHTVLDLLREAWREALAEN 190 (494)
T ss_pred HHHHhcccceEEEEcCCCCEEEechhHHHhhchhhhhHHHHHHHHHhhHHhhhhhhhc
Confidence 4566666667889999999999999999999999999999999999999887766544
No 70
>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=83.38 E-value=2.2 Score=31.26 Aligned_cols=37 Identities=11% Similarity=0.165 Sum_probs=31.7
Q ss_pred EEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 287 TMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 287 ~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
+.-.+.+|+++++++.. ..++||.+.+++|+++.+++
T Consensus 16 ~~~~d~~~~i~~~n~~~--~~~~g~~~~~~~~~~~~~~~ 52 (124)
T TIGR00229 16 IIVIDLEGNILYVNPAF--EEIFGYSAEELIGRNVLELI 52 (124)
T ss_pred EEEEcCCCcEEEEchHH--HHHhCCChHHhcCcchhhhc
Confidence 33457889999999998 79999999999999988865
No 71
>PRK10060 RNase II stability modulator; Provisional
Probab=82.86 E-value=0.79 Score=49.77 Aligned_cols=43 Identities=14% Similarity=0.156 Sum_probs=36.3
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCCCC
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCPNS 330 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~~~ 330 (383)
-+.-.+.+|+|+++++.. ..++||.++||+|+++++++.++++
T Consensus 123 gI~i~D~~g~I~~~N~a~--~~l~Gy~~~eliG~~~~~l~~~~~~ 165 (663)
T PRK10060 123 VIVILDSRGNIQRFNRLC--EEYTGLKEHDVIGQSVFKLFMSRRE 165 (663)
T ss_pred eEEEEeCCCCEEEEcHHH--HHHHCcCHHHHcCCCHHHHhCChhh
Confidence 344557899999999998 8999999999999999888755554
No 72
>KOG3560|consensus
Probab=80.78 E-value=0.98 Score=47.23 Aligned_cols=51 Identities=8% Similarity=0.118 Sum_probs=44.1
Q ss_pred CceeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCCCCchhHHH
Q psy7682 283 IEQFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCPNSPLTSTK 336 (383)
Q Consensus 283 ~~~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~~~~~~~~~ 336 (383)
++.|..-.+.+|.+.|..+.+ ..||||...|++-.|+||++ |.+|..|+-+
T Consensus 120 LnGF~lVvt~eg~ifyAS~tI--edYLGFhQSDV~HQsVYdlI-HseDR~dfqr 170 (712)
T KOG3560|consen 120 LNGFALVVTAEGEIFYASATI--EDYLGFHQSDVMHQSVYDLI-HSEDRQDFQR 170 (712)
T ss_pred cCCeEEEEecCceEEEehhhH--HhhhcccccchhhhhHHHHh-hhhhHHHHHH
Confidence 578999999999999999999 89999999999999999998 4555455544
No 73
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=78.40 E-value=0.75 Score=49.13 Aligned_cols=57 Identities=18% Similarity=0.299 Sum_probs=51.6
Q ss_pred hcCcEEEEc-CCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCCC
Q psy7682 142 LEGFLFVVN-PDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPSS 198 (383)
Q Consensus 142 ldgfi~vvs-~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~~ 198 (383)
-.|.++|++ .+|.|+-+|+|+..+||.++++|+|+++-+++-..-...++..|....
T Consensus 28 PHG~Llvl~~~~~~Vlq~S~N~~~~LG~~~e~l~~~tl~~vl~~~qv~~l~~~l~~~~ 85 (750)
T COG4251 28 PHGALLVLDEADLMVLQASENCANILGREPEDLLGRTLGAVLTSEQVPPLQSALTVGG 85 (750)
T ss_pred CceeEEEeecCCchhhhhhhhHHHHhCCChhhhhcCCHHHhcchhhccHHHHhccccC
Confidence 467789999 599999999999999999999999999999999899999998887654
No 74
>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=77.36 E-value=1.9 Score=27.53 Aligned_cols=38 Identities=16% Similarity=0.153 Sum_probs=31.8
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
.+...+.++.+.+++... ..++|+.+.++.|.++.+++
T Consensus 13 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~ 50 (67)
T smart00091 13 GIFVLDLDGRILYANPAA--EELLGYSPEELIGKSLLELI 50 (67)
T ss_pred eEEEEcCCCeEEEECHHH--HHHhCCCHHHHcCCcHHHhc
Confidence 344567889999999988 78999999999999887775
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=77.32 E-value=1.9 Score=36.77 Aligned_cols=51 Identities=8% Similarity=0.160 Sum_probs=44.3
Q ss_pred EEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHH-HHhhcCC
Q psy7682 146 LFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHAR-FHNCLVP 196 (383)
Q Consensus 146 i~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~-~~~~l~~ 196 (383)
++-+|.+|.|+.-+.+=..+-|++++..+|+++|.=|-|+=... |...+..
T Consensus 29 vI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~~~~~f~gRF~~ 80 (124)
T TIGR02373 29 AIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCTDIPEFSGRFME 80 (124)
T ss_pred eEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhcccccCCHHHHHHHHh
Confidence 78899999999999999999999999999999999888886444 6666544
No 76
>KOG4304|consensus
Probab=75.60 E-value=3.4 Score=39.62 Aligned_cols=51 Identities=37% Similarity=0.456 Sum_probs=40.2
Q ss_pred cchhHHHhHHHHhhHHHHHHhHhhhhhhhcccccccCCCchhhhhhhhhhhhh
Q psy7682 2 KCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQCL 54 (383)
Q Consensus 2 ~~~~~~~~~~~~~~~~~e~~~~~~a~~~~~~~~~~~~k~~~~~~~~~~~~~~~ 54 (383)
|=..|||||.-=|++++||.+||--. +..+ ..-.-|-+|--||..+|+|-+
T Consensus 36 Kpl~EKkRRaRIN~~L~eLK~Li~e~-~~~~-~~~~sklEKAdILEltV~hL~ 86 (250)
T KOG4304|consen 36 KPLLEKKRRARINRCLDELKDLIPEA-LKKD-GQRHSKLEKADILELTVNHLR 86 (250)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHHH-Hhhc-chhhhhhHHHHHHHHHHHHHH
Confidence 34689999999999999999999875 3222 222456778999999999985
No 77
>PRK13558 bacterio-opsin activator; Provisional
Probab=74.45 E-value=3.5 Score=44.37 Aligned_cols=34 Identities=12% Similarity=0.033 Sum_probs=29.9
Q ss_pred CCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 291 DRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 291 sldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
..+|.++|+++.+ ..++||.+++++|++++++++
T Consensus 168 ~~dg~i~~~N~~~--~~l~G~~~eel~g~~~~~l~~ 201 (665)
T PRK13558 168 LPDEPLIYINDAF--ERITGYSPDEVLGRNCRFLQG 201 (665)
T ss_pred CCCCcEEEEcHHH--HHHhCcCHHHHcCCCHHHhcC
Confidence 4689999999998 899999999999999877653
No 78
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=73.33 E-value=2.7 Score=42.25 Aligned_cols=63 Identities=17% Similarity=0.357 Sum_probs=54.1
Q ss_pred hhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHhhcCCC
Q psy7682 134 LGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHNCLVPS 197 (383)
Q Consensus 134 ~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~~l~~~ 197 (383)
+...+.-..|| ++..|..|+|+-++..+.++||.+.++++|+++.+.+--+|.-.+.+.+...
T Consensus 113 L~SvlayMtDG-ViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y~~~dL~e~~ 175 (459)
T COG5002 113 LDSVLAYMTDG-VIATDRRGKIILINKPALKMLGVSKEDALGRSILELLKIEDTYTFEDLVEKN 175 (459)
T ss_pred HHHHHHHHcCc-eEeecCCCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccceeHHHHHhcC
Confidence 34444555678 6678999999999999999999999999999999999999999998887654
No 79
>PRK13559 hypothetical protein; Provisional
Probab=71.20 E-value=4.2 Score=39.92 Aligned_cols=32 Identities=13% Similarity=0.023 Sum_probs=28.3
Q ss_pred CCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 292 RSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 292 ldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
.+|.++++++.+ ..++||.++|++|+++..++
T Consensus 64 ~~g~i~~~N~a~--~~l~G~~~~e~iG~~~~~l~ 95 (361)
T PRK13559 64 PDLPIVLANQAF--LDLTGYAAEEVVGRNCRFLQ 95 (361)
T ss_pred CCCcEEEEchHH--HHHhCCCHHHHcCCChhhhc
Confidence 478999999998 89999999999999987554
No 80
>COG3290 CitA Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]
Probab=66.53 E-value=6.2 Score=41.65 Aligned_cols=63 Identities=11% Similarity=0.297 Sum_probs=52.0
Q ss_pred hhHHHHhhcCcEEEEcCCccEEEeecccccccCcccc--cccCCccccccCC-CChHHHHhhcCCC
Q psy7682 135 GPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQ--EVLGKSVYNLIHH-GDHARFHNCLVPS 197 (383)
Q Consensus 135 ~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~--el~G~s~~d~iHp-~D~~~~~~~l~~~ 197 (383)
.+.++++...=|+++|..|.|.-++.+...+||+.+. +++|+++-+.+-| -|.+++.+...+.
T Consensus 217 r~A~l~si~EGviAvd~~G~It~~N~~A~~ll~~~~~~~~~ig~~i~~v~~p~~~l~~vl~~~~~~ 282 (537)
T COG3290 217 RQAMLQSIKEGVIAVDKKGVITLINQAAQKLLGLRQPSGDPIGRSIVEVLPPDSDLPEVLETGKPQ 282 (537)
T ss_pred HHHHHHHhhceEEEECCCCeEeehhHHHHHHhcccCcCcccccccceEeeccccCcHHHHhcCCcc
Confidence 4456667666699999999999999999999999976 7999999999997 5777776655543
No 81
>COG3852 NtrB Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]
Probab=65.27 E-value=2.9 Score=41.23 Aligned_cols=54 Identities=15% Similarity=0.305 Sum_probs=46.9
Q ss_pred chhhHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCC
Q psy7682 133 VLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGD 186 (383)
Q Consensus 133 ~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D 186 (383)
.....+++++-.=++++|.+|.|.|++++++.+||.+..-|.|+++-+++...-
T Consensus 7 ~~~~~~Ln~~~~pVl~vd~~~~i~yaN~aAe~~~~~Sa~~L~~~~l~~l~~~gs 60 (363)
T COG3852 7 PLAGAILNNLINPVLLVDDELAIHYANPAAEQLLAVSARRLAGTRLSELLPFGS 60 (363)
T ss_pred CccHhHHhccCCceEEEcCCCcEEecCHHHHHHHHHHHHHHhcCChHHHcCCCc
Confidence 344567788888899999999999999999999999999999999988876654
No 82
>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=60.68 E-value=3 Score=39.59 Aligned_cols=38 Identities=11% Similarity=-0.007 Sum_probs=33.5
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
-+.-.+.+|+++++++++ ..++||.+.+++|+.+.+++
T Consensus 18 ~i~~~d~~g~i~~~N~~~--~~~~g~~~~~~~g~~~~~~~ 55 (333)
T TIGR02966 18 AVVVLDEEGQIEWCNPAA--ERLLGLRWPDDLGQRITNLI 55 (333)
T ss_pred cEEEECCCCcEEEEcHHH--HHHhCCChHHHcCCcHHHHc
Confidence 355667899999999998 89999999999999988775
No 83
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=60.63 E-value=5.5 Score=43.76 Aligned_cols=37 Identities=16% Similarity=0.148 Sum_probs=33.0
Q ss_pred EEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 287 TMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 287 ~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
+.-.+.+|.+++++..+ ..++||.++|++|+++++++
T Consensus 168 i~~~D~~g~i~~~N~a~--~~l~G~~~~eliG~~~~~l~ 204 (779)
T PRK11091 168 VYYRNEDGEFSGCNRAM--ELLTGKSEKQLIGLTPKDVY 204 (779)
T ss_pred EEEECCCCcEEeEcHHH--HHHhCcCHHHHcCCChHHhC
Confidence 44467899999999998 89999999999999998886
No 84
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=51.00 E-value=4.6 Score=39.28 Aligned_cols=40 Identities=10% Similarity=0.003 Sum_probs=34.3
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecC
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTC 327 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~ 327 (383)
-+.-.+.+|++++++..+ ..++||.+.+++|+.+.+++++
T Consensus 19 gi~~~d~~~~i~~~N~a~--~~~~g~~~~~~~g~~~~~~~~~ 58 (348)
T PRK11073 19 SILLLDDDLAIHYANPAA--QQLLAQSSRKLFGTPLPELLSY 58 (348)
T ss_pred eEEEECCCCeEeeEcHHH--HHHhCCCHHHHcCCCHHHHcCc
Confidence 345567899999999998 8999999999999998888743
No 85
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=50.90 E-value=14 Score=37.54 Aligned_cols=57 Identities=21% Similarity=0.275 Sum_probs=50.0
Q ss_pred hHHHHhhcCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCCChHHHHh
Q psy7682 136 PLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHGDHARFHN 192 (383)
Q Consensus 136 ~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~D~~~~~~ 192 (383)
..+|++++.=++.||..|.|...++++...+|.+++++.|+.+..++.--+....-+
T Consensus 83 ~aLL~al~~pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~~~l~ 139 (511)
T COG3283 83 SALLEALPEPVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFLRWLE 139 (511)
T ss_pred HHHHHhCCCceEEecccCceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHHHHHh
Confidence 457889999999999999999999999999999999999999988887777655443
No 86
>PF08269 Cache_2: Cache domain; InterPro: IPR013163 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins, including the animal dihydropyridine-sensitive voltage-gated Ca2+ channel; alpha-2delta subunit, and various bacterial chemotaxis receptors. The name Cache comes from CAlcium channels and CHEmotaxis receptors. This domain consists of an N-terminal part with three predicted strands and an alpha-helix, and a C-terminal part with a strand dyad followed by a relatively unstructured region. The N-terminal portion of the (unpermuted) Cache domain contains three predicted strands that could form a sheet analogous to that present in the core of the PAS domain structure. Cache domains are particularly widespread in bacteria, with Vibrio cholerae. The animal calcium channel alpha-2delta subunits might have acquired a part of their extracellular domains from a bacterial source []. The Cache domain appears to have arisen from the GAF-PAS fold despite their divergent functions []. This entry is composed of the type 2 Cache domain.; PDB: 2QHK_A 4EXO_A.
Probab=46.88 E-value=1e+02 Score=24.23 Aligned_cols=34 Identities=26% Similarity=0.488 Sum_probs=17.5
Q ss_pred cCcEEEEcCCccEEEeecccccccCcccccccCCccccccCCC
Q psy7682 143 EGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLIHHG 185 (383)
Q Consensus 143 dgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~iHp~ 185 (383)
+|+++|.|.+|.++.- |. ..++.|+++.|+--+.
T Consensus 56 ~gY~fi~d~~g~~l~h-p~--------~p~~~G~n~~~~~D~~ 89 (95)
T PF08269_consen 56 DGYFFIYDMDGVVLAH-PS--------NPELEGKNLSDLKDPN 89 (95)
T ss_dssp TB--EEE-TTSBEEEE-SS---------GGGTT-B-TT-B-TT
T ss_pred CCeEEEEeCCCeEEEc-CC--------CcccCCcccccCCCCC
Confidence 5678899999976542 21 2478888888876554
No 87
>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=45.50 E-value=5.5 Score=32.97 Aligned_cols=32 Identities=3% Similarity=-0.080 Sum_probs=28.7
Q ss_pred CCCcEEEEcCCCCccccCCcc---cccccCCCcccee
Q psy7682 292 RSGTIIGMDTSGVSQTHTQYL---NKAVACKTSATVW 325 (383)
Q Consensus 292 ldgkf~~vD~r~l~~~ilGY~---p~eLiG~S~yd~~ 325 (383)
.++++++++.++ ..+||.. +++++|+++-+++
T Consensus 24 ~~~~I~~~S~N~--~~~lg~~~~~~~~llG~~l~~ll 58 (110)
T PF08446_consen 24 DDLRIVQASENI--AELLGIPPELPEELLGRPLSELL 58 (110)
T ss_dssp TTTBEEEEETTH--HHHHSS----HHHHTTCBHHHHS
T ss_pred CCCEEEEEcCCH--HHHhCCccccchhhcccCHHHHh
Confidence 379999999998 8999999 9999999998887
No 88
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=41.45 E-value=6.6 Score=39.80 Aligned_cols=38 Identities=8% Similarity=-0.016 Sum_probs=32.8
Q ss_pred EEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 287 TMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 287 ~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
+.-.+.+|++++|++.+ ..++||...|++|+++.+++.
T Consensus 111 i~~~d~~g~i~~~N~~a--~~l~g~~~~~~~g~~~~~~~~ 148 (430)
T PRK11006 111 VVLTTEEGNIFWCNGLA--QQLLGFRWPEDNGQNILNLLR 148 (430)
T ss_pred EEEEcCCCceeHHHHHH--HHHhCCCChHhCCCcHHHHhc
Confidence 44456799999999998 899999999999999887764
No 89
>KOG4447|consensus
Probab=40.66 E-value=20 Score=31.72 Aligned_cols=68 Identities=21% Similarity=0.220 Sum_probs=50.6
Q ss_pred ccCCCchhhhh----hhhhhhhhHHHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccC
Q psy7682 36 LAVKPDKCAIL----QETVNQCLNEKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQET 111 (383)
Q Consensus 36 ~~~k~~~~~~~----~~~~~~~~~ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~ 111 (383)
++.++|+-.-+ +.++-++.-|++|=.-+|+.|..|...+|-- | ..||.|+..|++|..|+-.+.....
T Consensus 62 lr~~~~~~~~~dE~q~qrv~anvrerqRtqsLn~AF~~lr~iiptl--P------sdklSkiqtLklA~ryidfl~~vl~ 133 (173)
T KOG4447|consen 62 LRIGTDSIQSLDELQKQRVMANVRERQRTQSLNEAFAALRKIIPTL--P------SDKLSKIQTLKLAARYIDFLYQVLQ 133 (173)
T ss_pred cccCCCchhhHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhcCCC--C------ccccccccchhhcccCCchhhhccc
Confidence 33455544333 3366677778899999999999999999982 2 2699999999999988876655443
No 90
>COG5000 NtrY Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]
Probab=37.09 E-value=25 Score=37.99 Aligned_cols=38 Identities=11% Similarity=0.200 Sum_probs=34.7
Q ss_pred cEEEEcCCccEEEeecccccccCcccccccCCcccccc
Q psy7682 145 FLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLI 182 (383)
Q Consensus 145 fi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~i 182 (383)
=+++++.+|.|.-++++...+||.+-.+|+|+|+.++.
T Consensus 382 GVi~~d~~g~i~t~N~~ae~~l~~~~~~~~G~~lsa~a 419 (712)
T COG5000 382 GVIGFDNRGCITTVNPSAEQILGKPFDQLLGQSLSAIA 419 (712)
T ss_pred eEEEEcCCCeeEeecchHHHHhcCChhHhhcchhhhhh
Confidence 37889999999999999999999999999999987764
No 91
>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=35.56 E-value=28 Score=29.83 Aligned_cols=34 Identities=21% Similarity=0.203 Sum_probs=30.5
Q ss_pred EEEeCCCCcEEEEcCCCCccccCCcccccccCCCcc
Q psy7682 287 TMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSA 322 (383)
Q Consensus 287 ~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~y 322 (383)
+.+.+.+|+++..+..- +.+.|+.|+.++|++.|
T Consensus 29 vI~lD~~G~V~~YN~aE--~~~sg~~p~~vlGr~FF 62 (124)
T TIGR02373 29 AIQLDGSGVILRYNAAE--GRITGRDPERVIGRNFF 62 (124)
T ss_pred eEEECCCCEEEEEecch--hhhcCCChhhhhchhhh
Confidence 67899999999988776 78999999999999965
No 92
>KOG1229|consensus
Probab=34.97 E-value=10 Score=39.17 Aligned_cols=43 Identities=12% Similarity=0.312 Sum_probs=35.9
Q ss_pred HhhcCcEEEEcCCccEEEeecccccccCcccccccCCcccccc
Q psy7682 140 EALEGFLFVVNPDGYVNFCTENIKSFIRYSRQEVLGKSVYNLI 182 (383)
Q Consensus 140 ~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~el~G~s~~d~i 182 (383)
+..+.-|=+.+.|..|.||+++...+.||...||+|+...|+-
T Consensus 164 D~c~eAiEI~~ddhViQYVNpAfE~mmG~hkgEliGke~adlp 206 (775)
T KOG1229|consen 164 DECDEAIEICDDDHVIQYVNPAFENMMGCHKGELIGKEEADLP 206 (775)
T ss_pred hhhhhhheeccchhHHHHhcHHHHhhhcchhhhhcCCchhhcc
Confidence 3344446667778999999999999999999999999988763
No 93
>PRK09959 hybrid sensory histidine kinase in two-component regulatory system with EvgA; Provisional
Probab=28.92 E-value=44 Score=38.70 Aligned_cols=40 Identities=18% Similarity=0.171 Sum_probs=34.1
Q ss_pred chhhHHHHhhcCcEEEEcCCccEEEeecccccccCccccc
Q psy7682 133 VLGPLLLEALEGFLFVVNPDGYVNFCTENIKSFIRYSRQE 172 (383)
Q Consensus 133 ~~~~lll~aldgfi~vvs~dG~i~yvS~sv~~~LGy~~~e 172 (383)
.+.+.+++++..-|+++|.+|+|+++++++..++|+....
T Consensus 576 ~~~~~i~~~~~~~i~~~d~~g~i~~~N~~~~~~~g~~~~~ 615 (1197)
T PRK09959 576 SFRKALSDSLPNPTYVVNWQGNVISHNSAFEHYFTADYYK 615 (1197)
T ss_pred HHHHHHHhhCCCcEEEEcCCCcEEEehHHHHHHhCccccc
Confidence 3566788888888999999999999999999999976433
No 94
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=27.49 E-value=55 Score=25.93 Aligned_cols=36 Identities=8% Similarity=-0.021 Sum_probs=24.1
Q ss_pred EEEeCCCCcEEEEcCCCCccccCCcccccccCCCcccee
Q psy7682 287 TMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVW 325 (383)
Q Consensus 287 ~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~ 325 (383)
++=.+-|+++.+.++.+ ..+++..+. .+|++++++.
T Consensus 12 i~~vD~~~~I~~~n~~a--~~~f~~~~~-~iGr~l~~~~ 47 (106)
T PF13596_consen 12 IIFVDRNLRIRYFNPAA--ARLFNLSPS-DIGRPLFDIH 47 (106)
T ss_dssp EEEEETTSBEEEE-SCG--C-SS---GG-GTTSBCCCSS
T ss_pred EEEEcCCCeEEEeChhH--hhhcCCChH-HCCCCHHHcC
Confidence 33457799999999997 789997654 4799988774
No 95
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=24.64 E-value=52 Score=26.34 Aligned_cols=44 Identities=11% Similarity=0.092 Sum_probs=34.4
Q ss_pred eeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceecCCCC
Q psy7682 285 QFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWTCPNS 330 (383)
Q Consensus 285 ~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~~~~~ 330 (383)
..+...+.+|++.++++.. ..++||.+.+..+....++......
T Consensus 123 ~~~~~~d~~~~~~~~n~~~--~~~~g~~~~~~~~~~~~~~~~~~~~ 166 (232)
T COG2202 123 DGIWVLDEDGRILYANPAA--EELLGYSPEEELGRGLSDLIHPEDE 166 (232)
T ss_pred ceEEEEeCCCCEEEeCHHH--HHHhCCChHHhcCCChhheEecCCC
Confidence 4455556699999999998 8999999999888887776644433
No 96
>PF09756 DDRGK: DDRGK domain; InterPro: IPR019153 This is a family of proteins of approximately 300 residues. They contain a highly conserved DDRGK motif. The function is unknown. ; PDB: 1WI9_A.
Probab=24.25 E-value=59 Score=29.86 Aligned_cols=87 Identities=21% Similarity=0.190 Sum_probs=24.8
Q ss_pred hhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhccCCCcccccCccCCCCCCcCCccchhh--HHHH
Q psy7682 63 ENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQETSSDAVQQGEVSSSKPTVITNEVLGP--LLLE 140 (383)
Q Consensus 63 ~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~~~~~~~~~~~~~~~~~P~~~~~~~~~~--lll~ 140 (383)
+.+.+..++..+-+..-+. .....-+....|+.-|.||+..+...-...+..-| +..++.-. --|+
T Consensus 71 E~eEy~k~K~~f~veeeG~---~~~~~~~~~~lL~~Fi~yIK~~Kvv~ledla~~f~---------l~t~~~i~ri~~L~ 138 (188)
T PF09756_consen 71 EQEEYEKWKSAFSVEEEGE---DEEEEEEESQLLQEFINYIKEHKVVNLEDLAAEFG---------LRTQDVINRIQELE 138 (188)
T ss_dssp --------------------------------HHHHHHHHHHH-SEE-HHHHHHHH----------S-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHhccccccch---hHHHhhHHHHHHHHHHHHHHHcceeeHHHHHHHcC---------CCHHHHHHHHHHHH
Confidence 3557777777765511111 11223344449999999999866432100010000 01111100 1134
Q ss_pred hhcCcEEEEcCCccEEEeecc
Q psy7682 141 ALEGFLFVVNPDGYVNFCTEN 161 (383)
Q Consensus 141 aldgfi~vvs~dG~i~yvS~s 161 (383)
+.+.+.-|+|..|+++|||+.
T Consensus 139 ~~g~ltGv~DdrGkfIyIs~e 159 (188)
T PF09756_consen 139 AEGRLTGVIDDRGKFIYISEE 159 (188)
T ss_dssp HHSSS-EEE-TT--EEE----
T ss_pred HCCCceeeEcCCCCeEEecHH
Confidence 456666688999999999984
No 97
>KOG3910|consensus
Probab=23.85 E-value=78 Score=33.27 Aligned_cols=46 Identities=22% Similarity=0.248 Sum_probs=31.7
Q ss_pred HHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhh
Q psy7682 57 KRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQ 108 (383)
Q Consensus 57 k~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~ 108 (383)
|-|=--||+.|+||..|.-+..-. ...=-|+-||..||+-|=.+.+
T Consensus 535 RlRVRDINeAfKELGRMCqlHlkS------eKpQTKLgILhqAVsVIlsLEQ 580 (632)
T KOG3910|consen 535 RLRVRDINEAFKELGRMCQLHLKS------EKPQTKLGILHQAVSVILSLEQ 580 (632)
T ss_pred heehhhHHHHHHHHHHHHHHhhcc------cCcchhhhHHHHHHHHHHHHHH
Confidence 334455899999999998773111 2344589999999997765443
No 98
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=23.33 E-value=21 Score=37.70 Aligned_cols=39 Identities=10% Similarity=0.068 Sum_probs=34.1
Q ss_pred eEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 286 FTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 286 F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
=+.-.+.+|+++++++.+ ..++|+.+++++|+++.++++
T Consensus 92 GVi~vD~~G~I~~iN~aA--~~Llg~~~eel~Gk~i~eli~ 130 (520)
T PRK10820 92 PVLSIDMKGKVELANPAS--CQLFGQSEEKLRNHTAAQLIN 130 (520)
T ss_pred cEEEECCCCeeeHhHHHH--HHHHCcCHHHHCCCcHHHHcC
Confidence 355567899999999998 899999999999999998873
No 99
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=22.85 E-value=34 Score=35.28 Aligned_cols=40 Identities=18% Similarity=0.297 Sum_probs=34.3
Q ss_pred eeEEEeCCCCcEEEEcCCCCccccCCcccccccCCCccceec
Q psy7682 285 QFTMKLDRSGTIIGMDTSGVSQTHTQYLNKAVACKTSATVWT 326 (383)
Q Consensus 285 ~F~tRHsldgkf~~vD~r~l~~~ilGY~p~eLiG~S~yd~~~ 326 (383)
..+.-.+.+|+++++++.. ..++||.+++++|+++.++++
T Consensus 273 ~~i~~~d~~g~i~~~N~~~--~~l~g~~~~~~~g~~~~~~~~ 312 (607)
T PRK11360 273 DGVIAIDRQGKITTMNPAA--EVITGLQRHELVGKPYSELFP 312 (607)
T ss_pred CeEEEEcCCCCEEEECHHH--HHHhCCChHHhcCCcHHHHcC
Confidence 3455567899999999998 899999999999999888763
No 100
>PF13983 YsaB: YsaB-like lipoprotein
Probab=22.35 E-value=79 Score=24.24 Aligned_cols=18 Identities=28% Similarity=0.451 Sum_probs=16.3
Q ss_pred hcCcEEEEcCCccEEEee
Q psy7682 142 LEGFLFVVNPDGYVNFCT 159 (383)
Q Consensus 142 ldgfi~vvs~dG~i~yvS 159 (383)
-+||++-.|.||.++..|
T Consensus 58 ~E~FvCSFD~dGqFLHLS 75 (77)
T PF13983_consen 58 KEGFVCSFDADGQFLHLS 75 (77)
T ss_pred ccceEEeECCCCcEEEee
Confidence 489999999999999876
No 101
>KOG3054|consensus
Probab=21.97 E-value=2.3e+02 Score=27.27 Aligned_cols=56 Identities=27% Similarity=0.308 Sum_probs=30.2
Q ss_pred hhhHHHHHHHHhhhhccCCCcccccCccCCCCCCcCCcc---chhhHHHHhhcCcE-EEEcCCccEEEeec
Q psy7682 94 AILQETVNQIRNIKQQETSSDAVQQGEVSSSKPTVITNE---VLGPLLLEALEGFL-FVVNPDGYVNFCTE 160 (383)
Q Consensus 94 siLr~ai~~lr~~~~~~~~~~~~~~~~~~~~~P~~~~~~---~~~~lll~aldgfi-~vvs~dG~i~yvS~ 160 (383)
++|+.-|.|+|+.+-..--..+..-| +-+.. -+.+++. +|.| -|+|.-|+++|||+
T Consensus 200 nll~eFv~YIk~nKvV~ledLas~f~--------Lrtqd~inriq~~l~---eg~ltGVmDDRGKfIYIS~ 259 (299)
T KOG3054|consen 200 NLLSEFVEYIKKNKVVPLEDLASEFG--------LRTQDSINRIQELLA---EGLLTGVMDDRGKFIYISM 259 (299)
T ss_pred HHHHHHHHHHHhcCeeeHHHHHHHhC--------ccHHHHHHHHHHHHH---hhhheeeecCCCceEEecH
Confidence 59999999999765432100000000 00111 1222222 3433 37888999999997
No 102
>KOG3898|consensus
Probab=20.48 E-value=69 Score=30.75 Aligned_cols=47 Identities=23% Similarity=0.300 Sum_probs=38.1
Q ss_pred HHHHHHhhhHhHHHHHhhcccccccccccccCCCCChhhhhHHHHHHHHhhhhc
Q psy7682 56 EKRRREQENNYIEELAELISAASFAESMSSLAVKPDKCAILQETVNQIRNIKQQ 109 (383)
Q Consensus 56 ek~RR~~~n~~i~eL~~llP~~~~~~~~~~~~~klDK~siLr~ai~~lr~~~~~ 109 (383)
|++|=--+|..++.|.+.+|.. ++ ..|+-|+-.||++-.|+-.+..+
T Consensus 80 ER~RMH~LNdAld~LReviP~~--~~-----~~klskIetl~~a~~yi~als~~ 126 (254)
T KOG3898|consen 80 ERTRMHDLNDALDALREVIPHG--LH-----PPKLSKIETLRLAANYIAALSEV 126 (254)
T ss_pred hhccccchhHHHHHhHhhccCc--CC-----CCCCCcchhHHhhhcchhhhccc
Confidence 6666677888999999999962 33 47999999999999999876544
Done!