Query psy8548
Match_columns 102
No_of_seqs 114 out of 1113
Neff 9.5
Searched_HMMs 29240
Date Fri Aug 16 21:41:23 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8548.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/8548hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1n9l_A PHOT-LOV1, putative blu 99.7 2.8E-16 9.6E-21 89.9 11.9 84 1-87 2-85 (109)
2 2gj3_A Nitrogen fixation regul 99.6 4.2E-14 1.4E-18 81.5 10.8 80 2-87 15-94 (120)
3 2pr5_A Blue-light photorecepto 99.6 1.1E-13 3.7E-18 81.0 11.3 82 2-86 9-90 (132)
4 3f1p_B ARYL hydrocarbon recept 99.5 4.8E-13 1.6E-17 76.9 8.7 81 2-88 12-93 (121)
5 4eet_B Phototropin-2; LOV, blu 99.5 2.1E-12 7E-17 72.4 11.2 83 1-86 6-88 (115)
6 3f1p_A Endothelial PAS domain- 99.5 1.7E-13 5.8E-18 78.3 6.5 79 3-87 10-88 (117)
7 2r78_A Sensor protein; sensory 99.5 1.1E-12 3.8E-17 75.5 9.9 79 2-87 21-99 (117)
8 3ewk_A Sensor protein; PAS dom 99.4 1.2E-12 4E-17 83.4 10.2 79 2-86 121-205 (227)
9 3ewk_A Sensor protein; PAS dom 99.4 2.1E-12 7.2E-17 82.2 10.6 78 4-87 1-78 (227)
10 4hia_A LOV protein; PAS, HTH, 99.4 3.8E-12 1.3E-16 77.3 11.2 83 1-86 16-98 (176)
11 3t50_A Blue-light-activated hi 99.4 1E-11 3.4E-16 71.3 11.2 83 1-86 6-88 (128)
12 3p7n_A Sensor histidine kinase 99.4 5.7E-12 2E-16 81.4 11.2 82 2-86 73-154 (258)
13 2wkq_A NPH1-1, RAS-related C3 99.4 7.7E-12 2.6E-16 83.4 11.4 83 1-86 20-102 (332)
14 3ue6_A Aureochrome1; PAS/LOV d 99.4 1.6E-11 5.5E-16 73.4 11.3 82 2-86 45-126 (166)
15 3d72_A Vivid PAS protein VVD; 99.4 2E-11 6.9E-16 72.0 11.2 82 3-87 36-128 (149)
16 2kdk_A ARYL hydrocarbon recept 99.4 8.4E-12 2.9E-16 71.3 9.0 80 2-87 13-93 (121)
17 2vv6_A FIXL, sensor protein FI 99.4 7.9E-12 2.7E-16 71.6 8.8 80 1-86 2-85 (119)
18 1d06_A Nitrogen fixation regul 99.4 8.5E-12 2.9E-16 72.6 8.9 79 2-86 26-108 (130)
19 1byw_A Protein (human ERG pota 99.3 4.7E-11 1.6E-15 65.5 11.6 82 2-86 1-84 (110)
20 3mqq_A Transcriptional regulat 99.3 7.9E-12 2.7E-16 71.6 7.6 79 2-87 13-92 (120)
21 2vlg_A Sporulation kinase A; h 99.3 5.5E-12 1.9E-16 73.0 6.8 77 1-87 8-85 (111)
22 3mfx_A Sensory BOX/ggdef famil 99.3 5.1E-12 1.7E-16 74.8 6.2 80 1-86 16-102 (129)
23 3olo_A Two-component sensor hi 99.3 2.3E-11 7.7E-16 68.7 7.2 75 1-86 22-96 (118)
24 3lyx_A Sensory BOX/ggdef domai 99.2 2E-10 6.8E-15 64.2 10.6 80 1-86 16-95 (124)
25 2z6d_A Phototropin-2; PAS-fold 99.2 8.4E-10 2.9E-14 61.9 11.5 80 1-86 15-97 (130)
26 2v0u_A NPH1-1, LOV2; kinase, t 99.2 8.8E-10 3E-14 63.3 11.2 80 1-86 11-93 (146)
27 3sw1_A Sensory box protein; li 99.2 4.3E-10 1.5E-14 66.9 9.8 80 1-86 34-116 (162)
28 2l0w_A Potassium voltage-gated 99.1 8.5E-10 2.9E-14 62.9 10.1 79 2-86 29-112 (138)
29 3luq_A Sensor protein; PAS, hi 99.1 8.3E-10 2.8E-14 61.5 8.8 78 1-86 12-90 (114)
30 3h9w_A Diguanylate cyclase wit 99.1 1.1E-10 3.9E-15 66.2 5.2 81 2-87 3-84 (115)
31 3mjq_A Uncharacterized protein 99.1 7.3E-10 2.5E-14 62.9 8.3 79 1-86 8-86 (126)
32 3bwl_A Sensor protein; structu 99.1 1.2E-09 4.1E-14 62.6 8.5 76 2-86 27-104 (126)
33 3nja_A Probable ggdef family p 99.1 8.4E-10 2.9E-14 62.3 7.8 82 2-87 17-98 (125)
34 3fg8_A Uncharacterized protein 99.1 7.7E-10 2.6E-14 63.5 7.5 77 1-83 21-97 (118)
35 3mr0_A Sensory box histidine k 99.0 2.7E-09 9.3E-14 62.9 9.2 82 2-87 19-100 (142)
36 4f3l_A Mclock, circadian locom 99.0 3.2E-10 1.1E-14 77.4 4.5 71 16-88 261-331 (361)
37 1ll8_A PAS kinase; PAS domain, 99.0 2.3E-10 7.8E-15 65.0 2.9 79 2-86 8-91 (114)
38 3rty_A Period circadian protei 99.0 1.4E-09 4.6E-14 74.0 6.9 78 5-88 157-239 (339)
39 1nwz_A PYP, photoactive yellow 98.9 1.2E-08 3.9E-13 60.3 8.8 79 1-86 26-106 (125)
40 3icy_A Sensor protein; sensory 98.9 4.8E-10 1.6E-14 63.1 2.8 80 2-87 14-95 (118)
41 1mzu_A PPR; photoactive yellow 98.9 1.4E-08 5E-13 60.2 9.1 79 1-86 31-111 (129)
42 3a0s_A Sensor protein; PAS-fol 98.9 6E-08 2.1E-12 51.6 10.5 61 1-70 1-61 (96)
43 4dj3_A Period circadian protei 98.9 6.6E-09 2.3E-13 70.0 7.9 71 16-88 184-257 (317)
44 4f3l_B BMAL1B; BHLH, PAS, circ 98.9 2.7E-09 9.1E-14 73.5 5.2 78 5-88 281-359 (387)
45 3b33_A Sensor protein; structu 98.9 1.1E-08 3.9E-13 57.6 6.9 76 1-85 16-92 (115)
46 3eeh_A Putative light and redo 98.8 1.1E-08 3.9E-13 57.1 6.6 80 2-87 21-102 (125)
47 3gdi_A Period circadian protei 98.8 1.8E-08 6.3E-13 67.6 8.4 71 16-88 175-247 (309)
48 1v9y_A Heme PAS sensor protein 98.8 2.2E-08 7.4E-13 59.2 7.2 79 2-86 50-132 (167)
49 4dj2_A Period circadian protei 98.8 1.1E-08 3.6E-13 69.1 6.0 71 16-88 186-258 (320)
50 4eho_A Bacteriophytochrome, PA 98.8 8.2E-09 2.8E-13 75.0 5.0 79 2-87 528-606 (635)
51 3fc7_A HTR-like protein, senso 98.7 2.6E-08 8.9E-13 56.4 5.4 41 1-47 28-68 (125)
52 3mxq_A Sensor protein; PSI2, M 98.7 1.8E-08 6.1E-13 61.2 4.8 61 1-68 31-91 (152)
53 3k3c_A Protein RV1364C/MT1410; 98.7 5.1E-08 1.7E-12 57.8 5.6 63 1-71 26-89 (158)
54 3kx0_X Uncharacterized protein 98.6 1.2E-07 4E-12 58.2 6.7 64 1-72 46-110 (185)
55 4hi4_A Aerotaxis transducer AE 98.5 1.2E-06 4.2E-11 50.0 8.0 41 1-47 14-66 (121)
56 3vol_A Aerotaxis transducer AE 98.3 2.2E-06 7.5E-11 54.9 7.5 42 1-48 31-84 (233)
57 2qkp_A Uncharacterized protein 98.2 2.6E-06 8.9E-11 51.4 5.3 67 1-75 28-97 (151)
58 2jhe_A Transcription regulator 98.1 8.1E-06 2.8E-10 49.9 5.3 42 1-48 89-130 (190)
59 4f3l_A Mclock, circadian locom 98.0 5.8E-06 2E-10 56.3 4.9 53 1-59 95-147 (361)
60 3a0r_A Sensor protein; four he 98.0 1.1E-05 3.7E-10 53.7 5.8 40 1-46 17-56 (349)
61 2w0n_A Sensor protein DCUS; si 98.0 3.9E-06 1.3E-10 46.5 2.4 40 1-46 24-66 (118)
62 4f3l_B BMAL1B; BHLH, PAS, circ 97.7 4.8E-05 1.6E-09 52.3 5.2 49 2-55 96-144 (387)
63 3cax_A Uncharacterized protein 97.6 8.8E-05 3E-09 50.7 5.2 61 1-70 248-308 (369)
64 3rty_A Period circadian protei 97.4 0.0001 3.4E-09 50.1 3.0 39 5-49 6-45 (339)
65 1oj5_A Steroid receptor coacti 97.2 0.00042 1.4E-08 41.0 3.7 70 16-88 17-90 (132)
66 4dj3_A Period circadian protei 97.0 0.00094 3.2E-08 44.9 4.5 48 3-55 37-84 (317)
67 3gdi_A Period circadian protei 96.8 0.00067 2.3E-08 45.5 2.9 48 3-55 26-73 (309)
68 4dj2_A Period circadian protei 96.8 0.00077 2.6E-08 45.4 2.7 34 4-40 38-71 (320)
69 2ykf_A Pdtas, probable sensor 95.2 0.00073 2.5E-08 45.1 0.0 34 1-39 179-215 (305)
70 2ool_A Sensor protein; bacteri 91.6 0.16 5.4E-06 34.4 3.3 50 6-64 46-95 (337)
71 4e04_A Bacteriophytochrome (li 83.9 7.2 0.00025 26.3 7.5 50 5-64 32-81 (327)
72 3s7o_A Bacteriophytochrome; bi 73.0 3.9 0.00013 27.8 3.6 40 5-49 55-94 (343)
73 3clo_A Transcriptional regulat 68.5 2.9 9.9E-05 26.7 2.1 32 2-36 43-74 (258)
74 3zq5_A Phytochrome-like protei 56.8 7.3 0.00025 28.0 2.6 32 5-39 32-63 (520)
75 3nhq_A Bacteriophytochrome; ph 47.0 38 0.0013 24.2 4.9 47 6-64 30-77 (505)
76 4ew7_A Conjugative transfer: r 31.7 68 0.0023 18.1 3.4 15 16-30 40-54 (127)
77 1l1o_C Replication protein A 7 22.6 90 0.0031 18.8 3.2 22 16-37 92-113 (181)
No 1
>1n9l_A PHOT-LOV1, putative blue light receptor; phototropin, flavin, electron transport; HET: FMN; 1.90A {Chlamydomonas reinhardtii} SCOP: d.110.3.6 PDB: 1n9n_A* 1n9o_A*
Probab=99.72 E-value=2.8e-16 Score=89.91 Aligned_cols=84 Identities=25% Similarity=0.576 Sum_probs=73.1
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
|+++|+++|...+. ++|+++|++|++++||+.++++|+ +...+.++.........++..+..+..+..++..++++|
T Consensus 2 ~~~~i~i~d~~~~~-g~i~~~N~a~~~l~Gy~~~e~~G~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~kdG 78 (109)
T 1n9l_A 2 LRHTFVVADATLPD-CPLVYASEGFYAMTGYGPDEVLGH--NCRFLQGEGTDPKEVQKIRDAIKKGEACSVRLLNYRKDG 78 (109)
T ss_dssp CSCEEEEEETTSTT-CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEECTTS
T ss_pred CccEEEEEcCCCCC-CeEEEEchHHHHHHCcCHHHHcCC--CchhcCCCCCCHHHHHHHHHHHHcCCcEEEEEEEEcCCC
Confidence 57899999975444 899999999999999999999999 777777777777777888999999999999999999999
Q ss_pred Ceeeecc
Q psy8548 81 YHEEEEE 87 (102)
Q Consensus 81 ~~~~~~~ 87 (102)
+.+|++-
T Consensus 79 ~~~~~~~ 85 (109)
T 1n9l_A 79 TPFWNLL 85 (109)
T ss_dssp CEEEEEE
T ss_pred CEEEEEE
Confidence 9998863
No 2
>2gj3_A Nitrogen fixation regulatory protein; PAS domain, FAD, redox sensor, atomic resolution, transferase; HET: FAD; 1.04A {Azotobacter vinelandii}
Probab=99.58 E-value=4.2e-14 Score=81.54 Aligned_cols=80 Identities=14% Similarity=0.145 Sum_probs=67.8
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+++|+++|.+ |+|+++|++|++++||+.++++|+ +...+.++.........++..+..+..+..++..++++|+
T Consensus 15 ~~~i~~~d~~----g~i~~~N~a~~~~~G~~~~elig~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~ 88 (120)
T 2gj3_A 15 PIAISITDLK----ANILYANRAFRTITGYGSEEVLGK--NESILSNGTTPRLVYQALWGRLAQKKPWSGVLVNRRKDKT 88 (120)
T ss_dssp SSEEEEECTT----CBEEEECHHHHHHHCCCTTGGGGC--BGGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEECTTSC
T ss_pred CCeEEEECCC----CCEEeehHHHHHHHCcCHHHHcCC--CHHHcCCCCCCHHHHHHHHHHHHcCCCEEEEEEEEcCCCC
Confidence 5789999987 899999999999999999999998 6666666555666667778888888899999999999999
Q ss_pred eeeecc
Q psy8548 82 HEEEEE 87 (102)
Q Consensus 82 ~~~~~~ 87 (102)
.+|++-
T Consensus 89 ~~~~~~ 94 (120)
T 2gj3_A 89 LYLAEL 94 (120)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 888753
No 3
>2pr5_A Blue-light photoreceptor; light-oxygen-voltage, LOV, PER-ARNT-SIM, PAS, flavoprotein, protein; HET: FMN; 1.45A {Bacillus subtilis} PDB: 2pr6_A*
Probab=99.56 E-value=1.1e-13 Score=80.97 Aligned_cols=82 Identities=29% Similarity=0.575 Sum_probs=67.9
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+++|+++|.+.++ ++|+++|++|++++||+.++++|+ +...+.++.........+...+..+..+..++..++++|+
T Consensus 9 ~~~i~~~d~~g~~-~~i~~~N~a~~~~~G~~~~el~g~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~kdG~ 85 (132)
T 2pr5_A 9 RVGVVITDPALED-NPIVYVNQGFVQMTGYETEEILGK--NCRFLQGKHTDPAEVDNIRTALQNKEPVTVQIQNYKKDGT 85 (132)
T ss_dssp CCEEEEECTTSTT-CCEEEECHHHHHHHSCCHHHHTTS--CGGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEECTTSC
T ss_pred CCcEEEEeCCCCC-CcEEEECHHHHHHhCcCHHHHcCC--ChhhhCCCCCCHHHHHHHHHHHHcCCCeEEEEEEEecCCC
Confidence 5789999986222 499999999999999999999998 6666666666666667778888888889999999999999
Q ss_pred eeeec
Q psy8548 82 HEEEE 86 (102)
Q Consensus 82 ~~~~~ 86 (102)
.+|++
T Consensus 86 ~~~~~ 90 (132)
T 2pr5_A 86 MFWNE 90 (132)
T ss_dssp EEEEE
T ss_pred eeeeE
Confidence 88875
No 4
>3f1p_B ARYL hydrocarbon receptor nuclear translocator; PAS domain, heterodimer, internal cavity, activator, angiogenesis, congenital erythrocytosis; 1.17A {Homo sapiens} SCOP: d.110.3.0 PDB: 3f1o_B* 3f1n_B 3h7w_B* 3h82_B* 1x0o_A 2hv1_A 4h6j_B 2b02_A* 2k7s_A 2a24_B
Probab=99.46 E-value=4.8e-13 Score=76.92 Aligned_cols=81 Identities=10% Similarity=0.098 Sum_probs=64.5
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHH-hCCcEEEEEEEEecCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALE-SKTELKLEVIFYKKNG 80 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~-~~~~~~~e~~~~~~~G 80 (102)
++.|++.|.+ ++++|+|+++++++||+.++++|+ ....+.+|.+.......+...+. .+..+..++++++++|
T Consensus 12 ~d~i~~~d~~----g~i~~~n~~~~~~~G~~~~el~g~--~~~~~i~p~d~~~~~~~~~~~~~~~~~~~~~e~r~~~~dG 85 (121)
T 3f1p_B 12 TRFISRHNIE----GIFTFVDHRCVATVGYQPQELLGK--NIVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFRSKNQ 85 (121)
T ss_dssp CEEEEEECTT----SBEEEECTTHHHHHSCCGGGTTTS--BGGGGBCTTTHHHHHHHHHHHTTSTTCCEEEEEEEECTTS
T ss_pred CceEEEECCC----ceEEEECcchhhhhCCChHHHcCC--CHHHeECHHHHHHHHHHHHHHHhcCCCcccEEEEEEecCC
Confidence 4578888887 899999999999999999999998 55545556555556666666664 4557889999999999
Q ss_pred Ceeeecch
Q psy8548 81 YHEEEEEE 88 (102)
Q Consensus 81 ~~~~~~~~ 88 (102)
+.+|++..
T Consensus 86 ~~~w~~~~ 93 (121)
T 3f1p_B 86 EWLWMRTS 93 (121)
T ss_dssp CEEEEEEE
T ss_pred CEEEEEEE
Confidence 99998753
No 5
>4eet_B Phototropin-2; LOV, blue light photoreceptor, signaling protein, flavoprote; HET: FMN; 1.20A {Arabidopsis thaliana} PDB: 4ees_A* 4eer_A* 4eep_A* 4eeu_A* 1jnu_A* 1g28_A*
Probab=99.46 E-value=2.1e-12 Score=72.41 Aligned_cols=83 Identities=31% Similarity=0.650 Sum_probs=68.7
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++++|+++|...+. ++++++|++|++++|++.++++|+ ....+.++.........+...+..+..+..++...+++|
T Consensus 6 ~~~~i~~~d~~~~~-g~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 82 (115)
T 4eet_B 6 IEKNFVITDPRLPD-NPIIFASDGFLELTEYSREEILGR--NARFLQGPETDQATVQKIRDAIRDQRETTVQLINYTKSG 82 (115)
T ss_dssp CCCSEEEECTTSTT-CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEECTTC
T ss_pred CCCcEEEEcCCCCC-CcEEEEcHHHHHHHCcCHHHHhCC--CHHHhcCCCCChHHHHHHHHHHHcCCCcceEEEEecCCC
Confidence 46789999982112 899999999999999999999998 666666666677777788888888888999999999999
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
+.+|+.
T Consensus 83 ~~~~~~ 88 (115)
T 4eet_B 83 KKFWNL 88 (115)
T ss_dssp CEEEEE
T ss_pred CEEEEE
Confidence 988764
No 6
>3f1p_A Endothelial PAS domain-containing protein 1; PAS domain, heterodimer, internal cavity, activator, angiogenesis, congenital erythrocytosis; 1.17A {Homo sapiens} SCOP: d.110.3.7 PDB: 3f1o_A* 3f1n_A 3h7w_A* 3h82_A* 1p97_A 2a24_A 4h6j_A
Probab=99.46 E-value=1.7e-13 Score=78.31 Aligned_cols=79 Identities=15% Similarity=0.180 Sum_probs=64.6
Q ss_pred ceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCCe
Q psy8548 3 SNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGYH 82 (102)
Q Consensus 3 ~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~~ 82 (102)
+.|++.|++ ++++++|+++++++||+.++++|+ ....+.+|.+.....+.+...+..+..+..++++++++|+.
T Consensus 10 ~~i~~~d~~----g~i~~~n~~~~~~~Gy~~~el~g~--~~~~~~~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~dG~~ 83 (117)
T 3f1p_A 10 TFLSEHSMD----MKFTYCDDRITELIGYHPEELLGR--SAYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLAKHGGY 83 (117)
T ss_dssp EEEEEECTT----CBEEEECTHHHHHHCCCHHHHTTS--BGGGGBCGGGHHHHHHHHHHHHHHSEEECCCEEEECTTSSE
T ss_pred cEEEEECCC----ceEEEECcChhhhhCCCHHHHcCC--chhheECHHHHHHHHHHHHHHHhCCCeeeeEEEEEecCCCE
Confidence 466778887 899999999999999999999998 55545555555666667777777788888899999999999
Q ss_pred eeecc
Q psy8548 83 EEEEE 87 (102)
Q Consensus 83 ~~~~~ 87 (102)
+|++.
T Consensus 84 ~w~~~ 88 (117)
T 3f1p_A 84 VWLET 88 (117)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 99864
No 7
>2r78_A Sensor protein; sensory box sensor histidine kinase/response regulator, structural genomics, PSI, MCSG; 1.60A {Geobacter sulfurreducens pca}
Probab=99.46 E-value=1.1e-12 Score=75.49 Aligned_cols=79 Identities=14% Similarity=0.145 Sum_probs=60.6
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+++|+++|.+ |+++++|+++++++||+.++++|+ +...+.++... .........+..+..+..+...++++|+
T Consensus 21 ~d~i~~~d~~----g~i~~vN~a~~~l~Gy~~~el~g~--~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~e~~~~~kdG~ 93 (117)
T 2r78_A 21 IDGIFIMDAE----GHYLDVNPAICSAIGYTRDEFLAL--DWGVLSRGVDS-GWAAASLARIVGGEPLREERTVWTRNGD 93 (117)
T ss_dssp SSEEEEECTT----SBEEEECHHHHHHHCCCHHHHTTC--BTTTTTTCSTT-SHHHHHHHHHHTTCCEEEEEEEECTTSC
T ss_pred CceEEEECCC----CCEEEecHHHHHHHCcCHHHHcCC--CHHHhCCccch-hHHHHHHHHHHcCCcEEEEEEEEecCCC
Confidence 5789999987 899999999999999999999998 55444433222 1223345556677778889999999999
Q ss_pred eeeecc
Q psy8548 82 HEEEEE 87 (102)
Q Consensus 82 ~~~~~~ 87 (102)
.+|++.
T Consensus 94 ~~~v~~ 99 (117)
T 2r78_A 94 QLTVEL 99 (117)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 988763
No 8
>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase, phosphoprotein, transfe flavoprotein; HET: FAD; 2.34A {Methylococcus capsulatus}
Probab=99.44 E-value=1.2e-12 Score=83.37 Aligned_cols=79 Identities=18% Similarity=0.330 Sum_probs=69.9
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
.++|+++|.+ ++|+++|++|++++||+.++++|+ ....+.++.........++..+..+..|.+++..++++|+
T Consensus 121 ~~~i~~~d~~----g~i~~~N~~~~~~~G~~~~e~~g~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~k~G~ 194 (227)
T 3ewk_A 121 SEMILLTDRA----GRIIYANPALCRFSGMAEGELLGQ--SPSILDSPLADQETLAAMQEALQAGQPWSGRLLNRRRTGP 194 (227)
T ss_dssp CSEEEEECTT----SCEEEECHHHHHHHTCCTHHHHSS--CGGGGBCTTSCHHHHHHHHHHHHHTCCEECCEEEEEECCS
T ss_pred cCeEEEEcCC----CcEEEEchHHHHHhCCCHHHHcCC--ChhhccCCCCCHHHHHHHHHHHHcCCceeEEEEEECCCCC
Confidence 4678899987 899999999999999999999999 7777777777888888999999999999999999999997
Q ss_pred ------eeeec
Q psy8548 82 ------HEEEE 86 (102)
Q Consensus 82 ------~~~~~ 86 (102)
.+|++
T Consensus 195 ~~~dg~~~~~~ 205 (227)
T 3ewk_A 195 APHDAEDYWAE 205 (227)
T ss_dssp SSSCEEEEEEE
T ss_pred cCcccceEEEE
Confidence 67764
No 9
>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase, phosphoprotein, transfe flavoprotein; HET: FAD; 2.34A {Methylococcus capsulatus}
Probab=99.43 E-value=2.1e-12 Score=82.18 Aligned_cols=78 Identities=14% Similarity=0.232 Sum_probs=68.0
Q ss_pred eEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCCee
Q psy8548 4 NFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGYHE 83 (102)
Q Consensus 4 ~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~~~ 83 (102)
.|+++|.+ |+|+++|++|++++||+.++++|+ +...+.++.........++..+..+..+..++..++++|+.+
T Consensus 1 ~i~i~D~~----g~i~~~N~a~~~l~Gy~~~el~G~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~ 74 (227)
T 3ewk_A 1 LVSITDLQ----GRILYANDNFCAVSRYGREELVGQ--DHRIVNSGYHGKAYIRDMWRTISRGNIWQGEFCNRRKDGTRY 74 (227)
T ss_dssp CEEEEETT----CBEEEECHHHHHHTTCCHHHHTTS--BGGGGCCSCSCHHHHHHHHHHHTTTCCEEEEEEEECSSSCEE
T ss_pred CEEEECCC----CcEEehHHHHHHHHCcCHHHHcCC--CHHHcCCCCCCHHHHHHHHHHHHcCCeEEEEEEEEcCCCCEE
Confidence 37889987 999999999999999999999999 766676666677777888888889999999999999999998
Q ss_pred eecc
Q psy8548 84 EEEE 87 (102)
Q Consensus 84 ~~~~ 87 (102)
|+..
T Consensus 75 ~~~~ 78 (227)
T 3ewk_A 75 WVDS 78 (227)
T ss_dssp EEEE
T ss_pred eeee
Confidence 8763
No 10
>4hia_A LOV protein; PAS, HTH, signaling protein; HET: FMN; 1.95A {Rhodobacter sphaeroides} PDB: 4hnb_A* 4hj4_A* 4hj6_A* 4hj3_A*
Probab=99.43 E-value=3.8e-12 Score=77.34 Aligned_cols=83 Identities=23% Similarity=0.421 Sum_probs=70.4
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++++|+++|...++ ++|+++|++|++++||+.++++|+ +...+.++.........+...+..+..+..++...+++|
T Consensus 16 ~~~~i~~~d~~~~~-g~i~~~N~a~~~~~G~~~~e~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 92 (176)
T 4hia_A 16 SGVALTLVDMSLPE-QPVVLANPPFLRMTGYTEGQILGF--NCRFLQRGDENAQARADIRDALKLGRELQVVLRNYRAND 92 (176)
T ss_dssp CSSCCEEEETTSTT-CCEEEECHHHHHHHTCCHHHHTTS--CGGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEECTTC
T ss_pred CCCcEEEEecCCCC-CcEEEECHHHHHHHCcCHHHHcCC--CcceeeCCCCCHHHHHHHHHHHHcCCceEEEEEEEcCCC
Confidence 35688999986555 899999999999999999999999 766666676777777888888888999999999999999
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
+.+|+.
T Consensus 93 ~~~~~~ 98 (176)
T 4hia_A 93 EPFDNL 98 (176)
T ss_dssp CEEEEE
T ss_pred CEEEEE
Confidence 988865
No 11
>3t50_A Blue-light-activated histidine kinase; PAS superfamily, blue-light photoreceptor, FMN binding, TRAN; HET: FMN; 1.64A {Brucella melitensis}
Probab=99.40 E-value=1e-11 Score=71.32 Aligned_cols=83 Identities=27% Similarity=0.562 Sum_probs=67.7
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++.+|+++|...++ ++|+++|++|+.++|++.++++|+ ....+.++.........+...+..+..+..++...+.+|
T Consensus 6 ~~~~i~~~d~~~~~-g~i~~~N~~~~~l~g~~~~e~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g 82 (128)
T 3t50_A 6 TLMPMLITNPHLPD-NPIVFANPAFLKLTGYEADEVMGR--NCRFLQGHGTDPAHVRAIKSAIAAEKPIDIDIINYKKSG 82 (128)
T ss_dssp CSSCEEEECTTSTT-CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEECTTC
T ss_pred CcccEEEecCCCCC-CcEEEEcHHHHHHhCcCHHHHcCC--CHhhhcCCccCHHHHHHHHHHHHcCCCceeEEEEEcCCC
Confidence 35789999982111 899999999999999999999998 666666666677777788888888888999999889999
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
..+|+.
T Consensus 83 ~~~~~~ 88 (128)
T 3t50_A 83 EAFWNR 88 (128)
T ss_dssp CEEEEE
T ss_pred CEEEEE
Confidence 887764
No 12
>3p7n_A Sensor histidine kinase; LOV domain, light-activated transcription factor, DNA bindin; HET: FMN; 2.10A {Erythrobacter litoralis}
Probab=99.40 E-value=5.7e-12 Score=81.37 Aligned_cols=82 Identities=20% Similarity=0.452 Sum_probs=69.7
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+++|+++|....+ ++|+++|++|++++||+.++++|+ ....+.++.........+...+..+..+..++..++++|.
T Consensus 73 ~~~i~~~d~~~~~-g~i~~~N~a~~~l~G~~~~el~g~--~~~~l~~~~~~~~~~~~~~~~l~~~~~~~~e~~~~~~dG~ 149 (258)
T 3p7n_A 73 PIASVVSDPRLAD-NPLIAINQAFTDLTGYSEEECVGR--NCRFLAGSGTEPWLTDKIRQGVREHKPVLVEILNYKKDGT 149 (258)
T ss_dssp SSEEEEECTTSTT-CCEEEECHHHHHHHCCCGGGTTTS--CGGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEECTTSC
T ss_pred CccEEEEcCCCCC-CcEEEEhHHHHHHcCCCHHHHCCC--ChhhccCCCCchhHHHHHHHHHHcCCCeEEEEEEEcCCCC
Confidence 5689999982111 789999999999999999999999 7777777777777888888888899999999999999999
Q ss_pred eeeec
Q psy8548 82 HEEEE 86 (102)
Q Consensus 82 ~~~~~ 86 (102)
.+|+.
T Consensus 150 ~~~~~ 154 (258)
T 3p7n_A 150 PFRNA 154 (258)
T ss_dssp EEEEE
T ss_pred EEEEe
Confidence 88764
No 13
>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*
Probab=99.38 E-value=7.7e-12 Score=83.37 Aligned_cols=83 Identities=30% Similarity=0.646 Sum_probs=70.0
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++++|+++|...++ |+|+++|++|++++||+.++++|+ +...+.++.........+...+..+..+..+++.++++|
T Consensus 20 ~~~~i~~~D~~~~~-g~i~~~N~a~~~l~G~~~~el~G~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 96 (332)
T 2wkq_A 20 IEKNFVITDPRLPD-NPIIFASDSFLQLTEYSREEILGR--NARFLQGPETDRATVRKIRDAIDNQTEVTVQLINYTKSG 96 (332)
T ss_dssp CCSEEEEECTTSTT-CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTCCHHHHHHHHHHHHTTCCEEEEEEEECTTC
T ss_pred CCCcEEEecCCCCC-CCEEEeehHHHHHhCCCHHHHcCC--CchhhcCCCCCHHHHHHHHHHHHcCCeeEEEEEEEcCCC
Confidence 46799999982222 999999999999999999999999 666676666777777888888989999999999999999
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
+.+|++
T Consensus 97 ~~~~~~ 102 (332)
T 2wkq_A 97 KKFWNL 102 (332)
T ss_dssp CEEEEE
T ss_pred CEEEEe
Confidence 987764
No 14
>3ue6_A Aureochrome1; PAS/LOV domain, FMN-binding blue-light photoreceptor, signal protein; HET: FMN; 2.75A {Vaucheria frigida} PDB: 3ulf_A*
Probab=99.37 E-value=1.6e-11 Score=73.36 Aligned_cols=82 Identities=32% Similarity=0.634 Sum_probs=68.0
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+++|+++|...++ ++|+++|++|++++||+.++++|+ +...+.++.........+...+..+..+..++...+++|.
T Consensus 45 ~~~i~~~d~~~~~-g~i~~~N~~~~~l~G~~~~e~~g~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~ 121 (166)
T 3ue6_A 45 QQNFVITDASLPD-NPIVYASRGFLTLTGYSLDQILGR--NCRFLQGPETDPRAVDKIRNAITKGVDTSVCLLNYRQDGT 121 (166)
T ss_dssp TSCEEEEETTSTT-CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTSCHHHHHHHHHHHHHTCCEEEEEEEECTTSC
T ss_pred CceEEEEEccCCC-CcEEEECHHHHHHhCcCHHHHcCC--CHhheeCCCCCHHHHHHHHHHHhcCCceEEEEEEEcCCCC
Confidence 5689999982112 899999999999999999999998 6666666666777777888888888889999998899998
Q ss_pred eeeec
Q psy8548 82 HEEEE 86 (102)
Q Consensus 82 ~~~~~ 86 (102)
.+|+.
T Consensus 122 ~~~~~ 126 (166)
T 3ue6_A 122 TFWNL 126 (166)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 87764
No 15
>3d72_A Vivid PAS protein VVD; circadian, photoreceptor, blue-light, LOV, signaling protein; HET: FAD; 1.65A {Neurospora crassa} PDB: 3is2_A* 2pd8_A* 3hjk_A* 2pdr_A* 2pd7_A* 2pdt_A* 3hji_A* 3rh8_B*
Probab=99.36 E-value=2e-11 Score=72.05 Aligned_cols=82 Identities=28% Similarity=0.570 Sum_probs=65.4
Q ss_pred ceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCC-----------CHHHHHHHHHHHHhCCcEEE
Q psy8548 3 SNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDT-----------SEEHKTQIEKALESKTELKL 71 (102)
Q Consensus 3 ~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~-----------~~~~~~~i~~~l~~~~~~~~ 71 (102)
.+|+++|..... ++|+++|+++++++||+.++++|+ ....+.++.. .......+...+..+..+..
T Consensus 36 ~~i~~~d~~d~~-g~i~~~N~a~~~l~G~~~~el~g~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 112 (149)
T 3d72_A 36 VALILCDLKQKD-TPIVYASEAFLYMTGYSNAEVLGR--NCRFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRNAEVQV 112 (149)
T ss_dssp SCEEEEETTSTT-CCEEEECHHHHHHHCCCHHHHTTS--CGGGGGSTTSCCCTTCCCSSSCHHHHHHHHHHHHHTCCEEE
T ss_pred ccEEEEeccCCC-CcEEEECHHHHHHHCcCHHHHcCC--ChhHhCCccccccccccccccChHHHHHHHHHHHCCCceEE
Confidence 578888831112 899999999999999999999999 6665655542 56666777788888888999
Q ss_pred EEEEEecCCCeeeecc
Q psy8548 72 EVIFYKKNGYHEEEEE 87 (102)
Q Consensus 72 e~~~~~~~G~~~~~~~ 87 (102)
++..++++|+.+|+.-
T Consensus 113 e~~~~~~dG~~~~~~~ 128 (149)
T 3d72_A 113 EVVNFKKNGQRFVNFL 128 (149)
T ss_dssp EEEEECTTCCEEEEEE
T ss_pred EEEEECCCCCEEEEEE
Confidence 9999999999888753
No 16
>2kdk_A ARYL hydrocarbon receptor nuclear translocator-LI 2; circadian clock, PAS domain, transcription, activator, biolo rhythms, DNA-binding, nucleus; NMR {Homo sapiens}
Probab=99.36 E-value=8.4e-12 Score=71.32 Aligned_cols=80 Identities=14% Similarity=0.182 Sum_probs=60.4
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHh-CCcEEEEEEEEecCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALES-KTELKLEVIFYKKNG 80 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~-~~~~~~e~~~~~~~G 80 (102)
+++|++.|.+ ++++++|+++++++||+.++++|+ ....+.++.........+...+.. +..+..++++++++|
T Consensus 13 ~~~i~~~d~~----g~i~~~N~~~~~~~G~~~~el~g~--~~~~~~~p~d~~~~~~~~~~~~~~~~~~~~~e~r~~~~dG 86 (121)
T 2kdk_A 13 TEFITRFAVN----GKFVYVDQRATAILGYLPQELLGT--SCYEYFHQDDHNNLTDKHKAVLQSKEKILTDSYKFRAKDG 86 (121)
T ss_dssp SEEEEEECTT----SBEEEECTHHHHHTCCCTTTSBTS--BTTTTBCSSSHHHHHHHHHHHHTSSSCEEEEEEEEECSSS
T ss_pred ccEEEEECCC----eeEEEEChhHHHHHCCCHHHHcCC--cHHHeeCHHHHHHHHHHHHHHHhCCCCCccEEEEEEEcCC
Confidence 4577888887 899999999999999999999998 544444554444444555555554 344577889999999
Q ss_pred Ceeeecc
Q psy8548 81 YHEEEEE 87 (102)
Q Consensus 81 ~~~~~~~ 87 (102)
+.+|++.
T Consensus 87 ~~~~~~~ 93 (121)
T 2kdk_A 87 SFVTLKS 93 (121)
T ss_dssp CEEEEEE
T ss_pred CEEEEEE
Confidence 9998864
No 17
>2vv6_A FIXL, sensor protein FIXL; signaling protein, transferase, phosphoprotein, nitrogen FIX PER-ARNT-SIM, metal-binding, PAS, iron, heme; HET: HEM; 1.5A {Bradyrhizobium japonicum} PDB: 1xj6_A* 1xj4_A* 2vv7_A* 2vv8_A* 1lsw_A* 1dp8_A* 1dp9_A* 1drm_A* 1lsv_A* 1dp6_A* 1lsx_A* 1lt0_A* 1y28_A* 2cmn_A* 1xj3_A* 1xj2_A* 2owh_A* 2owj_A*
Probab=99.35 E-value=7.9e-12 Score=71.64 Aligned_cols=80 Identities=11% Similarity=0.115 Sum_probs=55.3
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCc----EEEEEEEE
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTE----LKLEVIFY 76 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~----~~~e~~~~ 76 (102)
++++|+++|.+ |+|+++|+++++++||+.++++|+ +...+.++.........+......+.. ...++..+
T Consensus 2 ~~d~i~~~d~~----g~i~~~N~a~~~l~G~~~~el~G~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (119)
T 2vv6_A 2 IPDAMIVIDGH----GIIQLFSTAAERLFGWSELEAIGQ--NVNILMPEPDRSRHDSYISRYRTTSDPHIIGIGRIVTGK 75 (119)
T ss_dssp CCCEEEEEETT----SBEEEECHHHHHHHCCCHHHHTTS--BGGGGSCTTHHHHHHHHHHHHHHHCCCSSTTTCEEEEEE
T ss_pred CcceEEEECCC----CeEEEEhHHHHHHhCCCHHHHcCC--CHHHhCCchHHHHHHHHHHHHhcCCCcccCCCceEEEEE
Confidence 36789999987 899999999999999999999998 655554433222222223333333321 23466778
Q ss_pred ecCCCeeeec
Q psy8548 77 KKNGYHEEEE 86 (102)
Q Consensus 77 ~~~G~~~~~~ 86 (102)
+++|+.+|++
T Consensus 76 ~~dG~~~~~~ 85 (119)
T 2vv6_A 76 RRDGTTFPMH 85 (119)
T ss_dssp CTTSCEEEEE
T ss_pred eCCCCEEEEE
Confidence 8999988775
No 18
>1d06_A Nitrogen fixation regulatory protein FIXL; oxygen sensor, histidine kinase, PAS, high-resolution, two-C system, signaling protein; HET: HEM; 1.40A {Sinorhizobium meliloti} SCOP: d.110.3.2 PDB: 1ew0_A*
Probab=99.35 E-value=8.5e-12 Score=72.62 Aligned_cols=79 Identities=14% Similarity=0.174 Sum_probs=55.7
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCc----EEEEEEEEe
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTE----LKLEVIFYK 77 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~----~~~e~~~~~ 77 (102)
+++|+++|.+ |+|+++|+++++++||+.++++|+ +...+.++.........+......+.. ...++..++
T Consensus 26 ~d~i~~~d~~----g~i~~~N~a~~~l~Gy~~~eliG~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 99 (130)
T 1d06_A 26 PDATVVSATD----GTIVSFNAAAVRQFGYAEEEVIGQ--NLRILMPEPYRHEHDGYLQRYMATGEKRIIGIDRVVSGQR 99 (130)
T ss_dssp SSEEEEEETT----SBEEEECHHHHHHHCCCHHHHTTS--BGGGGSCTTHHHHHHHHHHHHHHHCCCSSTTSCEEEEEEC
T ss_pred cCeEEEECCC----CeEEEEcHHHHHHHCCCHHHHcCC--cHHHHCCchhHHHHHHHHHHHHhcCCccccCCeeEEEEEe
Confidence 5789999987 899999999999999999999998 655555443322222233333333321 234667789
Q ss_pred cCCCeeeec
Q psy8548 78 KNGYHEEEE 86 (102)
Q Consensus 78 ~~G~~~~~~ 86 (102)
++|+.+|++
T Consensus 100 kdG~~~~~~ 108 (130)
T 1d06_A 100 KDGSTFPMK 108 (130)
T ss_dssp TTSCEEEEE
T ss_pred CCCCEEEEE
Confidence 999988875
No 19
>1byw_A Protein (human ERG potassium channel); PAS domain, potassium channel domain, membrane protein; 2.60A {Homo sapiens} SCOP: d.110.3.6
Probab=99.35 E-value=4.7e-11 Score=65.49 Aligned_cols=82 Identities=41% Similarity=0.802 Sum_probs=65.8
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCC--cccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCA--CKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKN 79 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~--~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~ 79 (102)
+++|+++|...++ ++|+++|++++.++|++.++++|+ . ...+.++.........+...+..+..+..++...+++
T Consensus 1 ~~~i~i~d~~~~~-g~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 77 (110)
T 1byw_A 1 SRKFIIANARVEN-CAVIYCNDGFCELCGYSRAEVMQR--PCTCDFLHGPCTQRRAAAQIAQALLGAEERKVEIAFYRKD 77 (110)
T ss_dssp CCEEEEEETTSSS-CBEEEECHHHHHHHTCCHHHHTTS--BTTCGGGCCTTCCHHHHHHHHHHHHTTCCEEEEEEEECTT
T ss_pred CCCEEEEeccCCC-CcEEEECHHHHHHhCCCHHHHccC--CCccccccCCcCCHHHHHHHHHHHhcCCCceEEEEEEcCC
Confidence 4688999975444 899999999999999999999998 6 4555555556666667777788888888888888899
Q ss_pred CCeeeec
Q psy8548 80 GYHEEEE 86 (102)
Q Consensus 80 G~~~~~~ 86 (102)
|..+|+.
T Consensus 78 g~~~~~~ 84 (110)
T 1byw_A 78 GSCFLCL 84 (110)
T ss_dssp SCEEEEE
T ss_pred CCEEEEE
Confidence 9887764
No 20
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG, structural genomics, center for structural genomics; 1.65A {Burkholderia thailandensis} PDB: 3mqo_A
Probab=99.32 E-value=7.9e-12 Score=71.62 Aligned_cols=79 Identities=16% Similarity=0.177 Sum_probs=59.3
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCC-HHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTS-EEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~-~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
+.+|+ ++.+ ++|+++|++|++++||+.++++|+ ....+.++... ......+...+..+..+..++..++++|
T Consensus 13 ~~~i~-~~~~----g~i~~~N~a~~~l~G~~~~el~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG 85 (120)
T 3mqq_A 13 PIGLV-LSRD----RVIEDCNDELAAIFRCARADLIGR--SFEVLYPSSDEFERIGERISPVMIAHGSYADDRIMKRAGG 85 (120)
T ss_dssp SSEEE-EEET----TEEEEECHHHHHHTTSCHHHHTTC--BGGGGSSSHHHHHHHHHHHHHHHHHHSCEEEEEEEECTTS
T ss_pred CceEE-EecC----CEEHHHHHHHHHHhCcCHHHhCCC--chhhccCChhhHHHHHHHHHHHHhcCCcceEEEEEEeCCC
Confidence 45675 4655 899999999999999999999998 65555443222 2344455566677778889999999999
Q ss_pred Ceeeecc
Q psy8548 81 YHEEEEE 87 (102)
Q Consensus 81 ~~~~~~~ 87 (102)
+.+|+.-
T Consensus 86 ~~~~~~~ 92 (120)
T 3mqq_A 86 ELFWCHV 92 (120)
T ss_dssp CEEEEEE
T ss_pred CEEEEEE
Confidence 9998753
No 21
>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory system, two-component signal transduction, transferase, phosphorylation, SCOD; 1.7A {Bacillus subtilis}
Probab=99.32 E-value=5.5e-12 Score=72.99 Aligned_cols=77 Identities=12% Similarity=0.018 Sum_probs=56.1
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHH-hCCcEEEEEEEEecC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALE-SKTELKLEVIFYKKN 79 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~-~~~~~~~e~~~~~~~ 79 (102)
+++.|+++|.+ |+++|+|+++++++||+.++++|+ ....+.+|.+..... ..+. .......++++++++
T Consensus 8 ~~d~i~v~d~~----G~i~yvn~~~~~~lGy~~~el~G~--~~~~~ihp~D~~~~~----~~~~~~~~~~~~e~r~~~kd 77 (111)
T 2vlg_A 8 KTDIHAVLASN----GRIIYISANSKLHLGYLQGEMIGS--FLKTFLHEEDQFLVE----SYFYNEHHLMPCTFRFIKKD 77 (111)
T ss_dssp -CCEEEEECTT----SBEEEECTTHHHHHSCCHHHHTTS--BGGGGBCGGGHHHHH----HHHHCSCCSSCEEEEEECTT
T ss_pred CCCEEEEEcCC----CeEEEEChHHHHHhCCCHHHHcCC--cHHHeECHhHHHHHH----HHHhccCCCccEEEEEEcCC
Confidence 35678899877 899999999999999999999998 544444444433332 2222 233345678889999
Q ss_pred CCeeeecc
Q psy8548 80 GYHEEEEE 87 (102)
Q Consensus 80 G~~~~~~~ 87 (102)
|+.+|++.
T Consensus 78 G~~~wve~ 85 (111)
T 2vlg_A 78 HTIVWVEA 85 (111)
T ss_dssp SCEEEEEE
T ss_pred CCEEEEEE
Confidence 99999865
No 22
>3mfx_A Sensory BOX/ggdef family protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Shewanella oneidensis}
Probab=99.31 E-value=5.1e-12 Score=74.84 Aligned_cols=80 Identities=13% Similarity=0.145 Sum_probs=54.9
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhC-------CcEEEEE
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESK-------TELKLEV 73 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~-------~~~~~e~ 73 (102)
++++|+++|.+ |+|+++|+++++++||+.++++|+ +...+.++.........+......+ ..+..++
T Consensus 16 ~~d~i~~~D~~----g~I~~~N~aa~~l~G~~~~el~G~--~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~E~ 89 (129)
T 3mfx_A 16 LTEAMILVNAN----GFIRSCNQRSAELLDCPQVSLKGQ--DWRNFLTEHHQARYDNLLSHDVQLGTNCGQPVQHPAQET 89 (129)
T ss_dssp CSSEEEEEETT----SBEEEECHHHHHHTTSCHHHHTTS--BGGGGBCTTCCGGGGCTTC----------CCSCEEEEEE
T ss_pred CCceEEEECCC----CEEEeEhHHHHHHHCcCHHHHcCC--cHHHHcChHhHHHHHHHHHHHHhcCcccccccCCCceEE
Confidence 46799999998 999999999999999999999999 6554444433221111111111111 1345788
Q ss_pred EEEecCCCeeeec
Q psy8548 74 IFYKKNGYHEEEE 86 (102)
Q Consensus 74 ~~~~~~G~~~~~~ 86 (102)
..++++|+.+|++
T Consensus 90 ~~~rkdG~~~~ve 102 (129)
T 3mfx_A 90 TLICASGKAKDVE 102 (129)
T ss_dssp EEECTTSCEEEEE
T ss_pred EEEcCCCCEEEEE
Confidence 8899999999886
No 23
>3olo_A Two-component sensor histidine kinase; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG, TRA; 2.09A {Nostoc SP}
Probab=99.26 E-value=2.3e-11 Score=68.68 Aligned_cols=75 Identities=11% Similarity=0.173 Sum_probs=56.5
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++++|+++|.+ |+++++|+++++++||+.++++|+ ....+.+...... +..+..+..+..+....+++|
T Consensus 22 ~~~~i~~~d~~----g~i~~~N~~~~~l~G~~~~el~g~--~~~~~~~~~~~~~-----~~~~~~~~~~~~e~~~~~~~g 90 (118)
T 3olo_A 22 AVEASFCLGDN----WQFLYVNDATCRMTEYSREQLLSM--NLQDIDVDFALHD-----WEEIRQKNNYTFKTRYRSQSG 90 (118)
T ss_dssp CSSEEEEECTT----SBEEEECHHHHHHHCCCHHHHTTC--BGGGTBTTGGGSC-----HHHHHHHSEEEEEEEEECTTC
T ss_pred CCceEEEECCC----CcEEEEHHHHHHHHCCCHHHHhCC--ChhhcccccCHHH-----HHHHHhcCcEEEEEEEEccCC
Confidence 35789999987 899999999999999999999998 5544443222111 233445567778888899999
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
+.+|++
T Consensus 91 ~~~~~~ 96 (118)
T 3olo_A 91 RIFLVE 96 (118)
T ss_dssp CEEEEE
T ss_pred CEEEEE
Confidence 988875
No 24
>3lyx_A Sensory BOX/ggdef domain protein; structural genomics, PSI- 2, protein structure initiative, northeast structural genomics consortium; 2.00A {Colwellia psychrerythraea}
Probab=99.25 E-value=2e-10 Score=64.19 Aligned_cols=80 Identities=20% Similarity=0.247 Sum_probs=65.8
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++.+++++|.+ ++++++|++++.++|++.++++|+ ....+.++.........+...+..+..+..+....+.+|
T Consensus 16 ~~~~i~~~d~~----~~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 89 (124)
T 3lyx_A 16 VFDAIVVTDLQ----GFIIDWNKGSETLYGYSKEQAIGQ--PVNMLHVPGDTEHITSEVISAVENQGKWTGEIRMLHKDG 89 (124)
T ss_dssp CSSEEEEEETT----CBEEEECHHHHHHHCCCHHHHTTS--BGGGGSCTTTHHHHHHHHHHHHHHTSCEEEEEEEECTTS
T ss_pred cCceEEEECCC----CcEeehhhHHHHHhCCCHHHHcCC--CHHHhcCcchhhHHHHHHHHHHHcCCcccceEEEEccCC
Confidence 35789999987 899999999999999999999998 655555555555566667778888888888999889999
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
..+|+.
T Consensus 90 ~~~~~~ 95 (124)
T 3lyx_A 90 HIGWIE 95 (124)
T ss_dssp CEEEEE
T ss_pred CEEEEE
Confidence 887764
No 25
>2z6d_A Phototropin-2; PAS-fold, LOV-fold, alternative splicing, ATP-binding, chromophore, flavoprotein, FMN, kinase, membrane, nucleotide-binding; HET: FMN; 2.00A {Arabidopsis thaliana} PDB: 2z6c_A*
Probab=99.19 E-value=8.4e-10 Score=61.93 Aligned_cols=80 Identities=29% Similarity=0.606 Sum_probs=64.9
Q ss_pred CCceEEEEe---CCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEe
Q psy8548 1 MNSNFVLGN---AQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYK 77 (102)
Q Consensus 1 ~~~~i~i~d---~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~ 77 (102)
++++++++| .+ +.++++|++++.++|++.++++|+ ....+..+.........+...+..+..+..++...+
T Consensus 15 ~~~~i~~~d~~d~~----~~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (130)
T 2z6d_A 15 LQQTFVVSDATQPH----CPIVYASSGFFTMTGYSSKEIVGR--NCRFLQGPDTDKNEVAKIRDCVKNGKSYCGRLLNYK 88 (130)
T ss_dssp TTCEEEEEETTSTT----CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEEC
T ss_pred cccceeeeeccCCC----CcEEEecHHHHHHhCcCHHHHcCC--ChhhccCCCCCchHHHHHHHHHHcCCcceeEEEEEc
Confidence 357889999 65 899999999999999999999998 665566665666666777777888888888888888
Q ss_pred cCCCeeeec
Q psy8548 78 KNGYHEEEE 86 (102)
Q Consensus 78 ~~G~~~~~~ 86 (102)
.+|..+|+.
T Consensus 89 ~~g~~~~~~ 97 (130)
T 2z6d_A 89 KDGTPFWNL 97 (130)
T ss_dssp TTSCEEEEE
T ss_pred CCCcEEEEE
Confidence 888877654
No 26
>2v0u_A NPH1-1, LOV2; kinase, transferase, ATP-binding, serine/threonine-protein kinase, light-induced signal trans phototropin1, nucleotide-binding; HET: FMN; 1.40A {Avena sativa} PDB: 2v0w_A* 2v1b_A* 2v1a_A* 1jnu_A* 1g28_A*
Probab=99.18 E-value=8.8e-10 Score=63.25 Aligned_cols=80 Identities=31% Similarity=0.672 Sum_probs=65.1
Q ss_pred CCceEEEEeC---CCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEe
Q psy8548 1 MNSNFVLGNA---QVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYK 77 (102)
Q Consensus 1 ~~~~i~i~d~---~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~ 77 (102)
++.+++++|. + +.++++|++++.++|++.++++|+ +...+..+.........+...+..+..+..++...+
T Consensus 11 ~~~~i~~~d~~~~~----~~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (146)
T 2v0u_A 11 IEKNFVITDPRLPD----NPIIFASDSFLQLTEYSREEILGR--NCRFLQGPETDRATVRKIRDAIDNQTEVTVQLINYT 84 (146)
T ss_dssp SSSCEEEECTTSTT----CCEEEECHHHHHHHCCCHHHHTTS--CGGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEEC
T ss_pred CCCcEEEEcCCCCC----ceEEEEcHHHHHHHCcCHHHHcCC--CHHHhcCCcCChHHHHHHHHHHhcCCCcceEEEEEe
Confidence 3568899998 6 899999999999999999999998 666566666666667777788888888888888888
Q ss_pred cCCCeeeec
Q psy8548 78 KNGYHEEEE 86 (102)
Q Consensus 78 ~~G~~~~~~ 86 (102)
.+|..+|+.
T Consensus 85 ~~g~~~~~~ 93 (146)
T 2v0u_A 85 KSGKKFWNL 93 (146)
T ss_dssp TTCCEEEEE
T ss_pred cCCcEEEEE
Confidence 888766553
No 27
>3sw1_A Sensory box protein; light-oxygen-voltage, LOV, PAS, signaling protein; HET: FMN; 2.63A {Pseudomonas putida}
Probab=99.17 E-value=4.3e-10 Score=66.89 Aligned_cols=80 Identities=25% Similarity=0.456 Sum_probs=65.7
Q ss_pred CCceEEEEeCCCCCCC---CEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEe
Q psy8548 1 MNSNFVLGNAQVPSLY---PIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYK 77 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~---~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~ 77 (102)
+..+|+++|.+ + +|+++|++++.++|++.++++|+ ....+..+.........+...+..+..+..++...+
T Consensus 34 ~~~~i~~~d~~----~~~~~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 107 (162)
T 3sw1_A 34 SNDGIVVAEKE----GDDTILIYVNAAFEYLTGYSRDEILYQ--DCRFLQGDDRDQLGRARIRKAMAEGRPCREVLRNYR 107 (162)
T ss_dssp CSSEEEEEEEE----TTEEEEEEECHHHHHHHTCCHHHHTTS--BGGGGTTTCCCCHHHHHHHHHHHHTCCEEEEEEEEC
T ss_pred ccCcEEEEeCC----CCccEEEEECHHHHHHHCCCHHHHcCC--CcceecCCCcCHHHHHHHHHHHhcCCCCcceEEEEC
Confidence 35689999987 7 99999999999999999999998 656565555555666677788888888888888888
Q ss_pred cCCCeeeec
Q psy8548 78 KNGYHEEEE 86 (102)
Q Consensus 78 ~~G~~~~~~ 86 (102)
.+|..+|+.
T Consensus 108 ~~g~~~~~~ 116 (162)
T 3sw1_A 108 KDGSAFWNE 116 (162)
T ss_dssp TTCCEEEEE
T ss_pred CCCCEEEEE
Confidence 899887764
No 28
>2l0w_A Potassium voltage-gated channel, subfamily H (EAG member 2, isoform CRA_B; HERG, PAS domain, voltage-gated potassium channel, membrane; NMR {Homo sapiens} PDB: 2l1m_A 2l4r_A
Probab=99.15 E-value=8.5e-10 Score=62.87 Aligned_cols=79 Identities=42% Similarity=0.825 Sum_probs=64.2
Q ss_pred CceEEEEeC---CCCCCCCEEEecHHHHHhhCCChhhhcCCCCC--cccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEE
Q psy8548 2 NSNFVLGNA---QVPSLYPIVYCSDGFCELSGFARAQIMQKGCA--CKFLYGPDTSEEHKTQIEKALESKTELKLEVIFY 76 (102)
Q Consensus 2 ~~~i~i~d~---~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~--~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~ 76 (102)
+.+|+++|. + ++++++|++++.++|++.++++|+ . ...+..+.........+...+..+..+..+....
T Consensus 29 ~~~i~~~d~~~~~----g~i~~~N~~~~~l~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 102 (138)
T 2l0w_A 29 SRKFIIANARVEN----CAVIYCNDGFCELCGYSRAEVMQR--PCTCDFLHGPRTQRRAAAQIAQALLGAEERKVEIAFY 102 (138)
T ss_dssp TSEEEEEESSSTT----CBEEEECSHHHHHHSCCHHHHTTS--BTTCGGGCCTTCCHHHHHHHHHHTTCSSCEEEEEEEE
T ss_pred CCCEEEEecCCCC----CEEEEeCHHHHHHhCCCHHHHcCC--CCcccccCCcccchhHHHHHHHHHhhcCCceeEEEEE
Confidence 568899998 6 899999999999999999999998 6 4556666666666667777777777788888888
Q ss_pred ecCCCeeeec
Q psy8548 77 KKNGYHEEEE 86 (102)
Q Consensus 77 ~~~G~~~~~~ 86 (102)
+++|..+|+.
T Consensus 103 ~~~g~~~~~~ 112 (138)
T 2l0w_A 103 RKDGSCFLCL 112 (138)
T ss_dssp CTTSCEEEEE
T ss_pred CCCCCEEEEE
Confidence 8899887754
No 29
>3luq_A Sensor protein; PAS, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: PGE; 2.49A {Geobacter sulfurreducens}
Probab=99.11 E-value=8.3e-10 Score=61.51 Aligned_cols=78 Identities=15% Similarity=0.244 Sum_probs=54.2
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEE-EEEecC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEV-IFYKKN 79 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~-~~~~~~ 79 (102)
++.+|+++|.+ ++++++|+++++++|++.++++|+ ....+. +.........+...+ .+.....+. ...+.+
T Consensus 12 ~~~~i~~~d~~----g~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~ 83 (114)
T 3luq_A 12 APAALAMFDRE----MRYLAVSRRWREDYGLGDGDILGM--SHYDIF-PEIGEEWKSVHRRGL-AGEVIRVEEDCFVRAD 83 (114)
T ss_dssp CSSEEEEEETT----CBEEEECHHHHHHTTCCSSCCTTC--BHHHHC-TTCCHHHHHHHHHHH-TTCCEEEEEEEEEC--
T ss_pred CCceEEEEcCC----cEEEEECHHHHHHHCCCHHHHcCC--cHHHHC-CccHHHHHHHHHHHh-cCCcceeeeeEEEcCC
Confidence 35789999987 899999999999999999999998 554444 334444444444444 455544443 677888
Q ss_pred CCeeeec
Q psy8548 80 GYHEEEE 86 (102)
Q Consensus 80 G~~~~~~ 86 (102)
|..+|+.
T Consensus 84 g~~~~~~ 90 (114)
T 3luq_A 84 GRTQWLR 90 (114)
T ss_dssp CCEEEEE
T ss_pred CcEEEEE
Confidence 9887764
No 30
>3h9w_A Diguanylate cyclase with PAS/PAC sensor; alpha-beta protein., structural genomics, PSI-2, protein STR initiative; 1.90A {Marinobacter aquaeolei}
Probab=99.11 E-value=1.1e-10 Score=66.22 Aligned_cols=81 Identities=12% Similarity=-0.008 Sum_probs=61.7
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCc-ccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCAC-KFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~-~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
+.++|.+|.. . ++++|+|+++++++||+.+++++. .. ..+.+|.+.......+...+..+..+..++++++++|
T Consensus 3 ~~giw~~d~~--~-~~~~~~n~~~~~l~G~~~~e~~~~--~~~~~~ihpdd~~~~~~~~~~~~~~~~~~~~e~r~~~~dG 77 (115)
T 3h9w_A 3 KAIPWKINWQ--T-MAFEYIGPQIEALLGWPQGSWKSV--EDWATRMHPEDQEWVVNFCVKQSECGVDHEADYRALHRDG 77 (115)
T ss_dssp CCEEEEEETT--T-TEEEEECTHHHHHHCSCGGGCCBH--HHHHHSBCHHHHHHHHHHHHHHHHTTCCEEEEEEEECTTS
T ss_pred ceEEEEEEcC--C-CcEEEEChhHHHHhCCChHHccCH--HHHHHhcCHHHHHHHHHHHHHHHhcCCcccEEEEEEcCCC
Confidence 4678888954 3 789999999999999999998863 21 1233344444555666777777788999999999999
Q ss_pred Ceeeecc
Q psy8548 81 YHEEEEE 87 (102)
Q Consensus 81 ~~~~~~~ 87 (102)
+.+|+..
T Consensus 78 ~~~w~~~ 84 (115)
T 3h9w_A 78 HYVWIRD 84 (115)
T ss_dssp CEEEEEE
T ss_pred CEEEEEE
Confidence 9999864
No 31
>3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; 2.60A {Desulfitobacterium hafniense}
Probab=99.10 E-value=7.3e-10 Score=62.90 Aligned_cols=79 Identities=14% Similarity=0.222 Sum_probs=58.3
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++++|+++|.+ ++++++|+++++++|++.++++|+ ....+.++.........+...+..+.. ..++...+.+|
T Consensus 8 ~~~~i~~~d~~----g~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~g 80 (126)
T 3mjq_A 8 IEDMILIINRE----GRLLYANTAVPKKLGYTHEELMSM--HILTITSAGKMAEGEKILAELFAGKKE-SLPLSLEKKEG 80 (126)
T ss_dssp CSSEEEEEETT----SBEEEECTHHHHHHSCCHHHHHHS--BHHHHHCTTCHHHHHHHHHHHHHTCCS-EEEEEEECTTS
T ss_pred CCceEEEEeCC----CcEEEEcHHHHHHHCCCHHHHcCC--CHHHHcCchhHHHHHHHHHHHHhCCCc-eeEEEEEccCC
Confidence 35789999987 899999999999999999999998 655455544444444444444444443 67777788899
Q ss_pred Ceeeec
Q psy8548 81 YHEEEE 86 (102)
Q Consensus 81 ~~~~~~ 86 (102)
..+|+.
T Consensus 81 ~~~~~~ 86 (126)
T 3mjq_A 81 TSIPAK 86 (126)
T ss_dssp CEEEEE
T ss_pred CEEEEE
Confidence 887765
No 32
>3bwl_A Sensor protein; structural genomics, APC87707.1, PAS domain, HTR-like protei protein structure initiative; HET: MSE I3A; 1.73A {Haloarcula marismortui atcc 43049}
Probab=99.08 E-value=1.2e-09 Score=62.59 Aligned_cols=76 Identities=17% Similarity=0.225 Sum_probs=50.2
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhc--CCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIM--QKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKN 79 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~--g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~ 79 (102)
+++|+++|.+ |+|+++|++|++++||+.++++ |+ ....+.+ ........+ .....+.....+....+++
T Consensus 27 ~~~i~~~d~~----g~i~~~N~a~~~~~G~~~~el~g~g~--~~~~~~~--~~~~~~~~~-~~~~~~~~~~~e~~~~~~d 97 (126)
T 3bwl_A 27 PDMIDVLDAD----GTICEVNQRFCAELGYDESEVLGRSI--WEFDLMF--DAEDVQTQL-SGFSVDERRKFEGLYERRD 97 (126)
T ss_dssp SSEEEEECTT----CBEEEECHHHHHHHTCCGGGTTTSBG--GGTBTTC--CHHHHHHHH-HTCCTTCEEEEEEEEECTT
T ss_pred CcEEEEEcCC----CCEEEEcHHHHHHhCCCHHHHhhCCC--chhhccC--CHHHHHHHH-HHHhcCCCcceEEEEEeCC
Confidence 5688999987 8999999999999999999995 45 3332322 212221111 1111233445566777999
Q ss_pred CCeeeec
Q psy8548 80 GYHEEEE 86 (102)
Q Consensus 80 G~~~~~~ 86 (102)
|+.+|++
T Consensus 98 G~~~~~~ 104 (126)
T 3bwl_A 98 GSTMSVE 104 (126)
T ss_dssp SCEEEEE
T ss_pred CCEEEEE
Confidence 9988875
No 33
>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.37A {Chromobacterium violaceum}
Probab=99.08 E-value=8.4e-10 Score=62.34 Aligned_cols=82 Identities=12% Similarity=0.071 Sum_probs=62.5
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+.+++++|.. ++++++|++++.++|++.++++|.......+..+.+.......+...+..+..+..++++.+++|.
T Consensus 17 ~~~i~~~d~~----~~~~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~ 92 (125)
T 3nja_A 17 GIGSWVLHME----SGRLEWSQAVHDIFGTDSATFDATEDAYFQRVHPDDRARVRRELDRHVLGDRPFDVEYRIVRPDGQ 92 (125)
T ss_dssp CCEEEEEETT----TTEEEECHHHHHHHTCCTTTCCCBHHHHHHHBCTTTHHHHHHHHHHHHHSCCCEEEEEEEECTTSC
T ss_pred CeeEEEEEcC----CCcEEECHHHHHHhCCCcccccccHHHHHhhcChhHHHHHHHHHHHHHhcCCCceEEEEEECCCCC
Confidence 4688999987 899999999999999999998873102222334445555666667777778888899999999999
Q ss_pred eeeecc
Q psy8548 82 HEEEEE 87 (102)
Q Consensus 82 ~~~~~~ 87 (102)
.+|+..
T Consensus 93 ~~~~~~ 98 (125)
T 3nja_A 93 VRELLE 98 (125)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 888754
No 34
>3fg8_A Uncharacterized protein RHA05790; PAS domain, structural genomics, PS protein structure initiative, midwest center for structural genomics, MCSG; HET: 3PB; 1.80A {Rhodococcus SP}
Probab=99.07 E-value=7.7e-10 Score=63.47 Aligned_cols=77 Identities=13% Similarity=0.127 Sum_probs=55.8
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNG 80 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G 80 (102)
++++|+++|.+ ++|+++|+++++++|++.++++|+ +...+.++.........+...+..+.....++.....+|
T Consensus 21 ~~~~i~~~D~~----g~i~~~N~a~~~l~g~~~~e~~G~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 94 (118)
T 3fg8_A 21 GGLGFMALDED----LRIIYVNSGCLRHVRRSRDELLGR--VVTEVLPETQGSYFDALCRKVLATGREQQTRVDSLYSPG 94 (118)
T ss_dssp TTCEEEEECTT----CBEEEECHHHHHHHTCCHHHHTTS--BHHHHCGGGTTSHHHHHHHHHHHHCCCEEEEEECSSSTT
T ss_pred CCceEEEECCC----CeEEEECHHHHHHhCCCHHHHcCC--cHHHHcCccchHHHHHHHHHHHHcCCceEEEEEEEcCCC
Confidence 46789999987 899999999999999999999998 654444443344455666777778877766433333355
Q ss_pred Cee
Q psy8548 81 YHE 83 (102)
Q Consensus 81 ~~~ 83 (102)
.++
T Consensus 95 ~~~ 97 (118)
T 3fg8_A 95 MTI 97 (118)
T ss_dssp CEE
T ss_pred eEE
Confidence 543
No 35
>3mr0_A Sensory box histidine kinase/response regulator; PAS fold, structural genomics, PSI-2; HET: PG5; 1.49A {Burkholderia thailandensis}
Probab=99.04 E-value=2.7e-09 Score=62.92 Aligned_cols=82 Identities=13% Similarity=0.159 Sum_probs=63.0
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
+.++|.+|+. +.++++|++++.++||+..++.+.......+.+|.+.......+...+..+..+..++++++++|.
T Consensus 19 ~~g~w~~d~~----~~~~~~s~~~~~~~G~~~~~~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~e~r~~~~~G~ 94 (142)
T 3mr0_A 19 SAGLWDWNPK----TGAMYLSPHFKKIMGYEDHELPDEITGHRESIHPDDRARVLAALKAHLEHRDTYDVEYRVRTRSGD 94 (142)
T ss_dssp TCEEEEECTT----TCCEEECHHHHHHTTCCGGGSCSEEC---CCBCTTTHHHHHHHHHHHHHHCCCEEEEEEEECTTSC
T ss_pred CcEEEEEEcC----CCeEEECHHHHHHhCCCccccCCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCceEEEEEEECCCCC
Confidence 4578889987 788999999999999999987653101222345556666777777888888889999999999999
Q ss_pred eeeecc
Q psy8548 82 HEEEEE 87 (102)
Q Consensus 82 ~~~~~~ 87 (102)
.+|+..
T Consensus 95 ~~w~~~ 100 (142)
T 3mr0_A 95 FRWIQS 100 (142)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 988764
No 36
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=99.00 E-value=3.2e-10 Score=77.36 Aligned_cols=71 Identities=10% Similarity=0.048 Sum_probs=57.8
Q ss_pred CCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCCeeeecch
Q psy8548 16 YPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGYHEEEEEE 88 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~~~~~~~~ 88 (102)
|.++|+|++++.++||+.++++|+ ....+.+|++.......+...+..+..+..++++++++|..+|+++.
T Consensus 261 g~~~~vn~~~~~ilGY~~eEl~g~--~~~~~iHpdD~~~~~~~~~~~l~~g~~~~~eyR~~~kdG~~vWv~~~ 331 (361)
T 4f3l_A 261 WKFLFLDHRAPPIIGYLPFEVLGT--SGYDYYHVDDLENLAKCHEHLMQYGKGKSCYYRFLTKGQQWIWLQTH 331 (361)
T ss_dssp SBEEEECTTSHHHHCCCHHHHTTS--BGGGGBCHHHHHHHHHHHHHHHHHSEEECCCEEEECTTSEEEEEEEE
T ss_pred ceEEEECChhhhhhCcCHHHHcCC--CHHHeECHHHHHHHHHHHHHHHhCCCcceEEEEEEecCCCEEEEEEE
Confidence 899999999999999999999998 54445555555555566777777777777889999999999999763
No 37
>1ll8_A PAS kinase; PAS domain, ligand binding, ligand screening, kinase regulation, transferase; NMR {Homo sapiens} SCOP: d.110.3.5
Probab=98.99 E-value=2.3e-10 Score=64.95 Aligned_cols=79 Identities=14% Similarity=0.218 Sum_probs=51.7
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHH-HHh-CCcE---EEEEEEE
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKA-LES-KTEL---KLEVIFY 76 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~-l~~-~~~~---~~e~~~~ 76 (102)
+++|+++|.+ . |+|+++|+++++++||+.++++|+ +...+.++..... ...+... +.. +... ..++..+
T Consensus 8 ~~~i~~~d~~--~-g~I~~~N~aa~~l~G~~~~el~g~--~~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (114)
T 1ll8_A 8 NKAIFTVDAK--T-TEILVANDKACGLLGYSSQDLIGQ--KLTQFFLRSDSDV-VEALSEEHMEADGHAAVVFGTVVDII 81 (114)
T ss_dssp TCEEEEEETT--T-CBEEEECTTHHHHHTCCTTTTTTS--BGGGGSSCTTTHH-HHHTTSSTTSSSSCSSCCCSSSEEEC
T ss_pred CceEEEEECC--C-CeEEEehHHHHHHhCCCHHHHcCC--CHHHhcCcchhHH-HHHHHHHhhccCCcceeccCcEEEEE
Confidence 4688999974 2 799999999999999999999998 6555555433322 2222211 111 1111 2345667
Q ss_pred ecCCCeeeec
Q psy8548 77 KKNGYHEEEE 86 (102)
Q Consensus 77 ~~~G~~~~~~ 86 (102)
+++|+.+|++
T Consensus 82 ~~dG~~~~v~ 91 (114)
T 1ll8_A 82 SRSGEKIPVS 91 (114)
T ss_dssp CTTCCCEEEE
T ss_pred ecCCCEEEEE
Confidence 8999988765
No 38
>3rty_A Period circadian protein; PAS domain, signalling, timeless, circadian clock protein; 2.85A {Drosophila melanogaster} PDB: 1wa9_A 3gec_A
Probab=98.98 E-value=1.4e-09 Score=73.98 Aligned_cols=78 Identities=14% Similarity=0.096 Sum_probs=60.2
Q ss_pred EEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCc-----EEEEEEEEecC
Q psy8548 5 FVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTE-----LKLEVIFYKKN 79 (102)
Q Consensus 5 i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~-----~~~e~~~~~~~ 79 (102)
+...+++ |.++|+|+++..++||..++++|+ ....+.+|++.....+.+...+..|.. ...++++++++
T Consensus 157 i~r~~~d----G~~~yvn~~~~~lLGY~peELiG~--s~~~~vHPdD~~~~~~~~~~~l~~G~~~~~~~~s~~yR~~~kd 230 (339)
T 3rty_A 157 AIRHTAT----GIISHVDSAAVSALGYLPQDLIGR--SIMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPYRFLIQN 230 (339)
T ss_dssp EEEEETT----CBEEEECTTHHHHHCCCHHHHTTS--BGGGGBCGGGHHHHHHHHHHHHHHTTSTTCCCBCCCEEEECTT
T ss_pred EEEECCC----CeEEEcChhhhcccCCCHHHHcCC--cHHHEECHHHHHHHHHHHHHHHHcCCcccccccceEEEEEccC
Confidence 4455565 899999999999999999999999 544555565555566666677766653 35689999999
Q ss_pred CCeeeecch
Q psy8548 80 GYHEEEEEE 88 (102)
Q Consensus 80 G~~~~~~~~ 88 (102)
|..+|+++.
T Consensus 231 G~~vWlet~ 239 (339)
T 3rty_A 231 GCYVLLETE 239 (339)
T ss_dssp SCEEEEEEE
T ss_pred CCEEEEEEE
Confidence 999999764
No 39
>1nwz_A PYP, photoactive yellow protein; PAS, LOV, GAF, domains fold, signaling protein; HET: HC4; 0.82A {Halorhodospira halophila} SCOP: d.110.3.1 PDB: 1kou_A* 1ot9_A* 1otb_A* 1s4r_A* 1s4s_A* 1ts0_A* 1ts6_A* 1ts7_A* 1ts8_A* 1uwn_X* 1uwp_X* 2d01_A* 2phy_A* 2pyp_A* 2pyr_A* 2qj5_A* 2qj7_A* 2qws_A* 2zoh_A* 2zoi_A* ...
Probab=98.93 E-value=1.2e-08 Score=60.34 Aligned_cols=79 Identities=10% Similarity=0.052 Sum_probs=58.2
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCccc-ccCCCCCHHHHHHHHHHHHhCCcEEEEEEE-Eec
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKF-LYGPDTSEEHKTQIEKALESKTELKLEVIF-YKK 78 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~-l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~-~~~ 78 (102)
++.|++++|.+ ++|+++|++.++++|+++++++|+ ++.. +.+......+...+.+.+..+. +...... .+.
T Consensus 26 l~~Gii~lD~~----g~I~~~N~~~e~~sG~~~~eviGk--~~f~~~~~~~~~~~f~~rf~~~~~~g~-l~~~~~~v~~~ 98 (125)
T 1nwz_A 26 LAFGAIQLDGD----GNILQYNAAEGDITGRDPKQVIGK--NFFKDVAPCTDSPEFYGKFKEGVASGN-LNTMFEYTFDY 98 (125)
T ss_dssp CSSEEEEEETT----CBEEEECHHHHHHHCCCHHHHTTS--BCCCCCCGGGCSTTTHHHHHHHHHHTC-CEEEEEEEECT
T ss_pred cCceEEEECCC----CEEEEEHHHHHHHhCCCHHHHcCC--chhhhccchhcccHHHHHHHHHHhcCc-eeEEEEEEEcC
Confidence 46789999998 999999999999999999999999 6533 3332334455666777777666 4444443 478
Q ss_pred CCCeeeec
Q psy8548 79 NGYHEEEE 86 (102)
Q Consensus 79 ~G~~~~~~ 86 (102)
+|+++++.
T Consensus 99 ~~~p~~v~ 106 (125)
T 1nwz_A 99 QMTPTKVK 106 (125)
T ss_dssp TSCCEEEE
T ss_pred CCCEEEEE
Confidence 88877664
No 40
>3icy_A Sensor protein; sensory box histidine kinase/response regulator domain, kinase, chlorobium tepidum TLS, PSI-2; 2.68A {Chlorobaculum tepidum}
Probab=98.93 E-value=4.8e-10 Score=63.08 Aligned_cols=80 Identities=11% Similarity=-0.062 Sum_probs=62.7
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCc--ccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCAC--KFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKN 79 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~--~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~ 79 (102)
+.+++++|.. +.++++|++++.++||+.+++.+. .. ..+.++.+.......+...+..+..+..++++.+++
T Consensus 14 ~~~i~~~d~~----~~~~~~n~~~~~~~G~~~~~~~~~--~~~~~~~i~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~~ 87 (118)
T 3icy_A 14 PAAIYHLDVS----GQATIRFRPPAFLKTLVSEHAGTT--RLNTLSMIHHDDRHMLSNAYSKLREAKHSLTLVYRIVTPE 87 (118)
T ss_dssp CCCCEEECTT----SCEEECCCCCGGGGGGEEEETTEE--EEGGGGGBCGGGHHHHHHHHHHHHHSCCEEEEEEEEECTT
T ss_pred CceEEEEEcC----CCceEEechhHhhcCCCHHHccCC--hhHHHHHcCHHHHHHHHHHHHHHHhcCCCceEEEEEECCC
Confidence 5678888987 899999999999999999998775 32 223344455556666777777888888999999999
Q ss_pred CCeeeecc
Q psy8548 80 GYHEEEEE 87 (102)
Q Consensus 80 G~~~~~~~ 87 (102)
|+.+|+..
T Consensus 88 g~~~w~~~ 95 (118)
T 3icy_A 88 GKLHWIED 95 (118)
T ss_dssp CCEEEEEE
T ss_pred CCEEEEEE
Confidence 99988864
No 41
>1mzu_A PPR; photoactive yellow protein, PAS, PYP, signaling protein; HET: HC4; 2.00A {Rhodospirillum centenum} SCOP: d.110.3.1
Probab=98.92 E-value=1.4e-08 Score=60.16 Aligned_cols=79 Identities=10% Similarity=0.005 Sum_probs=58.3
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCccc-ccCCCCCHHHHHHHHHHHHhCCcEEEEEEE-Eec
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKF-LYGPDTSEEHKTQIEKALESKTELKLEVIF-YKK 78 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~-l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~-~~~ 78 (102)
++.|++++|.+ ++|+++|++.++++|+++++++|+ ++.. +.+......+...+.+.+..+. +...... .+.
T Consensus 31 l~~GiivlD~d----g~I~~~N~~~e~isG~s~eeviGk--~~f~~~~p~~~~~~f~grf~~~~~~G~-l~~~~~yv~~~ 103 (129)
T 1mzu_A 31 LPVGAIQVDGS----GVIHRYNRTESRLSGRIPERVIGR--NFFTEVAPCTNIPAFSGRFMDGVTSGT-LDARFDFVFDF 103 (129)
T ss_dssp CSSEEEEEETT----CBEEEECHHHHHHHCCCHHHHTTS--BCCCCCCGGGCSTTTHHHHHHHHHTSC-CEEEEEEEEEC
T ss_pred cCceEEEECCC----CeEEEEHHHHHHHhCCCHHHHcCC--chhhhccchhcccHHHHHHHHHHhcCc-eeEEEEEEEcC
Confidence 46789999998 999999999999999999999999 6533 3332334455666777777665 5544444 478
Q ss_pred CCCeeeec
Q psy8548 79 NGYHEEEE 86 (102)
Q Consensus 79 ~G~~~~~~ 86 (102)
+|+++++.
T Consensus 104 ~~~p~~v~ 111 (129)
T 1mzu_A 104 QMAPVRVQ 111 (129)
T ss_dssp SSCEEEEE
T ss_pred CCCEEEEE
Confidence 88877764
No 42
>3a0s_A Sensor protein; PAS-fold, kinase, phosphoprotein, transferase, two-component regulatory system; HET: PG4 PGE; 1.47A {Thermotoga maritima} PDB: 3a0v_A*
Probab=98.90 E-value=6e-08 Score=51.63 Aligned_cols=61 Identities=18% Similarity=0.163 Sum_probs=46.0
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEE
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELK 70 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~ 70 (102)
|+++|+++|.+ ++++++|+++++++|++.++++|+ +...+ + ........+...+..+..+.
T Consensus 1 ~~~~i~~~d~~----g~i~~~N~~~~~l~g~~~~~~~g~--~~~~~-~--~~~~~~~~~~~~~~~~~~~~ 61 (96)
T 3a0s_A 1 METAIITLSKD----GRITEWNKKAEQLFGLKKENVLGR--RLKDL-P--DFEEIGSVAESVFENKEPVF 61 (96)
T ss_dssp CCCEEEEEETT----SBEEEECHHHHHHHCCCHHHHTTS--BGGGS-T--TCHHHHHHHHHHHHHTCCEE
T ss_pred CCceEEEEcCC----CCEeehhHHHHHHhCCCHHHhcCC--CHHHC-c--chHHHHHHHHHHhccCCeEE
Confidence 67899999987 899999999999999999999998 65544 2 23344445555566565553
No 43
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm, protein binding; 2.50A {Mus musculus}
Probab=98.90 E-value=6.6e-09 Score=70.02 Aligned_cols=71 Identities=13% Similarity=0.101 Sum_probs=56.3
Q ss_pred CCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCc---EEEEEEEEecCCCeeeecch
Q psy8548 16 YPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTE---LKLEVIFYKKNGYHEEEEEE 88 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~---~~~e~~~~~~~G~~~~~~~~ 88 (102)
|.++|+|+++..++||..++++|+ ....+.++++.....+.....+..+.. ...++++++++|.++|+++.
T Consensus 184 G~~~yvs~~~~~lLGY~peELig~--s~~~~vHPdD~~~~~~~~~~~l~~~~~~~f~s~~yR~~~kdG~~vwvet~ 257 (317)
T 4dj3_A 184 CVFLEVDERAVPLLGYLPQDLIGT--SILTYLHPEDRPLMVAIHQKVLKYAGHPPFEHSPVRFCTQNGEYVILDSS 257 (317)
T ss_dssp SBEEEECTTHHHHHSCCHHHHTTS--BGGGGBCTTTTTHHHHHHHHHHHTTTSCCEECCCEEEECTTSCEEEEEEE
T ss_pred CeEEEEChHHhhhcCcChHHHcCC--CHHHeECHHHHHHHHHHHHHHHHcCCCccccceEEEEEccCCCEEEEEEE
Confidence 899999999999999999999999 544455555555666666666765543 35789999999999999875
No 44
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=98.86 E-value=2.7e-09 Score=73.48 Aligned_cols=78 Identities=9% Similarity=0.091 Sum_probs=56.5
Q ss_pred EEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCC-cEEEEEEEEecCCCee
Q psy8548 5 FVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKT-ELKLEVIFYKKNGYHE 83 (102)
Q Consensus 5 i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~-~~~~e~~~~~~~G~~~ 83 (102)
++..+.+ |.++|+|++++.++||+.++++|+ ....+.+|++.......+...+..+. .+..++++++++|.++
T Consensus 281 i~~~~~d----g~~~~vn~~~~~ilGY~~eEl~g~--~~~~~iHpdD~~~~~~~~~~~l~~~~~~~~~eyR~~~kdG~~v 354 (387)
T 4f3l_B 281 VSRHAID----GKFVFVDQRATAILAYLPQELLGT--SCYEYFHQDDIGHLAECHRQVLQTREKITTNCYKFKIKDGSFI 354 (387)
T ss_dssp EEEECTT----SBEEEECTHHHHHHCCCHHHHTTS--BGGGTBCHHHHHHHHHHHHHHTTCSSCEECCCEEEECTTSCEE
T ss_pred EEEECCC----CEEEEECCCcccccCCCHHHHcCC--cHHHeeCHHHHHHHHHHHHHHHhcCCCeeeEEEEEEccCCCEE
Confidence 3444555 899999999999999999999998 44334444444444445555554444 3557999999999999
Q ss_pred eecch
Q psy8548 84 EEEEE 88 (102)
Q Consensus 84 ~~~~~ 88 (102)
|+++.
T Consensus 355 Wv~~~ 359 (387)
T 4f3l_B 355 TLRSR 359 (387)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 99753
No 45
>3b33_A Sensor protein; structural genomics, PAS domain, nitrogen regulation protein APC91440.4, PSI-2; HET: MSE; 1.83A {Vibrio parahaemolyticus rimd 2210633}
Probab=98.86 E-value=1.1e-08 Score=57.59 Aligned_cols=76 Identities=14% Similarity=0.135 Sum_probs=51.2
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcE-EEEEEEEecC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTEL-KLEVIFYKKN 79 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~-~~e~~~~~~~ 79 (102)
++++|+++|.+ ++|+++|+++++++|++.++++|+ +...+.++... ....+...+..+... ..+.... ++
T Consensus 16 ~~~~i~~~D~~----g~I~~~N~aa~~l~g~~~~~~~g~--~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~-~~ 86 (115)
T 3b33_A 16 MVTATLILDDG----LAIRYANPAAELLFSQSAKRIVEQ--SLSQLIQHASL--DLALLTQPLQSGQSITDSDVTFV-VD 86 (115)
T ss_dssp CSSEEEEECTT----CBEEEECHHHHHHTTSCHHHHTTC--BHHHHCSEEEC--CTHHHHHHHHHCCCEEEEEEEEE-ET
T ss_pred cCceEEEECCC----CcEEEECHHHHHHhCCCHHHHhCC--CHHHHhCccch--hhHHHHHHHHcCCcccCCceEEe-cC
Confidence 46799999988 899999999999999999999998 54433322111 112334455555543 3455554 67
Q ss_pred CCeeee
Q psy8548 80 GYHEEE 85 (102)
Q Consensus 80 G~~~~~ 85 (102)
|+.+|+
T Consensus 87 g~~~~~ 92 (115)
T 3b33_A 87 GRPLML 92 (115)
T ss_dssp TEEEEE
T ss_pred CCEEEE
Confidence 876664
No 46
>3eeh_A Putative light and redox sensing histidine kinase; structural genomic MCSG, protein structure initiative, midwest center for STRU genomics; HET: PG5; 1.95A {Haloarcula marismortui}
Probab=98.84 E-value=1.1e-08 Score=57.09 Aligned_cols=80 Identities=14% Similarity=0.098 Sum_probs=56.5
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCccc--ccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKF--LYGPDTSEEHKTQIEKALESKTELKLEVIFYKKN 79 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~--l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~ 79 (102)
+.+++++|.. . ++++++|++++.++|++.++++|+ ...+ +..+......... ...+..+..+..+++..+++
T Consensus 21 ~~~i~~~d~~--~-~~i~~~n~~~~~~~g~~~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~e~~~~~~~ 94 (125)
T 3eeh_A 21 NDILWEFTAD--L-SEVLVINSAYEDIWGRSVAKLREN--PHDFLNGIHPEDRELMKDT-MQSLMDGESADVECRVNATE 94 (125)
T ss_dssp CCEEEEEETT--S-SCEEEECTHHHHHHSSCHHHHHHC--GGGGGGGBCHHHHHHHHHH-HHHHHTTCCEEEEEEECGGG
T ss_pred CceEEEEEcC--C-CcEEEecHHHHHHHCCCHHHHccC--cHHHHHhcCHHHHHHHHHH-HHHHHcCCCccEEEEEEcCC
Confidence 5688888875 3 799999999999999999999987 4211 2222222223233 33356777788898888999
Q ss_pred CCeeeecc
Q psy8548 80 GYHEEEEE 87 (102)
Q Consensus 80 G~~~~~~~ 87 (102)
|+.+|+..
T Consensus 95 g~~~~~~~ 102 (125)
T 3eeh_A 95 EYQRWVWI 102 (125)
T ss_dssp TTCEEEEE
T ss_pred CCEEEEEE
Confidence 98887753
No 47
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological rhythms, cytoplasm, nucleus, phosphoprotein, transcription; 2.40A {Mus musculus}
Probab=98.84 E-value=1.8e-08 Score=67.64 Aligned_cols=71 Identities=11% Similarity=0.126 Sum_probs=55.3
Q ss_pred CCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhC-CcEE-EEEEEEecCCCeeeecch
Q psy8548 16 YPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESK-TELK-LEVIFYKKNGYHEEEEEE 88 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~-~~~~-~e~~~~~~~G~~~~~~~~ 88 (102)
|.++|+|+++..++||..++++|+ ....+.++++.....+.....+..+ ..+. .++++++++|..+|+++.
T Consensus 175 G~~~yvd~~~~~lLGY~peELig~--s~~~~iHpdD~~~~~~~~~~~l~~~g~~~~~~~yR~~~kdG~~vwvet~ 247 (309)
T 3gdi_A 175 CLFQAVDERAVPLLGYLPQDLIET--PVLVQLHPSDRPLMLAIHKKILQAGGQPFDYSPIRFRTRNGEYITLDTS 247 (309)
T ss_dssp CBEEEECTTHHHHHSCCHHHHTTS--BHHHHBCTTSHHHHHHHHHHHHHTTTCCEEEEEEEEECTTSCEEEEEEE
T ss_pred CeEEEECcccccccCcCHHHHcCC--CHHHhCCHHHHHHHHHHHHHHHhcCCceeeceEEEEEccCCCEEEEEEE
Confidence 899999999999999999999998 5444555555555555556666644 3455 589999999999999874
No 48
>1v9y_A Heme PAS sensor protein; signaling protein; HET: HEM; 1.32A {Escherichia coli} SCOP: d.110.3.2 PDB: 1v9z_A* 1vb6_A* 1s67_L* 1s66_L*
Probab=98.80 E-value=2.2e-08 Score=59.25 Aligned_cols=79 Identities=19% Similarity=0.221 Sum_probs=51.1
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCc----EEEEEEEEe
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTE----LKLEVIFYK 77 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~----~~~e~~~~~ 77 (102)
+.+|+++|.+ +.++++|++++.++|++.++++|+ ....+.++.........+......+.. +..+....+
T Consensus 50 ~~~i~~~d~~----g~i~~~N~~~~~l~g~~~~~~~g~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 123 (167)
T 1v9y_A 50 MMGAVLINEN----DEVMFFNPAAEKLWGYKREEVIGN--NIDMLIPRDLRPAHPEYIRHNREGGKARVEGMSRELQLEK 123 (167)
T ss_dssp SSEEEEECTT----SBEEEECHHHHHHHSCCGGGTTTS--BGGGGSCGGGTTTHHHHHHHHHC----------CEEEEEC
T ss_pred CCCEEEECCC----CcEEEECHHHHHHhCCCHHHHcCC--ChhhccCccccchHHHHHHHHhhcCCCcccccceEEEEEc
Confidence 5688899987 899999999999999999999998 555444433322222333333333322 344666777
Q ss_pred cCCCeeeec
Q psy8548 78 KNGYHEEEE 86 (102)
Q Consensus 78 ~~G~~~~~~ 86 (102)
.+|..+|+.
T Consensus 124 ~~g~~~~~~ 132 (167)
T 1v9y_A 124 KDGSKIWTR 132 (167)
T ss_dssp TTSCEEEEE
T ss_pred CCCcEEEEE
Confidence 788776653
No 49
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock protein, protein binding; 2.75A {Mus musculus}
Probab=98.79 E-value=1.1e-08 Score=69.13 Aligned_cols=71 Identities=11% Similarity=0.144 Sum_probs=54.0
Q ss_pred CCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHh-CCcE-EEEEEEEecCCCeeeecch
Q psy8548 16 YPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALES-KTEL-KLEVIFYKKNGYHEEEEEE 88 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~-~~~~-~~e~~~~~~~G~~~~~~~~ 88 (102)
|+++|+|+++..++||..++++|+ ....+.++++.....+.+...+.. +... ..++++++++|.++|+++.
T Consensus 186 G~~~yvd~~~~~lLGY~peELig~--s~~~~vHPdD~~~~~~~~~~~l~~~g~~~~~~~yR~~~kdG~~vwvet~ 258 (320)
T 4dj2_A 186 CLFQDVDERAAPLLGYLPQDLLGA--PVLLFLHPEDRPLMLAIHKKILQLAGQPFDHSPIRFCARNGEYVTMDTS 258 (320)
T ss_dssp CBEEEECTTHHHHHSCCHHHHTTS--BGGGGBCGGGHHHHHHHHHHHTTSSSCCEECCCEEEECSSSCEEEEECE
T ss_pred ceEEEcCcceeccCCcChHHHcCC--cHHHhCCHHHHHHHHHHHHHHHhcCCCcccceEEEEEccCCCEEEEEEE
Confidence 899999999999999999999999 544455555544555555555553 4445 3689999999999999875
No 50
>4eho_A Bacteriophytochrome, PAS/PAC sensor; photoreceptor, bacteriopbhytochrome; HET: MSE BLA; 2.90A {Rhodopseudomonas palustris tie-1}
Probab=98.75 E-value=8.2e-09 Score=75.03 Aligned_cols=79 Identities=8% Similarity=0.054 Sum_probs=64.6
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEEEecCCC
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIFYKKNGY 81 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~~~~~G~ 81 (102)
.++|+++|.+ |+|+++|++|++++||+.++++|+ .......+.+ ......+...+..+..++++++++++||+
T Consensus 528 ~~~i~~~D~~----grI~~~N~a~~~l~G~s~~e~~g~--~~l~~~~~~~-~~~~~~i~~~l~~g~~~~~E~~~~~~dG~ 600 (635)
T 4eho_A 528 MQPVLITDAE----GRILLMNDSFRDMLPAGSPSAVHL--DDLAGFFVES-NDFLRNVAELIDHGRGWRGEVLLRGAGNR 600 (635)
T ss_dssp SSCCEEEETT----CCEEEECHHHHTTSCSSCCCCCSS--GGGTTSSSSC-THHHHHHHHHHHHCCCBCCCCEECCSSSS
T ss_pred CCcEEEECCC----CeEeeHHHHHHHHHCcChHHHcCc--chhhccCCCC-HHHHHHHHHHHHcCCcEEEEEEEEccCCc
Confidence 4678999997 899999999999999999999988 5333333433 34556778888899999999999999999
Q ss_pred eeeecc
Q psy8548 82 HEEEEE 87 (102)
Q Consensus 82 ~~~~~~ 87 (102)
.+|+.-
T Consensus 601 ~~~~~~ 606 (635)
T 4eho_A 601 PLPLAV 606 (635)
T ss_dssp CEECCC
T ss_pred EEEEEE
Confidence 998764
No 51
>3fc7_A HTR-like protein, sensor protein; APC87712.1, HTR-like protein,haloarcula marismortui ATCC 430 structural genomics, PSI-2; 2.65A {Haloarcula marismortui}
Probab=98.72 E-value=2.6e-08 Score=56.41 Aligned_cols=41 Identities=7% Similarity=0.015 Sum_probs=35.4
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCccccc
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLY 47 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~ 47 (102)
++++|+++|.+ |+|+++|+++++++|++.++++|+ +...+.
T Consensus 28 ~~~~i~~~d~~----g~i~~~N~~~~~~~g~~~~~~~g~--~~~~~~ 68 (125)
T 3fc7_A 28 SPDGIVHLTTN----GTILSVNPSMAGRLGADPDTLVGQ--QLSAVM 68 (125)
T ss_dssp SCCEEEEEETT----SBEEEECHHHHHHHTSCHHHHTTS--BGGGSS
T ss_pred CCCeEEEEcCC----CeEEEECHHHHHHhCCCHHHHcCc--cHHHhC
Confidence 46789999988 899999999999999999999998 544443
No 52
>3mxq_A Sensor protein; PSI2, MCSG, structural genomics, protein structure initiativ midwest center for structural genomics; 2.78A {Vibrio cholerae o1 biovar el tor}
Probab=98.71 E-value=1.8e-08 Score=61.21 Aligned_cols=61 Identities=18% Similarity=0.204 Sum_probs=47.9
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCc
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTE 68 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~ 68 (102)
++++|+++|.+ ++|+++|+++++++|++.++++|+ ....+.+. ......+.++..+..+.+
T Consensus 31 ~~~gi~v~D~~----g~I~~~N~a~~~~~G~~~~eviG~--~~~~~~p~-~~~~~~~~l~~vl~~G~~ 91 (152)
T 3mxq_A 31 LSFALCIVRND----YVIVKVNEYFESRVIFDGETMQGK--NILELFPE-SADYLKRKIDTALVIESS 91 (152)
T ss_dssp HCCEEEEEETT----SBEEEECHHHHHTSSSCHHHHTTS--BHHHHSGG-GHHHHHHHHHHHHHHTSC
T ss_pred CCCCEEEEcCC----CEEEEECHHHHHHHCcCHHHHCCC--CHHHhcCC-hHHHHHHHHHHHHhcCCc
Confidence 36799999998 999999999999999999999999 66555555 444455566777766543
No 53
>3k3c_A Protein RV1364C/MT1410; sensor, PAS, signal transduction, fatty-acid binding, sigma regulator, signaling protein; HET: PLM; 1.62A {Mycobacterium tuberculosis} PDB: 3k3d_A
Probab=98.65 E-value=5.1e-08 Score=57.76 Aligned_cols=63 Identities=6% Similarity=0.066 Sum_probs=45.6
Q ss_pred CCceEEEEe-CCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEE
Q psy8548 1 MNSNFVLGN-AQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKL 71 (102)
Q Consensus 1 ~~~~i~i~d-~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~ 71 (102)
++.+|+++| .+ ++++++|++++.++|++ +++|+ +...+.++.........+...+..+.....
T Consensus 26 ~~~~i~~~d~~~----~~i~~~N~~~~~~~g~~--~~~G~--~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~ 89 (158)
T 3k3c_A 26 IPAILVGLEGPD----HRFVAVNAAYRGFSPLL--DTVGQ--PAREVYPELEGQQIYEMLDRVYQTGEPQSG 89 (158)
T ss_dssp CSSEEEEEETTT----TEEEEECHHHHHHCTTC--CSTTS--BHHHHSGGGGGTTHHHHHHHHHHHCCCEEE
T ss_pred CCceEEEEECCC----cEeHHHHHHHHHHcCCc--hhcCC--cHHHhCCchhHHHHHHHHHHHHHhCCcccc
Confidence 356889999 77 89999999999999999 88998 544444443333345566667767766443
No 54
>3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain, mycobacteium tuberculos molecule binding domain; 2.30A {Mycobacterium tuberculosis}
Probab=98.62 E-value=1.2e-07 Score=58.22 Aligned_cols=64 Identities=6% Similarity=0.066 Sum_probs=46.0
Q ss_pred CCceEEEEe-CCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEE
Q psy8548 1 MNSNFVLGN-AQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLE 72 (102)
Q Consensus 1 ~~~~i~i~d-~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e 72 (102)
++.+|+++| .+ ++++++|++|++++|++ +++|+ +...+.++.........+...+..+.....+
T Consensus 46 ~~~~i~~~d~~~----g~i~~~N~a~~~l~G~~--~~~G~--~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 110 (185)
T 3kx0_X 46 IPAILVGLEGPD----HRFVAVNAAYRGFSPLL--DTVGQ--PAREVYPELEGQQIYEMLDRVYQTGEPQSGS 110 (185)
T ss_dssp CSSEEEEEETTT----TEEEEECHHHHHHCCCC--SCTTS--BHHHHCTTSCSSSSHHHHHHHHHHCCCEEEE
T ss_pred CCceEEEEECCC----cEEEEEcHHHHHHcCCc--cccCC--cHHHHCCchhhhhHHHHHHHHHHcCCccccc
Confidence 357899999 77 89999999999999999 89998 6544444444333444556666667665543
No 55
>4hi4_A Aerotaxis transducer AER2; PAS domain, diatomic GAS sensor, signaling protein; HET: HEM GOL; 2.30A {Pseudomonas aeruginosa}
Probab=98.47 E-value=1.2e-06 Score=50.04 Aligned_cols=41 Identities=17% Similarity=0.421 Sum_probs=35.2
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhC------------CChhhhcCCCCCccccc
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSG------------FARAQIMQKGCACKFLY 47 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G------------~~~~ei~g~~~~~~~l~ 47 (102)
|.++|+++|.+ ++|+++|+++++++| ++.++++|+ +...+.
T Consensus 14 ~~~gviv~D~~----g~I~~~N~a~~~llg~~~~~i~~~~~g~~~~~~~G~--~~~~~~ 66 (121)
T 4hi4_A 14 VSANVMIADND----LNIIYMNRTVSEMLGRAEADIRKQLPNFDAGRLMGA--NIDVFH 66 (121)
T ss_dssp SSSEEEEEETT----CBEEEECHHHHHHHHHTHHHHHHHCTTCCGGGCTTC--BGGGGC
T ss_pred CCccEEEEcCC----CeEEEecHHHHHHHHHHHHHHHHhcCCCChHHhcCC--CHHHhc
Confidence 56899999998 999999999999995 899999998 655444
No 56
>3vol_A Aerotaxis transducer AER2; heme, oxygen sensor protein, PAS, HAMP, cyanoMet, CN-bound, protein; HET: HEM; 2.40A {Pseudomonas aeruginosa}
Probab=98.34 E-value=2.2e-06 Score=54.94 Aligned_cols=42 Identities=14% Similarity=0.354 Sum_probs=36.2
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhh------------CCChhhhcCCCCCcccccC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELS------------GFARAQIMQKGCACKFLYG 48 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~------------G~~~~ei~g~~~~~~~l~~ 48 (102)
+..+|+++|++ |+|+|+|++|++++ ||+.++++|+ +...+.+
T Consensus 31 ~~~~vii~D~~----g~I~~~N~a~~~ll~~~~~~~~~~l~G~~~~eliG~--~~~~~~~ 84 (233)
T 3vol_A 31 VSANVMIADND----LNIIYMNRTVSEMLGRAEADIRKQLPNFDAGRLMGA--NIDVFHK 84 (233)
T ss_dssp SSSEEEEEETT----SBEEEECHHHHHHHHHTHHHHHTTCTTCCTTSCTTC--BGGGGSS
T ss_pred CCCcEEEECCC----CcEEEecHHHHHHHHHHHHHHHhhcCCCCHHHHcCC--CHHHHcC
Confidence 46789999998 99999999999998 8999999999 6665543
No 57
>2qkp_A Uncharacterized protein; structural genomics, unknown function, PSI-2, protein struct initiative; 1.75A {Streptococcus mutans}
Probab=98.21 E-value=2.6e-06 Score=51.42 Aligned_cols=67 Identities=10% Similarity=0.109 Sum_probs=46.4
Q ss_pred CCceEEEEeCCCCCCCCEEEecHH---HHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEEEEEEE
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDG---FCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELKLEVIF 75 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~---~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~~e~~~ 75 (102)
|+.+|+++|.+ ++|+|+|++ +++++| ..++++|+ +...+.++. .......+...++.+.....++..
T Consensus 28 ~~~gI~~vD~~----g~I~~~N~a~~~~~~i~g-~~~~~iGr--~v~~~~~~~-~~~~v~~i~~~l~~g~~~~~~~~~ 97 (151)
T 2qkp_A 28 LPLEITFVNKD----DIFQYYNDSVPAAEMVFK-RTPSQVGR--NVELCHPPK-VLDKVKKVFELLRNGQRDKVNMWF 97 (151)
T ss_dssp SSSEEEEEETT----SBEEEECCCSCGGGCSSC-CCGGGTTS--BGGGSSCHH-HHHHHHHHHHHHHTTSBSEEEEEE
T ss_pred CCCceEEEcCC----CeEEEEeCCCchhhhhcC-CCHHHcCC--CHHHhCCHH-HHHHHHHHHHHHHcCCccEEEEEE
Confidence 57899999998 999999999 999999 55789999 655443321 122234455566667655555544
No 58
>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protei nucleotide-binding, transcription regulation, activator; HET: PG4; 2.30A {Escherichia coli}
Probab=98.05 E-value=8.1e-06 Score=49.95 Aligned_cols=42 Identities=10% Similarity=0.143 Sum_probs=36.2
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYG 48 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~ 48 (102)
|+++|+++|.+ |+|+++|+++++++|++.++++|+ +...+.+
T Consensus 89 ~~~gvi~~D~~----g~I~~~N~aa~~llg~~~~~~~g~--~~~~~~~ 130 (190)
T 2jhe_A 89 LPEPVLSVDMK----SKVDMANPASCQLFGQKLDRLRNH--TAAQLIN 130 (190)
T ss_dssp CSSCEEEECTT----CBEEEECHHHHHHHTSCHHHHTTS--BGGGTST
T ss_pred CCCcEEEEcCC----CCEEEEcHHHHHHhCCCHHHhcCc--cHHHHhC
Confidence 56899999998 999999999999999999999998 6554443
No 59
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=98.04 E-value=5.8e-06 Score=56.27 Aligned_cols=53 Identities=11% Similarity=0.141 Sum_probs=39.9
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHH
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQI 59 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i 59 (102)
++..+++++.+ |+|+|+|++++.++||+.++++|+ ....+.+|.+.......+
T Consensus 95 ~~~~i~v~~~~----G~i~yvs~~~~~~lGy~~~el~g~--~~~~~ihp~D~~~~~~~l 147 (361)
T 4f3l_A 95 LDGFFLAIMTD----GSIIYVSESVTSLLEHLPSDLVDQ--SIFNFIPEGEHSEVYKIL 147 (361)
T ss_dssp TTEEEEEEETT----SBEEEECTTHHHHHCCCHHHHTTS--BGGGGSCGGGHHHHHHHH
T ss_pred cCceEEEEcCC----ccEEEEechhhhhcCCCHHHhcCC--cHHHhcCHHHHHHHHHHh
Confidence 35667888887 999999999999999999999999 544455554444443333
No 60
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima}
Probab=98.02 E-value=1.1e-05 Score=53.66 Aligned_cols=40 Identities=13% Similarity=0.150 Sum_probs=35.3
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccc
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFL 46 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l 46 (102)
++++|+++|.+ |+|+++|+++++++||+.++++|+ +...+
T Consensus 17 ~~~~i~~~d~~----g~i~~~N~a~~~l~G~~~~e~~G~--~~~~~ 56 (349)
T 3a0r_A 17 LETAIITLSKD----GRITEWNKKAEQLFGLKKENVLGR--RLKDL 56 (349)
T ss_dssp SSSEEEEEESS----SBCSCBCHHHHHHHSCCSTTTTTC--BSTTS
T ss_pred hcCeEEEECCC----CCEEeeHHHHHHHhCCCHHHHcCc--CHHHC
Confidence 46789999998 899999999999999999999998 65544
No 61
>2w0n_A Sensor protein DCUS; signal transduction, two-component regulatory system, PAS, kinase, membrane, transferase, solid state cell inner membrane; NMR {Escherichia coli}
Probab=97.96 E-value=3.9e-06 Score=46.51 Aligned_cols=40 Identities=10% Similarity=0.120 Sum_probs=33.8
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCC---ChhhhcCCCCCcccc
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGF---ARAQIMQKGCACKFL 46 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~---~~~ei~g~~~~~~~l 46 (102)
++++|+++|.+ ++|+++|++++.++|+ +.++++|+ +...+
T Consensus 24 ~~~~i~~~d~~----g~i~~~N~~~~~~~g~~~~~~~~~~g~--~~~~~ 66 (118)
T 2w0n_A 24 IKEGVVAVDDR----GEVTLINDAAQELLNYRKSQDDEKLST--LSHSW 66 (118)
T ss_dssp CCCCCEEEBTT----TBCCCBCHHHHHHHCSCTTTTTSSCCC--TTCCC
T ss_pred ccccEEEECCC----CcEeehhHHHHHHhCCCccChhhhhcc--Ccccc
Confidence 46789999987 8999999999999997 78899988 54433
No 62
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=97.73 E-value=4.8e-05 Score=52.29 Aligned_cols=49 Identities=6% Similarity=0.171 Sum_probs=36.5
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHH
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEH 55 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~ 55 (102)
+..+++++.+ . |+|+|+|++++.++||+.++++|+ ....+.+|++...+
T Consensus 96 ~gfi~v~~~~--~-G~i~yvs~~~~~~lG~~~~el~g~--~~~~~ihp~D~~~~ 144 (387)
T 4f3l_B 96 DGFLFVVGCD--R-GKILFVSESVFKILNYSQNDLIGQ--SLFDYLHPKDIAKV 144 (387)
T ss_dssp CSEEEEEETT--T-CBEEEECTTHHHHHSCCHHHHTTS--BGGGGBCGGGHHHH
T ss_pred CCEEEEEecC--C-eEEEEEchhhHHHcCCCHHHHCCC--cHHHhcCCCCHHHH
Confidence 4566777764 2 899999999999999999999998 54444444443333
No 63
>3cax_A Uncharacterized protein PF0695; structural genomics, unknown function, PSI-2, protein struct initiative; 2.43A {Pyrococcus furiosus dsm 3638}
Probab=97.62 E-value=8.8e-05 Score=50.67 Aligned_cols=61 Identities=11% Similarity=0.152 Sum_probs=43.7
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHHhCCcEE
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALESKTELK 70 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~~~~~~~ 70 (102)
|+++|+++|.+ |+|+++|++ ++++ ++.++++|+ ++..+.++. .......+...+..+....
T Consensus 248 l~dgIivvD~~----g~I~~~N~a-e~i~-~~~~e~iGr--~v~~~~p~~-~~~~~~~l~~~l~~g~~~~ 308 (369)
T 3cax_A 248 LPVDVTFIDKD----DRVRFFSPG-ERIF-TRTPSVLGR--PVQLCHPPK-SVYVVNKILKAFKEGRKKE 308 (369)
T ss_dssp SSSEEEEECTT----SBEEEECCS-SCSS-CCCGGGTTC--BTTTSSCGG-GHHHHHHHHHHHHHTSCSC
T ss_pred CCCcEEEECCC----CcEEEEcCH-HHcc-CChHHHcCC--cHHHHCChh-hHHHHHHHHHHHHcCCceE
Confidence 57899999998 999999999 9999 889999999 655454432 2233344555666665433
No 64
>3rty_A Period circadian protein; PAS domain, signalling, timeless, circadian clock protein; 2.85A {Drosophila melanogaster} PDB: 1wa9_A 3gec_A
Probab=97.39 E-value=0.0001 Score=50.07 Aligned_cols=39 Identities=8% Similarity=0.140 Sum_probs=31.0
Q ss_pred EEEEe-CCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCC
Q psy8548 5 FVLGN-AQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGP 49 (102)
Q Consensus 5 i~i~d-~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~ 49 (102)
+++.+ .+ |+|+|+|+++..++||+.++++|+ ....+.++
T Consensus 6 ~~vv~~~~----G~i~yvS~~~~~~LGy~~~el~G~--s~~d~ihp 45 (339)
T 3rty_A 6 CCVISMHD----GIVLYTTPSITDVLGYPRDMWLGR--SFIDFVHL 45 (339)
T ss_dssp EEEEETTT----CBEEEECTTHHHHHCCCTTSSTTS--BGGGGBCH
T ss_pred EEEEECCC----cEEEEEChHHHHHcCCCHHHHCCC--cHHHhcCH
Confidence 34666 45 999999999999999999999999 54444443
No 65
>1oj5_A Steroid receptor coactivator 1A; transcriptional coactivator, complex, LXXLL motif, transcriptional regulation; 2.2A {Mus musculus} SCOP: d.110.3.8
Probab=97.17 E-value=0.00042 Score=41.00 Aligned_cols=70 Identities=10% Similarity=0.100 Sum_probs=51.9
Q ss_pred CCEEEecHHHHHhhCCCh--hhhcCCCCCcccccCCCCCH--HHHHHHHHHHHhCCcEEEEEEEEecCCCeeeecch
Q psy8548 16 YPIVYCSDGFCELSGFAR--AQIMQKGCACKFLYGPDTSE--EHKTQIEKALESKTELKLEVIFYKKNGYHEEEEEE 88 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G~~~--~ei~g~~~~~~~l~~~~~~~--~~~~~i~~~l~~~~~~~~e~~~~~~~G~~~~~~~~ 88 (102)
|.|++|.++..+ .++.. ++++|+ .+..+.++.+.. ...+.....+..|.....-++++.++|..+|+.+.
T Consensus 17 GKf~~vDq~~~r-~~~~~g~qdLlGr--siy~f~H~~D~~~s~l~~h~~~vl~~Gq~~S~~YRfr~k~g~~V~~qT~ 90 (132)
T 1oj5_A 17 GKIISIDTSSLR-AAGRTGWEDLVRK--CIYAFFQPQGREPSYARQLFQEVMTRGTASSPSYRFILNDGTMLSAHTR 90 (132)
T ss_dssp CCEEEEECHHHH-TTCCSCHHHHHHH--HHHHHTSCBTTBCCHHHHHHHHHHHHSEEECCCEEEECTTSCEEEEEEE
T ss_pred CcEEEEeccccc-ccccccHHHHHHH--HHHHHhCcccchHHHHHHHHHHHHHcCCccccceEEEecCCcEEEEEEE
Confidence 899999998875 55666 899998 444344444422 55556666677777777889999999999999874
No 66
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm, protein binding; 2.50A {Mus musculus}
Probab=96.98 E-value=0.00094 Score=44.92 Aligned_cols=48 Identities=13% Similarity=-0.038 Sum_probs=34.4
Q ss_pred ceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHH
Q psy8548 3 SNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEH 55 (102)
Q Consensus 3 ~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~ 55 (102)
.-+++++.+ + |+|+|+|+++..++||+.++++|+ ....+.++.+...+
T Consensus 37 gF~~vvs~~--~-G~i~yvS~~~~~~Lg~~~~el~g~--s~~d~ihp~D~~~f 84 (317)
T 4dj3_A 37 TFAAVFSFL--S-GRLVHISEQAALILNSKRGFLKSV--HFVDLLAPQDVRAF 84 (317)
T ss_dssp EEEEEEETT--T-CBEEEECTTHHHHTTCCHHHHHTS--BGGGGBCGGGHHHH
T ss_pred CEEEEEEcC--C-cEEEEECCHHHHHcCCCHHHHcCC--chhhhcChhhHHHH
Confidence 344566653 3 899999999999999999999998 43334344343333
No 67
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological rhythms, cytoplasm, nucleus, phosphoprotein, transcription; 2.40A {Mus musculus}
Probab=96.85 E-value=0.00067 Score=45.46 Aligned_cols=48 Identities=13% Similarity=0.039 Sum_probs=27.3
Q ss_pred ceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHH
Q psy8548 3 SNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEH 55 (102)
Q Consensus 3 ~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~ 55 (102)
..+++++.+ + |+|+|+++++..++||+.++++|+ ....+.++.+...+
T Consensus 26 gF~~vvs~~--~-G~i~yvS~s~~~~Lg~~~~el~g~--s~~d~iHp~D~~~~ 73 (309)
T 3gdi_A 26 MFAVAVSLV--S-GKILYISNQVASIFHCKKDAFSDA--KFVEFLAPHDVSVF 73 (309)
T ss_dssp EEEEEECTT--T-CBEEEECTTTTTTC-------CCS--BGGGGBCTTTHHHH
T ss_pred CEEEEEECC--C-ceEEEECCHHHHHcCCCHHHHcCC--chhhccCHhHHHHH
Confidence 344566653 3 899999999999999999999998 44334444443333
No 68
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock protein, protein binding; 2.75A {Mus musculus}
Probab=96.77 E-value=0.00077 Score=45.39 Aligned_cols=34 Identities=21% Similarity=-0.018 Sum_probs=28.4
Q ss_pred eEEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCC
Q psy8548 4 NFVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKG 40 (102)
Q Consensus 4 ~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~ 40 (102)
.++++... + |+|+|+++++..++||+.++++|++
T Consensus 38 F~~vvs~~--~-G~i~yvS~sv~~~Lg~~~~~l~g~s 71 (320)
T 4dj2_A 38 FSVAVSFL--T-GRIVYISEQAGVLLRCKRDVFRGAR 71 (320)
T ss_dssp EEEEEETT--T-CBEEEECTHHHHHHTSCSTTTTTSB
T ss_pred EEEEEECC--C-ceEEEECcHHHHHhCcCHHHHcCCc
Confidence 34566653 3 8999999999999999999999983
No 69
>2ykf_A Pdtas, probable sensor histidine kinase pdtas; transferase, two-component system, GAF domain, PAS domain; 2.00A {Mycobacterium tuberculosis} PDB: 2ykh_A
Probab=95.23 E-value=0.00073 Score=45.06 Aligned_cols=34 Identities=9% Similarity=0.088 Sum_probs=29.0
Q ss_pred CCceEEEEeCCCCCCCCEEEecHHHHHhhC---CChhhhcCC
Q psy8548 1 MNSNFVLGNAQVPSLYPIVYCSDGFCELSG---FARAQIMQK 39 (102)
Q Consensus 1 ~~~~i~i~d~~~~~~~~i~~~N~~~~~i~G---~~~~ei~g~ 39 (102)
|+++|+++|.+ |+|+++|++++++++ ++ ++++|+
T Consensus 179 ~~dGIivvD~~----G~Ii~~N~aA~~ll~~lG~~-~~~iGk 215 (305)
T 2ykf_A 179 AGDGFIRLDVD----GVVSYASPNALSAYHRMGLT-TELEGV 215 (305)
Confidence 56799999998 999999999999975 44 678888
No 70
>2ool_A Sensor protein; bacteriophytochrome, photoconversion, photoreceptor, biliver signaling protein; HET: LBV; 2.20A {Rhodopseudomonas palustris} SCOP: d.110.2.1 d.110.3.9
Probab=91.56 E-value=0.16 Score=34.45 Aligned_cols=50 Identities=12% Similarity=0.121 Sum_probs=35.1
Q ss_pred EEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHH
Q psy8548 6 VLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALE 64 (102)
Q Consensus 6 ~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~ 64 (102)
++++.. + ++|+.+|.++..++|++.++++|+ +...+.++ .....+...+.
T Consensus 46 l~~~~~--~-~~i~~~S~N~~~~lg~~~~~llG~--~l~~ll~~----~~~~~l~~~l~ 95 (337)
T 2ool_A 46 FVVSET--D-LRIASVSANVEDLLRQPPASLLNV--PIAHYLTA----ASAARLTHALH 95 (337)
T ss_dssp EEECTT--T-CBEEEEETTHHHHHSSCGGGGTTC--BGGGGBCH----HHHHHHHHHHC
T ss_pred EEEECC--C-CEEEEEehhHHHHHCcCHHHHcCC--CHHHHcCH----HHHHHHHHHHh
Confidence 345543 4 799999999999999999999998 65544442 33344555443
No 71
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}
Probab=83.92 E-value=7.2 Score=26.32 Aligned_cols=50 Identities=24% Similarity=0.347 Sum_probs=35.8
Q ss_pred EEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCCCCCHHHHHHHHHHHH
Q psy8548 5 FVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGPDTSEEHKTQIEKALE 64 (102)
Q Consensus 5 i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~~~~~~~~~~i~~~l~ 64 (102)
.++++. + ++|+.++.+...++|.+.++++|+ +...+.+ ......+...+.
T Consensus 32 Ll~~~~---~-~~I~~~S~N~~~~lg~~~~~~lG~--~l~~ll~----~~~~~~l~~~l~ 81 (327)
T 4e04_A 32 LLALAA---D-MTIVAGSDNLPELTGLAIGALIGR--SAADVFD----SETHNRLTIALA 81 (327)
T ss_dssp EEEECT---T-CBEEEEETTHHHHHSCCHHHHTTC--BHHHHBC----HHHHHHHHHHHH
T ss_pred EEEEcC---C-CeEEEEcccHHHHhCCChHhhcCC--CHHHHcC----HHHHHHHHHHhh
Confidence 345563 3 899999999999999999999998 6554443 344445555554
No 72
>3s7o_A Bacteriophytochrome; biliverdin, PAS, GAF, photoreceptor, fluorescent protein; HET: LBV GOL; 1.24A {Deinococcus radiodurans} PDB: 3s7n_A* 3s7p_A* 3s7q_A* 2o9c_A* 2o9b_A* 1ztu_A*
Probab=73.00 E-value=3.9 Score=27.82 Aligned_cols=40 Identities=10% Similarity=0.049 Sum_probs=31.4
Q ss_pred EEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCcccccCC
Q psy8548 5 FVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKFLYGP 49 (102)
Q Consensus 5 i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~l~~~ 49 (102)
.++++.. + ++|+.++.+...++|.+.++++|+ +...+.++
T Consensus 55 LL~l~~~--~-~~I~~~S~N~~~~lg~~~~~llG~--~l~~ll~~ 94 (343)
T 3s7o_A 55 LLTADGH--S-GEVLQMSLNAATFLGQEPTVLRGQ--TLAALLPE 94 (343)
T ss_dssp EEEEETT--T-CBEEEEETTHHHHHSSCHHHHTTC--BHHHHSTT
T ss_pred EEEEECC--C-CEEEEEcccHHHHhCcChHHHcCC--CHHHHHhH
Confidence 3466653 3 899999999999999999999998 65545443
No 73
>3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482}
Probab=68.45 E-value=2.9 Score=26.70 Aligned_cols=32 Identities=6% Similarity=0.110 Sum_probs=27.2
Q ss_pred CceEEEEeCCCCCCCCEEEecHHHHHhhCCChhhh
Q psy8548 2 NSNFVLGNAQVPSLYPIVYCSDGFCELSGFARAQI 36 (102)
Q Consensus 2 ~~~i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei 36 (102)
++.++++|.. . +++.+++..+..++|++.+++
T Consensus 43 ~~~~~l~D~~--~-~~~~~~s~~~~~llG~~~~~~ 74 (258)
T 3clo_A 43 GGCAVISDLS--N-RKSYVTVHPWANFLGLTPEEA 74 (258)
T ss_dssp SSEEEEEETT--T-TEEEEEECTTCGGGCCCHHHH
T ss_pred CCeEEEEEcC--C-CeEEEEeCCHHHHhCCCcccc
Confidence 4567899965 3 799999999999999999977
No 74
>3zq5_A Phytochrome-like protein CPH1; arginine finger, tandem GAF domain, receptor, PAS domain, chromophore, sensory transduction; HET: CYC; 1.95A {Synechocystis SP} PDB: 2vea_A*
Probab=56.82 E-value=7.3 Score=27.97 Aligned_cols=32 Identities=13% Similarity=0.157 Sum_probs=27.1
Q ss_pred EEEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCC
Q psy8548 5 FVLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQK 39 (102)
Q Consensus 5 i~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~ 39 (102)
.+.++.. + ++|+.++.+...++|.+.++++|+
T Consensus 32 LLal~~~--~-~~I~~~S~N~~~~lg~~~~~llG~ 63 (520)
T 3zq5_A 32 VVVLQEP--D-LTISQISANCTGILGRSPEDLLGR 63 (520)
T ss_dssp EEEEETT--T-TEEEEEETTHHHHHSCCHHHHTTS
T ss_pred EEEEECC--C-CEEEEEcccHHHHhCcChHHHcCC
Confidence 3466653 3 899999999999999999999998
No 75
>3nhq_A Bacteriophytochrome; photoreceptor, PAS, signaling, signaling protei; HET: BLA; 2.55A {Pseudomonas aeruginosa} PDB: 3c2w_A* 3nop_C* 3not_C* 3nou_C* 3g6o_A* 3ibr_A*
Probab=47.00 E-value=38 Score=24.24 Aligned_cols=47 Identities=21% Similarity=0.140 Sum_probs=31.6
Q ss_pred EEEeCCCCCCCCEEEecHHHHHhhCCChhhhcCCCCCccc-ccCCCCCHHHHHHHHHHHH
Q psy8548 6 VLGNAQVPSLYPIVYCSDGFCELSGFARAQIMQKGCACKF-LYGPDTSEEHKTQIEKALE 64 (102)
Q Consensus 6 ~i~d~~~~~~~~i~~~N~~~~~i~G~~~~ei~g~~~~~~~-l~~~~~~~~~~~~i~~~l~ 64 (102)
+.++.+ ++|+.++.+...++|.+. ++|+ +... +.+ ......+...+.
T Consensus 30 l~l~~~----~~I~~~S~N~~~~lg~~~--~lG~--~l~~~ll~----~~~~~~l~~~l~ 77 (505)
T 3nhq_A 30 VTLRAD----GMVLAASENIQALLGFVA--SPGS--YLTQEQVG----PEVLRMLEEGLT 77 (505)
T ss_dssp EEECTT----SBEEEEETTHHHHHSSCC--CTTC--BCCHHHHH----HHHHHHHHHHHS
T ss_pred EEEcCC----CeEEEEcccHHHHhCccc--ccCC--chhhhhCC----HHHHHHHHHHhh
Confidence 455553 899999999999999988 8888 5443 322 234445555443
No 76
>4ew7_A Conjugative transfer: regulation; alpha-beta-alpha structure, structural genomics, midwest CEN structural genomics (MCSG), PSI-biology; 1.67A {Salmonella enterica subsp}
Probab=31.72 E-value=68 Score=18.09 Aligned_cols=15 Identities=33% Similarity=0.569 Sum_probs=13.3
Q ss_pred CCEEEecHHHHHhhC
Q psy8548 16 YPIVYCSDGFCELSG 30 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G 30 (102)
..|+|+|-+|.+|+-
T Consensus 40 RkilYaN~aF~elF~ 54 (127)
T 4ew7_A 40 RKIIYANGAFIELFS 54 (127)
T ss_dssp SCEEEECHHHHHHTT
T ss_pred ceEEEecchHHHHhh
Confidence 799999999999953
No 77
>1l1o_C Replication protein A 70 kDa DNA-binding subunit; eukaryotic SSB, ssDNA binding protein, OB-fold; 2.80A {Homo sapiens} SCOP: b.40.4.3
Probab=22.63 E-value=90 Score=18.79 Aligned_cols=22 Identities=9% Similarity=-0.044 Sum_probs=19.0
Q ss_pred CCEEEecHHHHHhhCCChhhhc
Q psy8548 16 YPIVYCSDGFCELSGFARAQIM 37 (102)
Q Consensus 16 ~~i~~~N~~~~~i~G~~~~ei~ 37 (102)
..++..+.....++|.+++++.
T Consensus 92 ~~~t~F~~~ae~ilG~sA~el~ 113 (181)
T 1l1o_C 92 QWVTCFQESAEAILGQNAAYLG 113 (181)
T ss_dssp EEEEEEHHHHHHHHSSCHHHHH
T ss_pred EEEEEEhHHHHHHhCCCHHHHH
Confidence 4567789999999999999986
Done!