Query psy10704
Match_columns 211
No_of_seqs 144 out of 901
Neff 7.4
Searched_HMMs 46136
Date Fri Aug 16 16:30:48 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10704.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10704hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3558|consensus 100.0 7.9E-41 1.7E-45 307.3 13.7 169 1-206 155-331 (768)
2 KOG3559|consensus 99.9 2.1E-26 4.5E-31 201.9 5.0 164 1-204 115-280 (598)
3 KOG3560|consensus 99.9 7.3E-26 1.6E-30 204.0 7.1 164 2-210 148-353 (712)
4 KOG3561|consensus 99.8 6.2E-19 1.3E-23 167.9 5.8 189 1-210 131-443 (803)
5 PF14598 PAS_11: PAS domain; P 99.7 2.8E-17 6.1E-22 123.5 5.6 63 149-211 2-75 (111)
6 KOG3753|consensus 99.6 2.7E-16 5.8E-21 148.5 7.7 152 4-204 221-386 (1114)
7 PF00989 PAS: PAS fold; Inter 98.1 5.5E-06 1.2E-10 59.7 5.7 54 150-203 12-65 (113)
8 KOG3561|consensus 98.1 1.1E-06 2.4E-11 84.9 1.7 52 149-200 105-156 (803)
9 TIGR02040 PpsR-CrtJ transcript 98.1 9.4E-06 2E-10 73.8 6.7 55 149-203 143-198 (442)
10 KOG3558|consensus 98.0 5.1E-06 1.1E-10 78.4 3.9 53 149-201 129-181 (768)
11 PF14598 PAS_11: PAS domain; P 97.8 1.5E-05 3.3E-10 59.7 2.6 58 3-73 31-89 (111)
12 PF13426 PAS_9: PAS domain; PD 97.8 4.6E-05 1E-09 53.8 4.9 52 152-203 4-55 (104)
13 PF08447 PAS_3: PAS fold; Int 97.8 2E-05 4.2E-10 55.4 2.7 41 161-202 1-45 (91)
14 PRK13560 hypothetical protein; 97.4 0.00056 1.2E-08 65.8 8.0 70 129-198 181-263 (807)
15 KOG3559|consensus 97.3 0.00013 2.8E-09 65.5 2.8 50 149-198 89-138 (598)
16 PF08448 PAS_4: PAS fold; Int 97.3 0.00048 1E-08 49.0 4.9 54 151-204 7-60 (110)
17 cd00130 PAS PAS domain; PAS mo 97.1 0.00092 2E-08 42.7 4.7 53 151-203 4-56 (103)
18 KOG3560|consensus 96.9 0.00078 1.7E-08 62.5 3.6 53 149-201 121-173 (712)
19 smart00091 PAS PAS domain. PAS 96.6 0.0063 1.4E-07 35.8 5.1 51 152-202 14-64 (67)
20 TIGR02040 PpsR-CrtJ transcript 96.6 0.0022 4.8E-08 58.3 3.9 53 150-202 7-59 (442)
21 TIGR00229 sensory_box PAS doma 96.1 0.014 3E-07 39.0 4.9 51 152-202 16-66 (124)
22 PRK09776 putative diguanylate 95.9 0.015 3.3E-07 58.3 6.0 63 128-190 512-587 (1092)
23 PRK11359 cyclic-di-GMP phospho 95.8 0.063 1.4E-06 52.0 9.7 43 149-191 146-188 (799)
24 PRK09776 putative diguanylate 95.6 0.013 2.9E-07 58.7 4.6 54 150-203 294-347 (1092)
25 PRK13557 histidine kinase; Pro 95.6 0.012 2.5E-07 54.0 3.5 45 157-201 51-95 (540)
26 PF08447 PAS_3: PAS fold; Int 95.3 0.0073 1.6E-07 42.0 1.1 51 10-73 27-78 (91)
27 TIGR02966 phoR_proteo phosphat 94.8 0.028 6E-07 47.8 3.4 50 150-199 17-66 (333)
28 PRK10060 RNase II stability mo 94.4 0.049 1.1E-06 52.5 4.4 46 150-195 122-168 (663)
29 PRK11091 aerobic respiration c 94.2 0.057 1.2E-06 52.6 4.4 55 149-203 165-219 (779)
30 PRK11359 cyclic-di-GMP phospho 93.6 0.06 1.3E-06 52.2 3.4 45 153-197 26-70 (799)
31 PRK13560 hypothetical protein; 93.4 0.2 4.4E-06 48.2 6.6 61 128-188 308-382 (807)
32 PRK13559 hypothetical protein; 92.5 0.19 4E-06 44.0 4.5 48 152-199 56-106 (361)
33 TIGR02938 nifL_nitrog nitrogen 92.0 0.21 4.5E-06 44.8 4.3 45 150-194 15-59 (494)
34 PF08446 PAS_2: PAS fold; Int 90.4 0.23 5E-06 36.9 2.5 45 157-201 24-71 (110)
35 PRK11073 glnL nitrogen regulat 89.7 0.33 7.1E-06 42.1 3.3 42 151-192 19-60 (348)
36 PRK13558 bacterio-opsin activa 89.5 0.35 7.7E-06 46.2 3.6 42 157-198 169-210 (665)
37 PF13596 PAS_10: PAS domain; P 88.3 0.82 1.8E-05 32.9 4.1 51 152-203 12-62 (106)
38 PRK11006 phoR phosphate regulo 88.2 0.35 7.6E-06 43.6 2.5 47 149-195 108-154 (430)
39 PRK10820 DNA-binding transcrip 88.2 0.36 7.8E-06 45.4 2.6 50 149-198 90-139 (520)
40 PF00989 PAS: PAS fold; Inter 84.5 0.55 1.2E-05 33.0 1.4 27 2-28 38-64 (113)
41 KOG3753|consensus 82.9 1 2.2E-05 44.6 2.8 48 149-196 191-239 (1114)
42 PF13188 PAS_8: PAS domain; PD 82.8 1.4 3E-05 28.5 2.8 32 152-187 14-45 (64)
43 PF12860 PAS_7: PAS fold 77.4 2 4.3E-05 31.2 2.3 37 152-188 8-45 (115)
44 PRK11360 sensory histidine kin 77.1 2 4.3E-05 39.4 2.8 42 150-191 273-314 (607)
45 COG2202 AtoS FOG: PAS/PAC doma 70.5 7.2 0.00016 28.0 3.9 44 149-192 122-165 (232)
46 TIGR02373 photo_yellow photoac 69.0 4.8 0.0001 30.8 2.6 44 149-192 26-69 (124)
47 COG3829 RocR Transcriptional r 57.6 7.8 0.00017 36.8 2.4 39 150-188 128-166 (560)
48 TIGR02938 nifL_nitrog nitrogen 57.5 4.8 0.0001 36.0 0.9 49 150-198 141-189 (494)
49 PRK11388 DNA-binding transcrip 57.0 6.7 0.00015 37.7 1.9 38 152-189 216-253 (638)
50 PRK11086 sensory histidine kin 47.5 21 0.00046 32.6 3.6 48 150-197 232-282 (542)
51 PRK15053 dpiB sensor histidine 46.5 17 0.00037 33.6 2.8 43 150-192 233-277 (545)
52 PF08670 MEKHLA: MEKHLA domain 38.7 44 0.00095 26.3 3.5 48 156-203 50-97 (148)
53 PLN00209 ribosomal protein S27 32.2 44 0.00096 23.9 2.4 37 9-48 5-41 (86)
54 COG5002 VicK Signal transducti 30.7 31 0.00066 31.4 1.7 43 152-194 124-166 (459)
55 PTZ00083 40S ribosomal protein 29.9 51 0.0011 23.5 2.4 39 7-48 2-40 (85)
56 PF07310 PAS_5: PAS domain; I 28.8 74 0.0016 24.1 3.4 44 158-204 50-93 (137)
57 KOG0501|consensus 28.5 65 0.0014 31.3 3.5 45 157-201 38-88 (971)
58 COG4251 Bacteriophytochrome (l 23.1 45 0.00098 32.5 1.4 50 150-199 31-80 (750)
59 COG3283 TyrR Transcriptional r 22.6 75 0.0016 29.2 2.6 50 150-199 91-140 (511)
No 1
>KOG3558|consensus
Probab=100.00 E-value=7.9e-41 Score=307.27 Aligned_cols=169 Identities=39% Similarity=0.751 Sum_probs=150.0
Q ss_pred CCccccCCccccCCChhhHHHHHHHhcCCCCC-------CCCCceeEEEEEeeecCCCCccccCCCCceEEEEEEEeeec
Q psy10704 1 MKVDLMGQSIYEVTHPCDHSEVKSILSANHTE-------DIRAQRSVFIRLKCTLTSKGRNVNVKAATYKVIHCTGHLVQ 73 (211)
Q Consensus 1 ~Q~dL~G~Siyd~iHp~D~~~~~~~L~~~~~~-------~~~~~rsF~cRmk~~~~~r~~~~~~~~~~y~~v~~~G~l~~ 73 (211)
+|+||+|.||||||||+||+||++||...... +...+|+||+|||+++++|||.+|+|+.+||++||||++|.
T Consensus 155 SQvELTG~SvFDfiHP~DheE~~eqL~l~~~~p~~~es~~~~teRsFflRMKsTLT~RGRtlnlKSa~yKvlh~tgh~rv 234 (768)
T KOG3558|consen 155 SQVELTGSSVFDFIHPCDHEEIAEQLGLRLTTPEVKESTDTSTERSFFLRMKSTLTKRGRTLNLKSAGYKVLHCTGHLRV 234 (768)
T ss_pred cceeeecchhhhccCccCHHHHHHHhccccCCCcccccccCccceeEEEEeeeeeccCCceeeeeccceeEEEEeeeeee
Confidence 69999999999999999999999999876641 34568999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCcCCCCccccccccccccCccccCCCCCCcccccccccccccCCCceEEEEeeeCCCCCCCCCCCC-ceeE
Q psy10704 74 NQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHCFVAIGEPIPHPANYDVPLS-QTFL 152 (211)
Q Consensus 74 ~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~Lv~i~r~~~~~~~~e~~~~-~~f~ 152 (211)
..+.+. +.. -+|.+ .+..|||++|.++++|+..|+++. ..|+
T Consensus 235 ~~~~sh-~s~-------------------------------~~g~~-----~Pl~~lV~~a~alp~ps~~EipL~~~~Fv 277 (768)
T KOG3558|consen 235 YNNPSH-NSP-------------------------------LCGYK-----EPLLGLVALAEALPPPSYTEIPLDCHMFV 277 (768)
T ss_pred ccCCCC-CCc-------------------------------ccCcc-----ccchheeeeeccCCCCcccccccCCceeE
Confidence 876421 100 13432 137899999999999999999998 8999
Q ss_pred EEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhhhhh
Q psy10704 153 TKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPCYS 206 (211)
Q Consensus 153 trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l~~r 206 (211)
+||++|++|+|||+|+..++||.|+||+|+|+|+|||++|.+.+.+.|..||.|
T Consensus 278 tRhs~DmkityCedRisdlm~y~PeeLvGrS~Ye~~Ha~Ds~~v~KSh~dL~~K 331 (768)
T KOG3558|consen 278 TRHSLDMKITYCEDRISDLMDYEPEELVGRSCYEFVHALDSDRVRKSHHDLLTK 331 (768)
T ss_pred EeeecceeEEEEchhHHHHhcCCHHHhhchhHHHhhhHhhhhHHHHHHHHHHhc
Confidence 999999999999999999999999999999999999999999999999987544
No 2
>KOG3559|consensus
Probab=99.92 E-value=2.1e-26 Score=201.93 Aligned_cols=164 Identities=34% Similarity=0.628 Sum_probs=138.8
Q ss_pred CCccccCCccccCCChhhHHHHHHHhcCCC-CCCCCCceeEEEEEeeecCCCCccccCCCCceEEEEEEEeeecCCCCCC
Q psy10704 1 MKVDLMGQSIYEVTHPCDHSEVKSILSANH-TEDIRAQRSVFIRLKCTLTSKGRNVNVKAATYKVIHCTGHLVQNQTPAS 79 (211)
Q Consensus 1 ~Q~dL~G~Siyd~iHp~D~~~~~~~L~~~~-~~~~~~~rsF~cRmk~~~~~r~~~~~~~~~~y~~v~~~G~l~~~~~~~~ 79 (211)
||+||.|.+|||||||.||+++...|.... .++-.-+|+||.||||....|. ..++..+|++|||.|+++...-..
T Consensus 115 SQVElTGNsi~eYIH~~D~demna~L~~h~H~qeyeIErsfflrmkCvlakrn--aglt~sg~kvihcSgylKir~y~~- 191 (598)
T KOG3559|consen 115 SQVELTGNSIYEYIHPQDHDEMNAVLTAHQHLQEYEIERSFFLRMKCVLAKRN--AGLTCSGYKVIHCSGYLKIRQYEL- 191 (598)
T ss_pred eeeEeecchhhhhhcccchHHHHHHHhhhhhhhhhhhhhhhhhhhhhhheecc--ccccccCcceEeecCcceEEEEee-
Confidence 699999999999999999999999997765 2345689999999999987643 567889999999999998643210
Q ss_pred CCCCcCCCCccccccccccccCccccCCCCCCcccccccccccccCCCceEEEEeeeCCCCCCCCCCCC-ceeEEEEeCC
Q psy10704 80 NGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHCFVAIGEPIPHPANYDVPLS-QTFLTKHSLD 158 (211)
Q Consensus 80 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~Lv~i~r~~~~~~~~e~~~~-~~f~trh~~d 158 (211)
-|.| ++ .+ -.+..|||++.++|++...|+.+. ++|+.|-++|
T Consensus 192 ----~m~p-----------------~d--------sc--------yqn~glvAvG~slP~saiteikl~sNmFmfraslD 234 (598)
T KOG3559|consen 192 ----DMSP-----------------ND--------SC--------YQNVGLVAVGHSLPPSAITEIKLHSNMFMFRASLD 234 (598)
T ss_pred ----ccCC-----------------cc--------ch--------hheeeeEEecCCCCcccceEEEeccceEEEEeecc
Confidence 0111 00 01 135689999999999999999887 9999999999
Q ss_pred eeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhhh
Q psy10704 159 MKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204 (211)
Q Consensus 159 g~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l~ 204 (211)
+++++.|.++..++||.|++|+|+++|.+||..|...+..+|..++
T Consensus 235 lkliF~D~rv~qltgYepqdliektLY~~ih~~D~~~lr~~H~~ll 280 (598)
T KOG3559|consen 235 LKLIFLDSRVHQLTGYEPQDLIEKTLYHHIHGCDSFHLRCAHHLLL 280 (598)
T ss_pred eEEEeehhhHHHhhCCCchhhhhHHHHHHhhhhhHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999998664
No 3
>KOG3560|consensus
Probab=99.92 E-value=7.3e-26 Score=204.02 Aligned_cols=164 Identities=20% Similarity=0.365 Sum_probs=140.4
Q ss_pred CccccCCccccCCChhhHHHHHHHhcCCCCC------------------------------C--CCCceeEEEEEeeecC
Q psy10704 2 KVDLMGQSIYEVTHPCDHSEVKSILSANHTE------------------------------D--IRAQRSVFIRLKCTLT 49 (211)
Q Consensus 2 Q~dL~G~Siyd~iHp~D~~~~~~~L~~~~~~------------------------------~--~~~~rsF~cRmk~~~~ 49 (211)
|.|+|+|||||+||.+|+++|++||.+...- + .-.+|+|+||+||-+.
T Consensus 148 QSDV~HQsVYdlIHseDR~dfqrQLhwa~~ppq~~~s~q~~~e~~~~~~~~~~~~~d~~ppens~yleRcficR~RCLLD 227 (712)
T KOG3560|consen 148 QSDVMHQSVYDLIHSEDRQDFQRQLHWAMDPPQVVFSQQPPLETGDDAILRAQEWGDGTPPENSAYLERCFICRFRCLLD 227 (712)
T ss_pred ccchhhhhHHHHhhhhhHHHHHHHHhhccCCchhhccCCCccccccccceeeeccCccCCcccchHHhhhheeeEEEeec
Confidence 8999999999999999999999999886630 0 1357999999999986
Q ss_pred CCCccccCCCCceEEEEEEEeeecCCCCCCCCCCcCCCCccccccccccccCccccCCCCCCcccccccccccccCCCce
Q psy10704 50 SKGRNVNVKAATYKVIHCTGHLVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHC 129 (211)
Q Consensus 50 ~r~~~~~~~~~~y~~v~~~G~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 129 (211)
. .+||-.|.++|+|+.+.+....+ ..| ...++...
T Consensus 228 n--------TsGFLamdfqGklk~LhGqkkk~---------------------------------~~g----~~lpP~La 262 (712)
T KOG3560|consen 228 N--------TSGFLAMDFQGKLKFLHGQKKKA---------------------------------PSG----AMLPPRLA 262 (712)
T ss_pred C--------CcceeeeecccceeeecCCcccC---------------------------------CCC----ccCCCcee
Confidence 4 68999999999999988741100 011 12457899
Q ss_pred EEEEeeeCCCCCCCCCCCC-ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh-----
Q psy10704 130 FVAIGEPIPHPANYDVPLS-QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP----- 203 (211)
Q Consensus 130 Lv~i~r~~~~~~~~e~~~~-~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l----- 203 (211)
|+|||.|+.+|+..|++++ ..|.++|.+|+..+.+|.+++.+|||...||.|.+.|+|||.+|...++++|..+
T Consensus 263 Lf~iatP~~pPS~lEi~~k~~i~rtKhklDfa~vs~Dak~k~~lgy~eaEL~~m~gY~lvH~~D~~y~Aeah~e~iktge 342 (712)
T KOG3560|consen 263 LFCIATPFLPPSALEIKMKSAILRTKHKLDFALVSMDAKVKATLGYCEAELHGMPGYNLVHVEDKVYMAEAHSEGIKTGE 342 (712)
T ss_pred EEEEecCCCCchhhhhhhhhhhhhcccccccceeccchhhhhhhccchhhccCCCccceeehhhhhhhhHHHHHHhhcCC
Confidence 9999999999999999988 8899999999999999999999999999999999999999999999999999964
Q ss_pred ----hhhcccC
Q psy10704 204 ----CYSCVIK 210 (211)
Q Consensus 204 ----~~rf~~k 210 (211)
.||..+|
T Consensus 343 SGmlvyR~qtk 353 (712)
T KOG3560|consen 343 SGMLVYREQTK 353 (712)
T ss_pred cceEEEEEeec
Confidence 3776665
No 4
>KOG3561|consensus
Probab=99.75 E-value=6.2e-19 Score=167.94 Aligned_cols=189 Identities=26% Similarity=0.443 Sum_probs=133.8
Q ss_pred CCccccCCccccCCChhhHHHHHHHhcCCCCC-------------C----------------------------------
Q psy10704 1 MKVDLMGQSIYEVTHPCDHSEVKSILSANHTE-------------D---------------------------------- 33 (211)
Q Consensus 1 ~Q~dL~G~Siyd~iHp~D~~~~~~~L~~~~~~-------------~---------------------------------- 33 (211)
.|.||+|+|||||+||+|.+.++.||.+.... +
T Consensus 131 ~QsDL~~qSly~ilhp~d~~~~~~ql~~r~~e~~f~~r~l~~~~~~~~~E~~~~~~~~~~~~~~~~~s~e~~~~~i~~~~ 210 (803)
T KOG3561|consen 131 LQSDLMGQSLYDILHPLDNDKPREQLSPRSNEHTFNCRLLDGKTGPPPEEAVKFYGNFQCFTNSQPKSIEGFQSTICRQR 210 (803)
T ss_pred CHHHHhcchHHHhcCccccCcccccccccccccccchhhhccCCCCchHHhhhhhhhcccccccCccccccccccceeec
Confidence 38999999999999999999999999843320 0
Q ss_pred --------------------------------CCCceeEEEEEeeecCC------------CCccccC------CCCceE
Q psy10704 34 --------------------------------IRAQRSVFIRLKCTLTS------------KGRNVNV------KAATYK 63 (211)
Q Consensus 34 --------------------------------~~~~rsF~cRmk~~~~~------------r~~~~~~------~~~~y~ 63 (211)
.+.+|+|+|||++.... +|+..+. ....|.
T Consensus 211 ~~~~~~~~~~~~~r~~~p~~~~~~~~id~~~~~~aRrsfe~r~r~~~~r~~p~~gy~~~~~~g~~~~~~~~~~~~~~~y~ 290 (803)
T KOG3561|consen 211 RKAEGDRVCFGVSRLTTPQLIGEMCIIDTRLCEGARRSFECRMRFCDHRAPPIIGYEPFEVLGTSRNYDYYHKDDLPNYR 290 (803)
T ss_pred cccccCccccccccccchhhccceeccccccccccccchhhhhhhccccCCccccccceeeccccccccccccCcccceE
Confidence 13388999999998432 1211111 146699
Q ss_pred EEEEEEeeecCCCCCCCCCCcCCCCccccccccccccCccccCCCCCCcccccccccccccCCCceEEEEeeeCCC----
Q psy10704 64 VIHCTGHLVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHCFVAIGEPIPH---- 139 (211)
Q Consensus 64 ~v~~~G~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~Lv~i~r~~~~---- 139 (211)
++||+||++.|.+. +.+. ...+...+..++... ..+ ..+ +.+..|+|++++....
T Consensus 291 ~~h~~g~~~s~~~~----c~~~--------~~t~~~q~~~~~~d~-~i~--~~~------~~s~p~~v~~~~~~vs~~~~ 349 (803)
T KOG3561|consen 291 VIHCTGYIKSAGPS----CKYR--------FLTKGQQWIWLPQDD-YIS--YHQ------WNSKPCLVAIGRLVVSYAEV 349 (803)
T ss_pred EEeeeeeEeccCCc----ceec--------cccccccccccCccc-ccc--ccc------cCCCcceeEecccccchhhc
Confidence 99999999999874 1111 111111222222211 001 112 3456799988886542
Q ss_pred --CCCCCCCC----------C-ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHh----
Q psy10704 140 --PANYDVPL----------S-QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKN---- 202 (211)
Q Consensus 140 --~~~~e~~~----------~-~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~---- 202 (211)
|...|... . ..|.+||..||+|+++|.++..++||.+.|++|+++|.+.|++|..++..+++.
T Consensus 350 ~~p~~~~~~~~~~~~~~~~~~~~~~~sr~~~~g~~~~~dqr~~~i~~~~~~~~~g~ss~~s~h~~d~~~~~~s~~~~~~~ 429 (803)
T KOG3561|consen 350 RVPSRADMSIEGPRQQPSSPQSSEFISRSSSDGSFTFVDQRASAILGYQPQELLGRSSYESSHPADSSPLSESLKQVQAL 429 (803)
T ss_pred cCcccccCccccccccccCcccchhhcccCcCCceeccccccccccccCchhhcCcccccccCccccchhhchHHHHHHh
Confidence 33344332 1 678899999999999999999999999999999999999999999999999875
Q ss_pred ------hhhhcccC
Q psy10704 203 ------PCYSCVIK 210 (211)
Q Consensus 203 ------l~~rf~~k 210 (211)
++|||++|
T Consensus 430 s~~~~~~~yr~~~~ 443 (803)
T KOG3561|consen 430 SEQRSTLLYRFRSK 443 (803)
T ss_pred cccccccccccccC
Confidence 48999876
No 5
>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=99.69 E-value=2.8e-17 Score=123.55 Aligned_cols=63 Identities=32% Similarity=0.634 Sum_probs=55.7
Q ss_pred ceeEEEEeCCeeEEEechh-hhhhcCCChhhhcCCCccceecccCHHH-HHHHHHhh---------hhhcccCC
Q psy10704 149 QTFLTKHSLDMKFTYADET-MEDFLGFNPDIFIAKSVFDFHHAQDSFH-IQNAFKNP---------CYSCVIKS 211 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~-~~~~lGy~~~el~G~s~y~~vH~~D~~~-~~~~h~~l---------~~rf~~k~ 211 (211)
++|++||++||+|++||++ +..+|||.|+||+|+|+|+|+||+|++. +.++|+.+ +|||+.|.
T Consensus 2 ~~F~trhs~dgki~~~d~~~v~~~lgy~~~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~~g~~~~~~yR~~~k~ 75 (111)
T PF14598_consen 2 EEFTTRHSLDGKITYVDSRAVSSLLGYLPEELVGRSIYDFVHPDDLQRVLKQHHREVLQKGQSVSPYYRFRTKN 75 (111)
T ss_dssp -EEEEEEETTSBEEEEETTHHHHHHSS-HHHHTTSBGGGGBSCCTHHHHHHHHHHHHHHHSSEEEEEEEEE-TT
T ss_pred ceEEEEECCCcEEEEEcCccChhhcCCCcHHHcCCchHHhCCHhhhhhHHHHHHHHHhhCCCcCcceEEEEecC
Confidence 4799999999999999999 7999999999999999999999999997 99999875 58887763
No 6
>KOG3753|consensus
Probab=99.64 E-value=2.7e-16 Score=148.50 Aligned_cols=152 Identities=18% Similarity=0.270 Sum_probs=122.4
Q ss_pred cccCCccccCCChhhHHHHHHHhcCCCCC-------------CCCCceeEEEEEeeecCCCCccccCCCCceEEEEEEEe
Q psy10704 4 DLMGQSIYEVTHPCDHSEVKSILSANHTE-------------DIRAQRSVFIRLKCTLTSKGRNVNVKAATYKVIHCTGH 70 (211)
Q Consensus 4 dL~G~Siyd~iHp~D~~~~~~~L~~~~~~-------------~~~~~rsF~cRmk~~~~~r~~~~~~~~~~y~~v~~~G~ 70 (211)
-|.|..+.||+||.|+..|..++....+. +.-..++||||++...... ....|..+.++-|
T Consensus 221 v~s~a~FvdflapqD~~vF~sfta~~~lp~ws~~s~~ds~~~~c~~~ks~fcRisgr~~~~------~~~~y~PFRl~py 294 (1114)
T KOG3753|consen 221 VLSSAKFVDFLAPQDVGVFYSFTARYKLPLWSMGSSADSFTQECAEEKSFFCRISGRKDRE------NEIRYHPFRLTPY 294 (1114)
T ss_pred hhccchhhhhcchhhhhhhhhccccccCccccccccccchhhhhhhhcceeeeeecccCCc------CccccCcccccce
Confidence 35688999999999999999999887642 2346789999998765421 2466888888888
Q ss_pred eecCCCCCCCCCCcCCCCccccccccccccCccccCCCCCCcccccccccccccCCCceEEEEeeeCCCCCCCCCCCC-c
Q psy10704 71 LVQNQTPASNGSTLMEPQDNIENQSDNTRRGSAIQDKDDSEPEEEVGEKRRVVTEPSHCFVAIGEPIPHPANYDVPLS-Q 149 (211)
Q Consensus 71 l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~Lv~i~r~~~~~~~~e~~~~-~ 149 (211)
|+..... .| +....+||+.++|.....+..+++.+ .
T Consensus 295 l~ev~~~--~~-----------------------------------------~~s~~ccLllaerihSgYeAPrIps~Kr 331 (1114)
T KOG3753|consen 295 LVEVRDQ--QG-----------------------------------------AESQPCCLLLAERIHSGYEAPRIPSNKR 331 (1114)
T ss_pred eEEeccc--cc-----------------------------------------cCcCcceeehhhhhhcccccCcCCcccc
Confidence 8765432 01 01134688888885555666677766 8
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhhh
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l~ 204 (211)
.|++||+..+.|..||.+...+|||.|+||||+++..|+|++|+..+.++|+.++
T Consensus 332 iFtT~HTptClf~hVDeaAVp~LGyLPqDLIG~sil~f~H~eDr~vm~q~H~~v~ 386 (1114)
T KOG3753|consen 332 IFTTTHTPTCLFQHVDEAAVPLLGYLPQDLIGTSILAFVHPEDRHVMVQIHQKVL 386 (1114)
T ss_pred eeEeccCCcceeeecchhhhhhhccCchhhhccchhhhhcCCchHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999987
No 7
>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=98.13 E-value=5.5e-06 Score=59.66 Aligned_cols=54 Identities=22% Similarity=0.456 Sum_probs=44.2
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
..+...+.+|+|+++|+++..++||.++|++|+++++++|++|.....+.+...
T Consensus 12 ~~i~~~d~~g~I~~~N~a~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 65 (113)
T PF00989_consen 12 DGIFVIDEDGRILYVNQAAEELLGYSREELIGKSLFDLIHPEDRRELRERLRQA 65 (113)
T ss_dssp SEEEEEETTSBEEEECHHHHHHHSS-HHHHTTSBGGGGCSGGGHHHHHHHHHHH
T ss_pred ceEEEEeCcCeEEEECHHHHHHHccCHHHHcCCcHHHhcCchhhHHHHHHHHHH
Confidence 345557899999999999999999999999999999999999866555554443
No 8
>KOG3561|consensus
Probab=98.10 E-value=1.1e-06 Score=84.88 Aligned_cols=52 Identities=21% Similarity=0.395 Sum_probs=48.1
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHH
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAF 200 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h 200 (211)
..|...+++||+|+||+++|..+|||.++||+|+++|+++||+|...+.+..
T Consensus 105 DGF~fvV~cdG~IvyVSeSVT~~L~y~QsDL~~qSly~ilhp~d~~~~~~ql 156 (803)
T KOG3561|consen 105 DGFLFVVNCDGRIVYVSESVTSVLGYLQSDLMGQSLYDILHPLDNDKPREQL 156 (803)
T ss_pred cCeEEEEecCceEEEEecchHHhhCcCHHHHhcchHHHhcCccccCcccccc
Confidence 7899999999999999999999999999999999999999999988766543
No 9
>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=98.05 E-value=9.4e-06 Score=73.82 Aligned_cols=55 Identities=7% Similarity=0.059 Sum_probs=47.5
Q ss_pred ceeEEEEeC-CeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 149 QTFLTKHSL-DMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 149 ~~f~trh~~-dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
...+...+. +|+|+++|+++..++||.++|++|+++.+++||+|.+.+...+...
T Consensus 143 ~~~i~~~d~~~g~i~~~N~a~~~l~G~~~~el~g~~~~~~~~~~~~~~~~~~l~~~ 198 (442)
T TIGR02040 143 SDAVLLVDMSTGRIVEANSAAAALLGGVGQSLVGRAFPQEFEGRRREELMLTLRNV 198 (442)
T ss_pred CceEEEEECCCCEEEEEcHHHHHHhCcCHHHHcCCCHHHhCCHHHHHHHHHHHHHH
Confidence 345566787 8999999999999999999999999999999999998877766543
No 10
>KOG3558|consensus
Probab=97.99 E-value=5.1e-06 Score=78.36 Aligned_cols=53 Identities=30% Similarity=0.453 Sum_probs=51.0
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHH
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~ 201 (211)
..|+..++.||+|+||++.|..+||+..-||.|.|++||+||.|.+.+++...
T Consensus 129 DGFVm~l~~dG~~lYiSEtVS~yLGLSQvELTG~SvFDfiHP~DheE~~eqL~ 181 (768)
T KOG3558|consen 129 DGFVMALTQDGDFLYISETVSIYLGLSQVELTGSSVFDFIHPCDHEEIAEQLG 181 (768)
T ss_pred cceEEEEccCCCEEEEechhHhhhCccceeeecchhhhccCccCHHHHHHHhc
Confidence 78999999999999999999999999999999999999999999999998765
No 11
>PF14598 PAS_11: PAS domain; PDB: 1P97_A 3F1O_A 2A24_A 3H7W_A 3F1P_A 3H82_A 3F1N_A 4F3L_B 4DJ3_A 2KDK_A ....
Probab=97.78 E-value=1.5e-05 Score=59.67 Aligned_cols=58 Identities=22% Similarity=0.344 Sum_probs=43.9
Q ss_pred ccccCCccccCCChhhHHH-HHHHhcCCCCCCCCCceeEEEEEeeecCCCCccccCCCCceEEEEEEEeeec
Q psy10704 3 VDLMGQSIYEVTHPCDHSE-VKSILSANHTEDIRAQRSVFIRLKCTLTSKGRNVNVKAATYKVIHCTGHLVQ 73 (211)
Q Consensus 3 ~dL~G~Siyd~iHp~D~~~-~~~~L~~~~~~~~~~~rsF~cRmk~~~~~r~~~~~~~~~~y~~v~~~G~l~~ 73 (211)
.||+|+|+|||+||+|... +++.+..-.. .++..+..-||+.+ .++|-+++..+++..
T Consensus 31 ~eLvG~s~y~~~H~~D~~~~~~~~~~~~~~--~g~~~~~~yR~~~k-----------~g~~vwvqt~~~~~~ 89 (111)
T PF14598_consen 31 EELVGRSIYDFVHPDDLQRVLKQHHREVLQ--KGQSVSPYYRFRTK-----------NGGYVWVQTKATLFY 89 (111)
T ss_dssp HHHTTSBGGGGBSCCTHHHHHHHHHHHHHH--HSSEEEEEEEEE-T-----------TSSEEEEEEEEEEEE
T ss_pred HHHcCCchHHhCCHhhhhhHHHHHHHHHhh--CCCcCcceEEEEec-----------CCcEEEEEEEEEEEE
Confidence 5899999999999999997 7655543221 24567888999865 468999999888765
No 12
>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=97.77 E-value=4.6e-05 Score=53.80 Aligned_cols=52 Identities=19% Similarity=0.392 Sum_probs=41.5
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
+...+.+|+|+++|+++..++||.++|++|+++.+++++++.+...+.+...
T Consensus 4 i~i~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~ 55 (104)
T PF13426_consen 4 IFILDPDGRILYVNPAFERLFGYSREELIGKSISDFFPEEDRPEFEEQIERA 55 (104)
T ss_dssp EEEEETTSBEEEE-HHHHHHHTS-HHHHTTSBGGGGCSTTSCHHHHHHHHHH
T ss_pred EEEECCcCcEEehhHHHHHHHCcCHHHHcCCCcccccCcccchhhHHHHHHH
Confidence 4557889999999999999999999999999999999988765555444443
No 13
>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=97.76 E-value=2e-05 Score=55.36 Aligned_cols=41 Identities=17% Similarity=0.442 Sum_probs=34.9
Q ss_pred EEEechhhhhhcCCChhhhcCCC----ccceecccCHHHHHHHHHh
Q psy10704 161 FTYADETMEDFLGFNPDIFIAKS----VFDFHHAQDSFHIQNAFKN 202 (211)
Q Consensus 161 i~~vd~~~~~~lGy~~~el~G~s----~y~~vH~~D~~~~~~~h~~ 202 (211)
|+++++++..++||.++++ +.. +++++||||.+.+.+.+..
T Consensus 1 ~i~~s~~~~~i~G~~~~~~-~~~~~~~~~~~ihpdD~~~~~~~~~~ 45 (91)
T PF08447_consen 1 IIYWSDNFYEIFGYSPEEI-GKPDFEEWLERIHPDDRERVRQAIQQ 45 (91)
T ss_dssp -EEE-THHHHHHTS-HHHH-TCBEHHHHHHHB-TTTHHHHHHHHHH
T ss_pred CEEEeHHHHHHhCCCHHHh-ccCCHHHHHhhcCHHHHHHHHHHHHH
Confidence 5899999999999999999 877 9999999999999988887
No 14
>PRK13560 hypothetical protein; Provisional
Probab=97.39 E-value=0.00056 Score=65.79 Aligned_cols=70 Identities=20% Similarity=0.120 Sum_probs=52.8
Q ss_pred eEEEEeeeCCCCCCCCCC-----------CC--ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHH
Q psy10704 129 CFVAIGEPIPHPANYDVP-----------LS--QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFH 195 (211)
Q Consensus 129 ~Lv~i~r~~~~~~~~e~~-----------~~--~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~ 195 (211)
.++++++.++.....|.. +. +..+...+.+|+|+++|+++..++||.++|++|+++.++.++++...
T Consensus 181 ~~~g~~~DIT~rk~ae~~l~~~~~~l~~l~e~~~~~i~~~d~~g~i~~~N~~~~~~~G~~~~e~~g~~~~~~~~~~~~~~ 260 (807)
T PRK13560 181 QVDGFAEDITERKRAEERIDEALHFLQQLLDNIADPAFWKDEDAKVFGCNDAACLACGFRREEIIGMSIHDFAPAQPADD 260 (807)
T ss_pred EEEEEEEccchHHHHHHHHHHHHHHHHHHHhhCCCeEEEEcCCCCEEEEhHHHHHHhCCCHHHHcCCcchhcCCcchhHH
Confidence 577788888764322111 11 45566789999999999999999999999999999999988776655
Q ss_pred HHH
Q psy10704 196 IQN 198 (211)
Q Consensus 196 ~~~ 198 (211)
...
T Consensus 261 ~~~ 263 (807)
T PRK13560 261 YQE 263 (807)
T ss_pred HHH
Confidence 433
No 15
>KOG3559|consensus
Probab=97.35 E-value=0.00013 Score=65.46 Aligned_cols=50 Identities=24% Similarity=0.375 Sum_probs=46.6
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHH
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQN 198 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~ 198 (211)
..|+...+.||+|.|+++.++..||+..-||.|.++|+||||.|.+.+-.
T Consensus 89 DGF~fvva~dGkimYISETaSvhLGLSQVElTGNsi~eYIH~~D~demna 138 (598)
T KOG3559|consen 89 DGFIFVVAPDGKIMYISETASVHLGLSQVELTGNSIYEYIHPQDHDEMNA 138 (598)
T ss_pred cceEEEEeCCCCEEEEecceeeeecceeeEeecchhhhhhcccchHHHHH
Confidence 78999999999999999999999999999999999999999999876543
No 16
>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=97.29 E-value=0.00048 Score=49.05 Aligned_cols=54 Identities=22% Similarity=0.415 Sum_probs=47.0
Q ss_pred eEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhhh
Q psy10704 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204 (211)
Q Consensus 151 f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l~ 204 (211)
.+...+.||+|+++|++...++|+.+++++|+++.+++++++.+.+...++.++
T Consensus 7 ~i~v~D~~~~i~~~N~~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~~~ 60 (110)
T PF08448_consen 7 GIFVIDPDGRIVYANQAAAELFGVSPEELIGRSLFDLLPPEDREEFQAALRRAL 60 (110)
T ss_dssp EEEEEETTSBEEEE-HHHHHHHTSTHHHHTTSBHHHHSCCGCHHHHHHHHHHHH
T ss_pred eeEEECCCCEEEEEHHHHHHHhCCCHHHHhhccchhccccchhhhhHHHHHHhh
Confidence 345569999999999999999999999999999999999999888887777654
No 17
>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=97.14 E-value=0.00092 Score=42.70 Aligned_cols=53 Identities=28% Similarity=0.513 Sum_probs=45.6
Q ss_pred eEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 151 f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
.+...+.+|.++++++++..++|+.+++++|..+++++++++...+.+.+...
T Consensus 4 ~i~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 56 (103)
T cd00130 4 GVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRERLENL 56 (103)
T ss_pred eEEEECCCCcEEEECHHHHHHhCCCHHHHcCccHHHhcCCccchHHHHHHHHH
Confidence 34567889999999999999999999999999999999999987766665543
No 18
>KOG3560|consensus
Probab=96.92 E-value=0.00078 Score=62.46 Aligned_cols=53 Identities=28% Similarity=0.506 Sum_probs=49.5
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHH
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~ 201 (211)
+.|+-..+.+|.|.|++..+..+|||...|++-+++|++||.||.+.+.+...
T Consensus 121 nGF~lVvt~eg~ifyAS~tIedYLGFhQSDV~HQsVYdlIHseDR~dfqrQLh 173 (712)
T KOG3560|consen 121 NGFALVVTAEGEIFYASATIEDYLGFHQSDVMHQSVYDLIHSEDRQDFQRQLH 173 (712)
T ss_pred CCeEEEEecCceEEEehhhHHhhhcccccchhhhhHHHHhhhhhHHHHHHHHh
Confidence 88999999999999999999999999999999999999999999988776544
No 19
>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=96.62 E-value=0.0063 Score=35.83 Aligned_cols=51 Identities=29% Similarity=0.585 Sum_probs=43.2
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHh
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKN 202 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~ 202 (211)
+...+.++.+.+++..+..++|+.+.++.|..+.+++++.+...+.+.+..
T Consensus 14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 64 (67)
T smart00091 14 IFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDREEVQEALQR 64 (67)
T ss_pred EEEEcCCCeEEEECHHHHHHhCCCHHHHcCCcHHHhcCcccHHHHHHHHHH
Confidence 344567899999999999999999999999999999999998776665543
No 20
>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=96.57 E-value=0.0022 Score=58.27 Aligned_cols=53 Identities=2% Similarity=-0.194 Sum_probs=46.7
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHh
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKN 202 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~ 202 (211)
..+..++.+|+|++++.+...++||..+||+|+.+.+++||+|.+.+...+..
T Consensus 7 d~~~~~d~~g~i~~~n~~~~~~~g~~~~el~G~~~~~~~~~~~~~~~~~~~~~ 59 (442)
T TIGR02040 7 DVTLLLDAEGVVREVAANPHHPSFEQLSEWEGRRWEEIVTAESVEKFELRLSE 59 (442)
T ss_pred cEEEEECCCCcEEEEEECCCcccccccccCCCCcHhHhhCcchHHHHHHHHHH
Confidence 44566899999999999999999999999999999999999998887766643
No 21
>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=96.09 E-value=0.014 Score=39.01 Aligned_cols=51 Identities=14% Similarity=0.416 Sum_probs=42.7
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHh
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKN 202 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~ 202 (211)
+...+.+|+++++++.+..++|+...+++|+.+.+++++++...+......
T Consensus 16 ~~~~d~~~~i~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 66 (124)
T TIGR00229 16 IIVIDLEGNILYVNPAFEEIFGYSAEELIGRNVLELIPEEDREEVRERIER 66 (124)
T ss_pred EEEEcCCCcEEEEchHHHHHhCCChHHhcCcchhhhcChhhhHHHHHHHHH
Confidence 344578899999999999999999999999999999999887766554443
No 22
>PRK09776 putative diguanylate cyclase; Provisional
Probab=95.87 E-value=0.015 Score=58.33 Aligned_cols=63 Identities=13% Similarity=0.246 Sum_probs=47.8
Q ss_pred ceEEEEeeeCCCCCCCCCC-----------CC--ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecc
Q psy10704 128 HCFVAIGEPIPHPANYDVP-----------LS--QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHA 190 (211)
Q Consensus 128 ~~Lv~i~r~~~~~~~~e~~-----------~~--~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~ 190 (211)
..++++.+.++.....+.. ++ .+.+...+.+|+++++|+....++||.++|++|+++.+++|+
T Consensus 512 ~~~ig~~~DITerk~~e~~L~~~~~~l~~~l~~~~~~i~~~D~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~~~~~ 587 (1092)
T PRK09776 512 ERLLGINMDMTEVRQLNEALFQEKERLHITLDSIGEAVVCTDMAMKVTFMNPVAEKMTGWTQEEALGVPLLTVLHI 587 (1092)
T ss_pred EEEEeeeeehhHHHHHHHHHHHHHHHHHHHHhccccEEEEECCCCeEEEEcHHHHHHhCCCHHHHcCCCHHHHccc
Confidence 4577788887754321110 11 445667899999999999999999999999999999888764
No 23
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=95.77 E-value=0.063 Score=52.00 Aligned_cols=43 Identities=2% Similarity=0.014 Sum_probs=37.4
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceeccc
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQ 191 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~ 191 (211)
...+...+.+|+++++++++..++||.+++++|+.+.+++++.
T Consensus 146 ~~~i~~~d~~g~i~~~N~~~~~l~G~~~~e~~g~~~~~~~~~~ 188 (799)
T PRK11359 146 DRPVIVLDPERRIVQCNRAFTEMFGYCISEASGMQPDTLLNIP 188 (799)
T ss_pred CCcEEEEcCCCcEEEEChhhHhhhCCCHHHHCCCChHHhcCCC
Confidence 3445667899999999999999999999999999999887643
No 24
>PRK09776 putative diguanylate cyclase; Provisional
Probab=95.65 E-value=0.013 Score=58.73 Aligned_cols=54 Identities=7% Similarity=0.113 Sum_probs=47.4
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
.-+...+.||+++++|+++..++||.++|++|+++.+++||+|.+...+.....
T Consensus 294 ~~i~~~d~dG~i~~~N~~~~~l~G~~~~el~g~~~~~~~~~~d~~~~~~~~~~~ 347 (1092)
T PRK09776 294 IGMALVGTEGQWLQVNKALCQFLGYSQEELRGLTFQQLTWPEDLNKDLQQVEKL 347 (1092)
T ss_pred ceEEEEcCCCcEEehhHHHHHHhCCCHHHHccCCceeccCcchhHhHHHHHHHH
Confidence 345678999999999999999999999999999999999999988776665543
No 25
>PRK13557 histidine kinase; Provisional
Probab=95.57 E-value=0.012 Score=53.97 Aligned_cols=45 Identities=9% Similarity=0.187 Sum_probs=38.8
Q ss_pred CCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHH
Q psy10704 157 LDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFK 201 (211)
Q Consensus 157 ~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~ 201 (211)
.||+|+|+|+++..++||..+|++|++++.++||++.........
T Consensus 51 ~~g~i~~~N~a~~~~~G~~~~e~~g~~~~~l~~~~~~~~~~~~~~ 95 (540)
T PRK13557 51 PDNPIVFANRAFLEMTGYAAEEIIGNNCRFLQGPETDRATVAEVR 95 (540)
T ss_pred CCCCEEEEcHHHHHHhCCCHHHhcCCChHhhcCCCCCHHHHHHHH
Confidence 589999999999999999999999999999999887655444444
No 26
>PF08447 PAS_3: PAS fold; InterPro: IPR013655 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. The PAS domain contains a sensory box, or S-box domain that occupies the central portion of the PAS domain but is more widely distributed. It is often tandemly repeated. Known prosthetic groups bound in the S-box domain include haem in the oxygen sensor FixL [], FAD in the redox potential sensor NifL [], and a 4-hydroxycinnamyl chromophore in photoactive yellow protein []. Proteins containing the domain often contain other regulatory domains such as response regulator or sensor histidine kinase domains. Other S-box proteins include phytochromes and the aryl hydrocarbon receptor nuclear translocator. This domain has been found in the gene product of the madA gene of the filamentous zygomycete fungus Phycomyces blakesleeanus. It has been shown that MadA encodes a blue-light photoreceptor for phototropism and other light responses. The gene is involved in the phototropic responses associated with sporangiophore growth; they exhibit phototropism by bending toward near-UV and blue wavelengths and away from far-UV wavelengths in a manner that is physiologically similar to plant phototropic responses [].; GO: 0005515 protein binding; PDB: 3NJA_D 3H9W_A 3GDI_B 3ICY_A 3EEH_A 3MR0_B.
Probab=95.33 E-value=0.0073 Score=41.98 Aligned_cols=51 Identities=18% Similarity=0.261 Sum_probs=37.3
Q ss_pred cccCCChhhHHHHHHHhcC-CCCCCCCCceeEEEEEeeecCCCCccccCCCCceEEEEEEEeeec
Q psy10704 10 IYEVTHPCDHSEVKSILSA-NHTEDIRAQRSVFIRLKCTLTSKGRNVNVKAATYKVIHCTGHLVQ 73 (211)
Q Consensus 10 iyd~iHp~D~~~~~~~L~~-~~~~~~~~~rsF~cRmk~~~~~r~~~~~~~~~~y~~v~~~G~l~~ 73 (211)
++++|||+|++.+.+.+.. .. ..+....+-.|++.. .+.|.+++++|....
T Consensus 27 ~~~~ihpdD~~~~~~~~~~~~~--~~~~~~~~e~R~~~~-----------~G~~~wi~~~~~~~~ 78 (91)
T PF08447_consen 27 WLERIHPDDRERVRQAIQQAAL--QNGEPFEIEYRIRRK-----------DGEYRWIEVRGRPIF 78 (91)
T ss_dssp HHHHB-TTTHHHHHHHHHHHHH--HTT-EEEEEEEEEGT-----------TSTEEEEEEEEEEEE
T ss_pred HHhhcCHHHHHHHHHHHHHHhh--ccCcceEEEEEEECC-----------CCCEEEEEEEEEEEE
Confidence 8999999999999999887 32 124556666777643 578999999987655
No 27
>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=94.80 E-value=0.028 Score=47.76 Aligned_cols=50 Identities=8% Similarity=0.088 Sum_probs=43.1
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNA 199 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~ 199 (211)
.-+...+.+|+++++|+++..++||.+++++|+.+.+++++++...+...
T Consensus 17 ~~i~~~d~~g~i~~~N~~~~~~~g~~~~~~~g~~~~~~~~~~~~~~~l~~ 66 (333)
T TIGR02966 17 DAVVVLDEEGQIEWCNPAAERLLGLRWPDDLGQRITNLIRHPEFVEYLAA 66 (333)
T ss_pred CcEEEECCCCcEEEEcHHHHHHhCCChHHHcCCcHHHHccCHHHHHHHHh
Confidence 33556799999999999999999999999999999999999887665433
No 28
>PRK10060 RNase II stability modulator; Provisional
Probab=94.40 E-value=0.049 Score=52.49 Aligned_cols=46 Identities=13% Similarity=0.228 Sum_probs=38.5
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCcccee-cccCHHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFH-HAQDSFH 195 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~v-H~~D~~~ 195 (211)
..+...+.+|+|+++|+++..++||.++|++|+++.+++ ++++...
T Consensus 122 ~gI~i~D~~g~I~~~N~a~~~l~Gy~~~eliG~~~~~l~~~~~~~~~ 168 (663)
T PRK10060 122 SVIVILDSRGNIQRFNRLCEEYTGLKEHDVIGQSVFKLFMSRREAAA 168 (663)
T ss_pred ceEEEEeCCCCEEEEcHHHHHHHCcCHHHHcCCCHHHHhCChhhHHH
Confidence 445667999999999999999999999999999998876 4555443
No 29
>PRK11091 aerobic respiration control sensor protein ArcB; Provisional
Probab=94.17 E-value=0.057 Score=52.61 Aligned_cols=55 Identities=13% Similarity=0.105 Sum_probs=47.3
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
+..+...+.+|+|+++|+++..++||..+|++|+++++++++++...+.+....+
T Consensus 165 ~~~i~~~D~~g~i~~~N~a~~~l~G~~~~eliG~~~~~l~~~~~~~~~~~~~~~~ 219 (779)
T PRK11091 165 PDLVYYRNEDGEFSGCNRAMELLTGKSEKQLIGLTPKDVYSPEAAEKVIETDEKV 219 (779)
T ss_pred cceEEEECCCCcEEeEcHHHHHHhCcCHHHHcCCChHHhCCHHHHHHHHHHHHHH
Confidence 3456668999999999999999999999999999999999998887776655544
No 30
>PRK11359 cyclic-di-GMP phosphodiesterase; Provisional
Probab=93.63 E-value=0.06 Score=52.17 Aligned_cols=45 Identities=7% Similarity=0.033 Sum_probs=39.5
Q ss_pred EEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHH
Q psy10704 153 TKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQ 197 (211)
Q Consensus 153 trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~ 197 (211)
...+.+|+|+++++++..++||.++|++|+++..++|+++.....
T Consensus 26 ~~~d~~g~i~~~N~~~~~l~G~s~eeliG~~~~~~~~~~~~~~~~ 70 (799)
T PRK11359 26 VLINENDEVLFFNPAAEKLWGYKREEVIGNNIDMLIPRDLRPAHP 70 (799)
T ss_pred EEEcCCCeEEEEcHHHHHHhCCCHHHHcCCCHHHhcCccccccch
Confidence 346889999999999999999999999999999999998765433
No 31
>PRK13560 hypothetical protein; Provisional
Probab=93.39 E-value=0.2 Score=48.20 Aligned_cols=61 Identities=11% Similarity=0.141 Sum_probs=44.1
Q ss_pred ceEEEEeeeCCCCCCCCCC-----------CC--ceeEEEEeCCeeEEEec-hhhhhhcCCChhhhcCCCcccee
Q psy10704 128 HCFVAIGEPIPHPANYDVP-----------LS--QTFLTKHSLDMKFTYAD-ETMEDFLGFNPDIFIAKSVFDFH 188 (211)
Q Consensus 128 ~~Lv~i~r~~~~~~~~e~~-----------~~--~~f~trh~~dg~i~~vd-~~~~~~lGy~~~el~G~s~y~~v 188 (211)
.+++++++.++.....|.. +. ...+...+.+|++++++ +....++||.++|++|+++..+.
T Consensus 308 ~g~~~~~~DITerk~~e~~L~~se~~l~~l~~~~~~~i~~~d~~g~i~~~nn~~~~~~~G~~~~e~~g~~~~~~~ 382 (807)
T PRK13560 308 AGLVGAITDISGRRAAERELLEKEDMLRAIIEAAPIAAIGLDADGNICFVNNNAAERMLGWSAAEVMGKPLPGMD 382 (807)
T ss_pred EEEEEEEEechHHHHHHHHHHHHHHHHHHHHHhCcccEEEEcCCCCEEEecCHHHHHHhCCCHHHHcCCCccccC
Confidence 4678888888764322111 11 34566789999999985 67778999999999999887654
No 32
>PRK13559 hypothetical protein; Provisional
Probab=92.49 E-value=0.19 Score=44.02 Aligned_cols=48 Identities=10% Similarity=0.168 Sum_probs=38.0
Q ss_pred EEEEeC---CeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHH
Q psy10704 152 LTKHSL---DMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNA 199 (211)
Q Consensus 152 ~trh~~---dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~ 199 (211)
+...+. +|+|+++|+++..++||..+|++|+++..++++.+.+.....
T Consensus 56 i~i~D~~~~~g~i~~~N~a~~~l~G~~~~e~iG~~~~~l~~~~~~~~~~~~ 106 (361)
T PRK13559 56 MCITDPHQPDLPIVLANQAFLDLTGYAAEEVVGRNCRFLQGAATDPIAVAK 106 (361)
T ss_pred EEEecCCCCCCcEEEEchHHHHHhCCCHHHHcCCChhhhcCCCCCHHHHHH
Confidence 344554 678999999999999999999999999888777665444333
No 33
>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=92.00 E-value=0.21 Score=44.81 Aligned_cols=45 Identities=13% Similarity=0.239 Sum_probs=38.2
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSF 194 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~ 194 (211)
..+..++.+|+++++++++..++||.+++++|++.+.+.++.+..
T Consensus 15 ~~i~~~d~~g~~~~~N~~~~~~~G~~~~~~~g~~~~~~~~~~~~~ 59 (494)
T TIGR02938 15 LAISITDLKANILYANDAFTRITGYTKEEIIGKNESVLSNHTTPP 59 (494)
T ss_pred ceEEEECCCCcEEEEchhheeecCCCHHHHhCCCchhhcCCCCCH
Confidence 345568899999999999999999999999999988887765543
No 34
>PF08446 PAS_2: PAS fold; InterPro: IPR013654 The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs []. The PAS fold appears in archaea, eubacteria and eukarya. ; GO: 0008020 G-protein coupled photoreceptor activity, 0006355 regulation of transcription, DNA-dependent, 0009584 detection of visible light, 0018298 protein-chromophore linkage; PDB: 3S7O_A 2O9B_A 3S7P_A 1ZTU_A 3S7N_A 3S7Q_A 2O9C_A 2OOL_A 3C2W_G 3NHQ_B ....
Probab=90.44 E-value=0.23 Score=36.90 Aligned_cols=45 Identities=18% Similarity=0.448 Sum_probs=39.5
Q ss_pred CCeeEEEechhhhhhcCCC---hhhhcCCCccceecccCHHHHHHHHH
Q psy10704 157 LDMKFTYADETMEDFLGFN---PDIFIAKSVFDFHHAQDSFHIQNAFK 201 (211)
Q Consensus 157 ~dg~i~~vd~~~~~~lGy~---~~el~G~s~y~~vH~~D~~~~~~~h~ 201 (211)
.+++|++++..+..+||.. +++++|+++.+++-++....+.+...
T Consensus 24 ~~~~I~~~S~N~~~~lg~~~~~~~~llG~~l~~ll~~~~~~~l~~~~~ 71 (110)
T PF08446_consen 24 DDLRIVQASENIAELLGIPPELPEELLGRPLSELLGAESAERLREALQ 71 (110)
T ss_dssp TTTBEEEEETTHHHHHSS----HHHHTTCBHHHHSCCCCHHHHHHHCT
T ss_pred CCCEEEEEcCCHHHHhCCccccchhhcccCHHHHhCHHHHHHHHHhhh
Confidence 4699999999999999999 99999999999998888888877654
No 35
>PRK11073 glnL nitrogen regulation protein NR(II); Provisional
Probab=89.74 E-value=0.33 Score=42.12 Aligned_cols=42 Identities=10% Similarity=0.133 Sum_probs=37.0
Q ss_pred eEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccC
Q psy10704 151 FLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQD 192 (211)
Q Consensus 151 f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D 192 (211)
-+...+.+|+|+++|+++..++||.+++++|+.+.+++++.+
T Consensus 19 gi~~~d~~~~i~~~N~a~~~~~g~~~~~~~g~~~~~~~~~~~ 60 (348)
T PRK11073 19 SILLLDDDLAIHYANPAAQQLLAQSSRKLFGTPLPELLSYFS 60 (348)
T ss_pred eEEEECCCCeEeeEcHHHHHHhCCCHHHHcCCCHHHHcCcch
Confidence 345578999999999999999999999999999999987544
No 36
>PRK13558 bacterio-opsin activator; Provisional
Probab=89.47 E-value=0.35 Score=46.22 Aligned_cols=42 Identities=14% Similarity=0.285 Sum_probs=36.6
Q ss_pred CCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHH
Q psy10704 157 LDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQN 198 (211)
Q Consensus 157 ~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~ 198 (211)
.+|.|+++|+++..++||.+++++|+++..+.|+++......
T Consensus 169 ~dg~i~~~N~~~~~l~G~~~eel~g~~~~~l~~~~~~~~~~~ 210 (665)
T PRK13558 169 PDEPLIYINDAFERITGYSPDEVLGRNCRFLQGEDTNEERVA 210 (665)
T ss_pred CCCcEEEEcHHHHHHhCcCHHHHcCCCHHHhcCCCccHHHHH
Confidence 589999999999999999999999999999998877554433
No 37
>PF13596 PAS_10: PAS domain; PDB: 3CAX_A 2QKP_D.
Probab=88.28 E-value=0.82 Score=32.85 Aligned_cols=51 Identities=12% Similarity=0.323 Sum_probs=36.4
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
+.-.+.+++|.+.++.+..+++..+.+ +|+++.++..+.+.+.+.+..+.+
T Consensus 12 i~~vD~~~~I~~~n~~a~~~f~~~~~~-iGr~l~~~~~~~~~~~l~~~i~~~ 62 (106)
T PF13596_consen 12 IIFVDRNLRIRYFNPAAARLFNLSPSD-IGRPLFDIHPPLSYPNLKKIIEQV 62 (106)
T ss_dssp EEEEETTSBEEEE-SCGC-SS---GGG-TTSBCCCSS-HHHHHHHHHHHHHH
T ss_pred EEEEcCCCeEEEeChhHhhhcCCChHH-CCCCHHHcCCccchHHHHHHHHHH
Confidence 344699999999999999999987654 699999998887777777766654
No 38
>PRK11006 phoR phosphate regulon sensor protein; Provisional
Probab=88.22 E-value=0.35 Score=43.63 Aligned_cols=47 Identities=6% Similarity=0.092 Sum_probs=40.0
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHH
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFH 195 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~ 195 (211)
+..+...+.+|+|+++|+++..++||..+|++|+++.+++.+.|...
T Consensus 108 ~~~i~~~d~~g~i~~~N~~a~~l~g~~~~~~~g~~~~~~~~~~~~~~ 154 (430)
T PRK11006 108 PDAVVLTTEEGNIFWCNGLAQQLLGFRWPEDNGQNILNLLRYPEFTQ 154 (430)
T ss_pred CCeEEEEcCCCceeHHHHHHHHHhCCCChHhCCCcHHHHhcCHHHHH
Confidence 44566688999999999999999999999999999998887666543
No 39
>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional
Probab=88.20 E-value=0.36 Score=45.43 Aligned_cols=50 Identities=6% Similarity=0.046 Sum_probs=42.8
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHH
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQN 198 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~ 198 (211)
.+-+.-.+.+|+|+++|+++..++|+.+++++|+++.++++..+...+.+
T Consensus 90 ~eGVi~vD~~G~I~~iN~aA~~Llg~~~eel~Gk~i~eli~~~~l~~~le 139 (520)
T PRK10820 90 PEPVLSIDMKGKVELANPASCQLFGQSEEKLRNHTAAQLINGFNFLRWLE 139 (520)
T ss_pred CCcEEEECCCCeeeHhHHHHHHHHCcCHHHHCCCcHHHHcCcchHHHHHH
Confidence 44466689999999999999999999999999999999999877655443
No 40
>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=84.51 E-value=0.55 Score=33.00 Aligned_cols=27 Identities=30% Similarity=0.708 Sum_probs=20.5
Q ss_pred CccccCCccccCCChhhHHHHHHHhcC
Q psy10704 2 KVDLMGQSIYEVTHPCDHSEVKSILSA 28 (211)
Q Consensus 2 Q~dL~G~Siyd~iHp~D~~~~~~~L~~ 28 (211)
..|++|+++++++|++|..++.+.+..
T Consensus 38 ~~~~~g~~~~~~~~~~~~~~~~~~~~~ 64 (113)
T PF00989_consen 38 REELIGKSLFDLIHPEDRRELRERLRQ 64 (113)
T ss_dssp HHHHTTSBGGGGCSGGGHHHHHHHHHH
T ss_pred HHHHcCCcHHHhcCchhhHHHHHHHHH
Confidence 368999999999999976555555443
No 41
>KOG3753|consensus
Probab=82.85 E-value=1 Score=44.63 Aligned_cols=48 Identities=25% Similarity=0.355 Sum_probs=41.3
Q ss_pred ceeEEE-EeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHH
Q psy10704 149 QTFLTK-HSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHI 196 (211)
Q Consensus 149 ~~f~tr-h~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~ 196 (211)
..|+.- -.+||+|+|+.+.+..++||..+-|.+..+-||+||.|+...
T Consensus 191 DsF~~~vS~~dG~iLyis~q~a~ilg~krDv~s~a~FvdflapqD~~vF 239 (1114)
T KOG3753|consen 191 DSFVVAVSFLDGRILYISEQAALILGCKRDVLSSAKFVDFLAPQDVGVF 239 (1114)
T ss_pred cceEEEEeccCCcEEEeechhhhhccCchhhhccchhhhhcchhhhhhh
Confidence 455533 456999999999999999999999999999999999998643
No 42
>PF13188 PAS_8: PAS domain; PDB: 2JHE_D 3VOL_A.
Probab=82.78 E-value=1.4 Score=28.48 Aligned_cols=32 Identities=9% Similarity=0.360 Sum_probs=22.4
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccce
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDF 187 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~ 187 (211)
+...+ +++|+++|+++..++||. +.|..+..+
T Consensus 14 i~i~d-~~~i~~~N~~~~~l~g~~---~~~~~~~~~ 45 (64)
T PF13188_consen 14 ILIID-GGRIIYVNPAFEELFGYS---LEGEDIGQL 45 (64)
T ss_dssp EEEEE-TSBEEEE-HHHHHHHCS----HTCCCHHCT
T ss_pred eEEEE-CCChHHhhHHHHHHhCCC---CCCCCHHHh
Confidence 33456 789999999999999997 556555433
No 43
>PF12860 PAS_7: PAS fold
Probab=77.38 E-value=2 Score=31.19 Aligned_cols=37 Identities=14% Similarity=0.386 Sum_probs=32.8
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhh-cCCCcccee
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIF-IAKSVFDFH 188 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el-~G~s~y~~v 188 (211)
+...+.||+++++|+++..++|+.++.+ .|.++.+++
T Consensus 8 v~v~D~~~rl~~~N~~~~~l~~~~~~~~~~G~~~~~l~ 45 (115)
T PF12860_consen 8 VAVFDSDGRLVFWNQRFRELFGLPPEMLRPGASFRDLL 45 (115)
T ss_pred EEEEcCCCeEEeEcHHHHHHhCCCHHHhcCCCCHHHHH
Confidence 4557999999999999999999999998 798887775
No 44
>PRK11360 sensory histidine kinase AtoS; Provisional
Probab=77.15 E-value=2 Score=39.43 Aligned_cols=42 Identities=12% Similarity=0.090 Sum_probs=36.6
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceeccc
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQ 191 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~ 191 (211)
..+...+.+|++++++++...++||.+++++|+.+.++++++
T Consensus 273 ~~i~~~d~~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~ 314 (607)
T PRK11360 273 DGVIAIDRQGKITTMNPAAEVITGLQRHELVGKPYSELFPPN 314 (607)
T ss_pred CeEEEEcCCCCEEEECHHHHHHhCCChHHhcCCcHHHHcCCc
Confidence 345567899999999999999999999999999998887754
No 45
>COG2202 AtoS FOG: PAS/PAC domain [Signal transduction mechanisms]
Probab=70.46 E-value=7.2 Score=28.04 Aligned_cols=44 Identities=23% Similarity=0.415 Sum_probs=36.0
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccC
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQD 192 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D 192 (211)
...+...+.+|.+.++++++..++||.+.+.++.....+.+...
T Consensus 122 ~~~~~~~d~~~~~~~~n~~~~~~~g~~~~~~~~~~~~~~~~~~~ 165 (232)
T COG2202 122 PDGIWVLDEDGRILYANPAAEELLGYSPEEELGRGLSDLIHPED 165 (232)
T ss_pred CceEEEEeCCCCEEEeCHHHHHHhCCChHHhcCCChhheEecCC
Confidence 34456677799999999999999999988888888888877443
No 46
>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=68.97 E-value=4.8 Score=30.77 Aligned_cols=44 Identities=9% Similarity=-0.019 Sum_probs=38.0
Q ss_pred ceeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccC
Q psy10704 149 QTFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQD 192 (211)
Q Consensus 149 ~~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D 192 (211)
.--+.+.+.+|+|+.-+..=..+.|+.|+.++|++++.=|=|.-
T Consensus 26 pFGvI~lD~~G~V~~YN~aE~~~sg~~p~~vlGr~FF~eVAPC~ 69 (124)
T TIGR02373 26 PFGAIQLDGSGVILRYNAAEGRITGRDPERVIGRNFFKEVAPCT 69 (124)
T ss_pred CcceEEECCCCEEEEEecchhhhcCCChhhhhchhhhhhccccc
Confidence 34478899999999999999999999999999999887766554
No 47
>COG3829 RocR Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]
Probab=57.64 E-value=7.8 Score=36.78 Aligned_cols=39 Identities=21% Similarity=0.318 Sum_probs=35.2
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCcccee
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFH 188 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~v 188 (211)
.-+...+.+|++++++.+...++|+.+++++|+.+.+++
T Consensus 128 ~~l~vvD~~G~~i~~N~~~~~~~gl~~e~~~gk~~~~v~ 166 (560)
T COG3829 128 DGLLVVDEDGIIIYYNKAYAKLLGLSPEEVLGKHLLDVV 166 (560)
T ss_pred CceEEEcCCCcEEEEcHHHHHHhCCCHHHHcCCcHHHHH
Confidence 336778999999999999999999999999999888876
No 48
>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=57.50 E-value=4.8 Score=35.99 Aligned_cols=49 Identities=6% Similarity=-0.093 Sum_probs=40.9
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQN 198 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~ 198 (211)
.-+...+.+|+++++|+++..++|+...+..+..+.+++|+++...+.+
T Consensus 141 ~~i~~~d~~~~i~~~N~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~ 189 (494)
T TIGR02938 141 VAFVLLDPTGRVILDNQEYKKLATDLRVKEPAHTVLDLLREAWREALAE 189 (494)
T ss_pred ceEEEEcCCCCEEEechhHHHhhchhhhhHHHHHHHHHhhHHhhhhhhh
Confidence 3456678999999999999999999999998888888888877665543
No 49
>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional
Probab=56.96 E-value=6.7 Score=37.68 Aligned_cols=38 Identities=3% Similarity=0.131 Sum_probs=34.4
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceec
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHH 189 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH 189 (211)
+.-.+.+|+|+++|+++..++|+..++++|+.+.+++.
T Consensus 216 Vl~vD~~G~I~~~N~aa~~llg~s~~~l~G~~i~~l~~ 253 (638)
T PRK11388 216 VIAWDEQGNLQFLNAQAARLLRLDATASQGRAITELLT 253 (638)
T ss_pred EEEECCCCeEehhhHHHHHHhCcCHHHHCCCcHHHHhc
Confidence 45678899999999999999999999999999888875
No 50
>PRK11086 sensory histidine kinase DcuS; Provisional
Probab=47.54 E-value=21 Score=32.60 Aligned_cols=48 Identities=6% Similarity=0.021 Sum_probs=37.7
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCC---hhhhcCCCccceecccCHHHHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFN---PDIFIAKSVFDFHHAQDSFHIQ 197 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~---~~el~G~s~y~~vH~~D~~~~~ 197 (211)
+-+...+.+|+|+++|+++..++|+. +.+++|..+.++..++.+..+.
T Consensus 232 ~gIi~~D~~g~I~~~N~~a~~llg~~~~~~~~~~~~~~~~~~~~~~~~~~~ 282 (542)
T PRK11086 232 EGVIAVDDRGEVTLINDEAKRLFNYKKGLEDDPLGTDVESWMPVSRLKEVL 282 (542)
T ss_pred CcEEEECCCCeEEEEhHHHHHHhCCCcCCcccccCCcHHHhCCchhHHHHH
Confidence 44667899999999999999999764 5688898888887766655443
No 51
>PRK15053 dpiB sensor histidine kinase DpiB; Provisional
Probab=46.46 E-value=17 Score=33.56 Aligned_cols=43 Identities=14% Similarity=0.183 Sum_probs=35.7
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCCh--hhhcCCCccceecccC
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNP--DIFIAKSVFDFHHAQD 192 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~--~el~G~s~y~~vH~~D 192 (211)
+-+.-.+.+|+|+++|+++..++|+.. ++++|+.+.+++++.+
T Consensus 233 egii~~D~~g~I~~~N~~a~~ll~~~~~~~~~~g~~~~~~~~~~~ 277 (545)
T PRK15053 233 EGLIAVDPHGYITAINRNARKMLGLSSPGRQWLGKPIAEVVRPAD 277 (545)
T ss_pred ceEEEECCCCeEEeecHHHHHHhCCCCcchhhcCCcHHHhCCCch
Confidence 335567999999999999999999965 5799999988887554
No 52
>PF08670 MEKHLA: MEKHLA domain; InterPro: IPR013978 The MEKHLA domain shares similarity with the PAS domain and is found in the 3' end of plant HD-ZIP III homeobox genes, and bacterial proteins.
Probab=38.71 E-value=44 Score=26.31 Aligned_cols=48 Identities=15% Similarity=0.088 Sum_probs=37.5
Q ss_pred eCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhh
Q psy10704 156 SLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNP 203 (211)
Q Consensus 156 ~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l 203 (211)
..|-.|+|.|.+...++++..+||++.+.-.-.-+.+.....+.+.++
T Consensus 50 ~~dP~f~yaN~aaL~l~e~~w~el~~lPsr~sae~~~r~er~~lL~~v 97 (148)
T PF08670_consen 50 KADPIFIYANQAALDLFETTWDELVGLPSRLSAEEPERKERQSLLAQV 97 (148)
T ss_pred CCCCEEEehhHHHHHHhcCCHHHHhcCcHhhccChhhHHHHHHHHHHH
Confidence 467889999999999999999999998876666666665555554443
No 53
>PLN00209 ribosomal protein S27; Provisional
Probab=32.17 E-value=44 Score=23.85 Aligned_cols=37 Identities=16% Similarity=0.263 Sum_probs=26.8
Q ss_pred ccccCCChhhHHHHHHHhcCCCCCCCCCceeEEEEEeeec
Q psy10704 9 SIYEVTHPCDHSEVKSILSANHTEDIRAQRSVFIRLKCTL 48 (211)
Q Consensus 9 Siyd~iHp~D~~~~~~~L~~~~~~~~~~~rsF~cRmk~~~ 48 (211)
...|++||.-.++=++.-.... .+..+|+|+++||..
T Consensus 5 ~~~DLl~P~~~~e~~khK~k~L---v~~PnS~Fm~VkCp~ 41 (86)
T PLN00209 5 NDIDLLNPPAELEKRKHKLKRL---VQSPNSFFMDVKCQG 41 (86)
T ss_pred cchhccCCCHHHHHhhhhceee---ecCCCCEEEEEECCC
Confidence 5679999988776666554442 256789999999873
No 54
>COG5002 VicK Signal transduction histidine kinase [Signal transduction mechanisms]
Probab=30.69 E-value=31 Score=31.43 Aligned_cols=43 Identities=12% Similarity=0.284 Sum_probs=37.2
Q ss_pred EEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHH
Q psy10704 152 LTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSF 194 (211)
Q Consensus 152 ~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~ 194 (211)
+.-.+..|+|+-++..+...||...++++|+++.+++--+|-=
T Consensus 124 ViATdRrG~iI~iN~~A~k~L~~~~E~~~~~~i~elL~i~d~y 166 (459)
T COG5002 124 VIATDRRGKIILINKPALKMLGVSKEDALGRSILELLKIEDTY 166 (459)
T ss_pred eEeecCCCcEEEeccHHHHHhCcCHHHHhcccHHHHhCCccce
Confidence 4445778999999999999999999999999999988776643
No 55
>PTZ00083 40S ribosomal protein S27; Provisional
Probab=29.85 E-value=51 Score=23.47 Aligned_cols=39 Identities=21% Similarity=0.265 Sum_probs=27.6
Q ss_pred CCccccCCChhhHHHHHHHhcCCCCCCCCCceeEEEEEeeec
Q psy10704 7 GQSIYEVTHPCDHSEVKSILSANHTEDIRAQRSVFIRLKCTL 48 (211)
Q Consensus 7 G~Siyd~iHp~D~~~~~~~L~~~~~~~~~~~rsF~cRmk~~~ 48 (211)
|.-.-|++||.-..+-++.-.... .+..+|+|+++||..
T Consensus 2 ~~~~~DLl~p~~~~e~~khK~k~L---v~~PnS~Fm~VkCp~ 40 (85)
T PTZ00083 2 GFMDVDLLYPDPESEARKHKLKRL---VQGPNSYFMDVKCPG 40 (85)
T ss_pred ccchhhhcCCCHHHHHhhhhceeE---ecCCCCeEEEEECCC
Confidence 445568999988776666554442 256789999999863
No 56
>PF07310 PAS_5: PAS domain; InterPro: IPR009922 This family contains a number of hypothetical bacterial proteins of unknown function approximately 200 residues long.
Probab=28.82 E-value=74 Score=24.09 Aligned_cols=44 Identities=11% Similarity=0.351 Sum_probs=36.9
Q ss_pred CeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHHHHhhh
Q psy10704 158 DMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNAFKNPC 204 (211)
Q Consensus 158 dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~h~~l~ 204 (211)
+-++-.+-.++..++|+ |+.|+.+-+++.+++...+...++.++
T Consensus 50 ~~r~RLaGt~i~~~~G~---d~tG~~~~el~~~~~~~~~~~~~~~v~ 93 (137)
T PF07310_consen 50 DFRYRLAGTRIVELFGR---DLTGRRLSELFPPEDRERVRRAYRAVV 93 (137)
T ss_pred ceEEEEecHHHHHHhCC---CCCCCCHHHhcChHhHHHHHHHHHHHH
Confidence 34455577899999998 778999999999999999998888765
No 57
>KOG0501|consensus
Probab=28.51 E-value=65 Score=31.32 Aligned_cols=45 Identities=13% Similarity=0.292 Sum_probs=35.2
Q ss_pred CCeeEEEechhhhhhcCCChhhhcCCCc-cceecccC-----HHHHHHHHH
Q psy10704 157 LDMKFTYADETMEDFLGFNPDIFIAKSV-FDFHHAQD-----SFHIQNAFK 201 (211)
Q Consensus 157 ~dg~i~~vd~~~~~~lGy~~~el~G~s~-y~~vH~~D-----~~~~~~~h~ 201 (211)
-|+-|+|+++.++.+.||...|++.+|. ..|+|.|- ++++.+.++
T Consensus 38 VD~PiVY~NdgFcKlsGY~RAevMQKs~tc~FMyGEltdk~ti~k~~~t~e 88 (971)
T KOG0501|consen 38 VDWPIVYCNDGFCKLSGYHRAEVMQKSCTCSFMYGELTDKGTIEKVRQTLE 88 (971)
T ss_pred eccceEEecCcchhccCccHHHHhcccceeeeeeccccchhhHHHHHHHHH
Confidence 4788999999999999999999998765 67777654 455555544
No 58
>COG4251 Bacteriophytochrome (light-regulated signal transduction histidine kinase) [Signal transduction mechanisms]
Probab=23.12 E-value=45 Score=32.55 Aligned_cols=50 Identities=18% Similarity=0.278 Sum_probs=40.5
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNA 199 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~ 199 (211)
..++--..|+.++.++..+..+||..|++|+|+++-+++-.+.++.++.+
T Consensus 31 ~Llvl~~~~~~Vlq~S~N~~~~LG~~~e~l~~~tl~~vl~~~qv~~l~~~ 80 (750)
T COG4251 31 ALLVLDEADLMVLQASENCANILGREPEDLLGRTLGAVLTSEQVPPLQSA 80 (750)
T ss_pred eEEEeecCCchhhhhhhhHHHHhCCChhhhhcCCHHHhcchhhccHHHHh
Confidence 33444457899999999999999999999999999998877776666544
No 59
>COG3283 TyrR Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]
Probab=22.59 E-value=75 Score=29.24 Aligned_cols=50 Identities=8% Similarity=0.068 Sum_probs=43.1
Q ss_pred eeEEEEeCCeeEEEechhhhhhcCCChhhhcCCCccceecccCHHHHHHH
Q psy10704 150 TFLTKHSLDMKFTYADETMEDFLGFNPDIFIAKSVFDFHHAQDSFHIQNA 199 (211)
Q Consensus 150 ~f~trh~~dg~i~~vd~~~~~~lGy~~~el~G~s~y~~vH~~D~~~~~~~ 199 (211)
+-+--.++-|++.-.+++++.++|..++++.|..+-+++...+...+.+.
T Consensus 91 ~pVlsvd~kg~v~~aNpAa~~l~~~~~~~~~g~~~~~l~~~~nf~~~l~~ 140 (511)
T COG3283 91 EPVLSVDMKGKVDMANPAACQLFGRKEDRLRGHTAAQLINGFNFLRWLEG 140 (511)
T ss_pred CceEEecccCceeecCHHHHHHhCCChhhhcCccHHHhcCcCCHHHHHhc
Confidence 33455788899999999999999999999999999999998888776654
Done!