Query psy6003
Match_columns 109
No_of_seqs 128 out of 1003
Neff 11.1
Searched_HMMs 29240
Date Sat Aug 17 00:07:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6003.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/6003hhsearch_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 99.8 1.7E-17 5.9E-22 88.1 11.8 86 6-93 1-86 (109)
2 2gj3_A Nitrogen fixation regul 99.7 4.1E-17 1.4E-21 87.7 10.1 86 3-93 10-95 (120)
3 2pr5_A Blue-light photorecepto 99.7 2.8E-16 9.7E-21 85.7 11.3 90 2-93 3-92 (132)
4 3f1p_B ARYL hydrocarbon recept 99.7 9.1E-16 3.1E-20 82.4 9.3 86 3-93 7-93 (121)
5 2r78_A Sensor protein; sensory 99.7 1.5E-15 5.3E-20 81.3 9.9 86 2-93 15-100 (117)
6 4eet_B Phototropin-2; LOV, blu 99.7 7.9E-15 2.7E-19 77.2 11.7 86 3-93 2-90 (115)
7 4hia_A LOV protein; PAS, HTH, 99.6 5E-15 1.7E-19 84.1 10.2 87 2-93 11-100 (176)
8 3t50_A Blue-light-activated hi 99.6 1.8E-14 6.3E-19 77.5 11.9 89 3-93 2-90 (128)
9 3ewk_A Sensor protein; PAS dom 99.6 4.3E-15 1.5E-19 87.9 9.6 86 3-93 116-207 (227)
10 3f1p_A Endothelial PAS domain- 99.6 3.4E-15 1.2E-19 79.6 8.3 82 7-93 8-89 (117)
11 3p7n_A Sensor histidine kinase 99.6 6.1E-15 2.1E-19 88.6 10.2 90 2-93 67-156 (258)
12 1d06_A Nitrogen fixation regul 99.6 6.9E-15 2.3E-19 79.9 9.5 87 3-94 21-111 (130)
13 2vlg_A Sporulation kinase A; h 99.6 5.8E-15 2E-19 78.9 8.3 84 2-93 3-86 (111)
14 2kdk_A ARYL hydrocarbon recept 99.6 1.8E-14 6.1E-19 77.0 9.9 87 2-93 7-94 (121)
15 3mqq_A Transcriptional regulat 99.6 7.5E-15 2.5E-19 78.6 8.1 87 2-94 7-94 (120)
16 2wkq_A NPH1-1, RAS-related C3 99.6 3.2E-14 1.1E-18 88.2 11.9 90 2-93 15-104 (332)
17 3mfx_A Sensory BOX/ggdef famil 99.6 4.1E-15 1.4E-19 81.5 6.9 88 2-94 11-105 (129)
18 3ue6_A Aureochrome1; PAS/LOV d 99.6 3.6E-14 1.2E-18 79.4 10.5 89 3-93 40-128 (166)
19 2vv6_A FIXL, sensor protein FI 99.5 1.2E-13 4.3E-18 73.8 10.0 84 6-94 1-88 (119)
20 3d72_A Vivid PAS protein VVD; 99.5 4.7E-13 1.6E-17 73.8 12.1 88 3-93 31-129 (149)
21 3ewk_A Sensor protein; PAS dom 99.5 2.4E-13 8.1E-18 80.4 11.1 78 11-93 2-79 (227)
22 3olo_A Two-component sensor hi 99.5 8.3E-14 2.8E-18 73.7 8.0 81 3-93 18-98 (118)
23 3lyx_A Sensory BOX/ggdef domai 99.5 6.3E-13 2.2E-17 70.1 11.3 87 2-93 11-97 (124)
24 2v0u_A NPH1-1, LOV2; kinase, t 99.5 4.3E-12 1.5E-16 68.6 12.0 87 2-93 6-95 (146)
25 3luq_A Sensor protein; PAS, hi 99.5 8E-13 2.7E-17 69.3 8.2 85 2-93 7-92 (114)
26 3sw1_A Sensory box protein; li 99.4 1.8E-12 6.2E-17 72.2 9.6 87 2-93 29-118 (162)
27 3mjq_A Uncharacterized protein 99.4 3.2E-12 1.1E-16 68.1 9.7 86 2-93 3-88 (126)
28 3bwl_A Sensor protein; structu 99.4 2.2E-12 7.5E-17 69.2 7.9 83 3-93 22-106 (126)
29 1mzu_A PPR; photoactive yellow 99.4 1.4E-11 4.7E-16 67.0 10.6 88 3-95 27-115 (129)
30 1byw_A Protein (human ERG pota 99.4 3.7E-11 1.3E-15 61.8 11.9 84 9-93 2-86 (110)
31 3fg8_A Uncharacterized protein 99.4 6.2E-12 2.1E-16 67.2 8.9 80 2-86 16-95 (118)
32 2z6d_A Phototropin-2; PAS-fold 99.4 2.6E-11 8.9E-16 64.1 11.0 89 3-93 11-99 (130)
33 1nwz_A PYP, photoactive yellow 99.4 1.4E-11 4.7E-16 66.8 9.5 87 3-94 22-109 (125)
34 3nja_A Probable ggdef family p 99.4 4.8E-12 1.6E-16 67.2 7.8 89 2-93 11-99 (125)
35 2l0w_A Potassium voltage-gated 99.3 2.9E-11 1E-15 64.8 10.4 87 4-93 25-114 (138)
36 1ll8_A PAS kinase; PAS domain, 99.3 9.3E-13 3.2E-17 69.8 3.7 83 5-93 5-93 (114)
37 3h9w_A Diguanylate cyclase wit 99.3 5.7E-12 2E-16 66.7 6.6 84 7-93 2-85 (115)
38 3icy_A Sensor protein; sensory 99.3 2.2E-12 7.4E-17 68.2 3.9 89 2-93 8-96 (118)
39 3mxq_A Sensor protein; PSI2, M 99.3 2.9E-12 9.8E-17 72.0 4.5 66 2-73 26-91 (152)
40 3b33_A Sensor protein; structu 99.3 1.5E-11 5E-16 65.0 6.6 82 3-92 12-94 (115)
41 3eeh_A Putative light and redo 99.2 5.1E-11 1.7E-15 62.8 7.3 85 3-93 16-103 (125)
42 3fc7_A HTR-like protein, senso 99.2 3.1E-11 1.1E-15 64.3 6.2 41 2-45 23-63 (125)
43 3mr0_A Sensory box histidine k 99.2 1.2E-10 4.2E-15 63.9 8.6 87 3-92 14-100 (142)
44 1v9y_A Heme PAS sensor protein 99.2 8.9E-11 3.1E-15 65.3 7.5 86 3-93 45-134 (167)
45 3rty_A Period circadian protei 99.2 1.3E-10 4.4E-15 72.8 8.5 82 8-94 154-240 (339)
46 4eho_A Bacteriophytochrome, PA 99.2 1.5E-11 5.2E-16 82.4 4.3 83 3-91 523-605 (635)
47 4f3l_A Mclock, circadian locom 99.2 5.2E-11 1.8E-15 75.1 6.4 80 9-93 252-331 (361)
48 4dj3_A Period circadian protei 99.1 9E-10 3.1E-14 68.4 9.1 78 11-93 177-257 (317)
49 4f3l_B BMAL1B; BHLH, PAS, circ 99.1 3.9E-10 1.3E-14 71.8 7.6 81 8-93 278-359 (387)
50 3k3c_A Protein RV1364C/MT1410; 99.1 3.6E-10 1.2E-14 62.7 5.8 85 2-92 21-110 (158)
51 3gdi_A Period circadian protei 99.0 2.6E-09 9E-14 66.2 9.5 78 11-93 168-247 (309)
52 3a0s_A Sensor protein; PAS-fol 99.0 4E-09 1.4E-13 52.8 8.5 60 7-74 1-60 (96)
53 3kx0_X Uncharacterized protein 99.0 8.6E-10 3E-14 63.1 6.3 85 3-93 42-131 (185)
54 4dj2_A Period circadian protei 99.0 2E-09 7E-14 66.9 7.6 78 11-93 179-258 (320)
55 2qkp_A Uncharacterized protein 98.8 8.8E-09 3E-13 57.6 5.3 73 2-81 23-98 (151)
56 4hi4_A Aerotaxis transducer AE 98.8 6.2E-09 2.1E-13 55.6 4.1 46 2-52 9-66 (121)
57 3vol_A Aerotaxis transducer AE 98.8 1.8E-08 6.1E-13 60.0 6.3 45 3-52 27-83 (233)
58 2jhe_A Transcription regulator 98.7 3E-07 1E-11 52.6 8.7 47 2-53 84-130 (190)
59 3a0r_A Sensor protein; four he 98.6 1.2E-07 4.2E-12 58.9 5.5 41 2-45 12-52 (349)
60 4f3l_A Mclock, circadian locom 98.6 1E-07 3.4E-12 60.2 5.1 58 3-65 91-148 (361)
61 4f3l_B BMAL1B; BHLH, PAS, circ 98.5 2.5E-07 8.4E-12 59.0 5.3 56 3-63 91-147 (387)
62 2w0n_A Sensor protein DCUS; si 98.4 4.9E-08 1.7E-12 51.0 1.4 41 2-45 19-62 (118)
63 3cax_A Uncharacterized protein 98.4 5.1E-07 1.8E-11 57.2 5.2 71 2-80 243-313 (369)
64 4dj3_A Period circadian protei 98.1 7.3E-06 2.5E-10 51.0 5.1 57 3-63 31-87 (317)
65 3gdi_A Period circadian protei 98.0 2.9E-06 9.9E-11 52.6 2.9 57 3-63 20-76 (309)
66 4dj2_A Period circadian protei 98.0 4.7E-06 1.6E-10 51.9 3.2 55 3-61 31-85 (320)
67 1oj5_A Steroid receptor coacti 97.9 4.6E-05 1.6E-09 41.4 5.3 77 10-92 9-89 (132)
68 3rty_A Period circadian protei 97.6 4.3E-05 1.5E-09 48.0 3.4 45 12-60 7-51 (339)
69 2ykf_A Pdtas, probable sensor 96.4 4E-05 1.4E-09 47.4 0.0 39 3-45 175-216 (305)
70 2ool_A Sensor protein; bacteri 95.2 0.025 8.6E-07 35.6 3.9 38 12-53 46-83 (337)
71 4e04_A Bacteriophytochrome (li 91.7 1.6 5.5E-05 27.5 8.7 51 11-70 32-82 (327)
72 3s7o_A Bacteriophytochrome; bi 89.1 0.65 2.2E-05 29.4 4.2 40 11-54 55-94 (343)
73 4ew7_A Conjugative transfer: r 86.2 2.4 8.1E-05 22.1 6.6 30 4-36 26-55 (127)
74 3zq5_A Phytochrome-like protei 82.1 1.3 4.6E-05 29.6 3.2 33 11-45 32-64 (520)
75 3nhq_A Bacteriophytochrome; ph 67.1 13 0.00045 24.9 4.9 30 11-45 29-58 (505)
76 3clo_A Transcriptional regulat 56.2 8.2 0.00028 23.0 2.4 32 8-41 43-74 (258)
77 1l1o_C Replication protein A 7 38.4 54 0.0019 18.5 4.0 24 21-44 92-115 (181)
78 3pxp_A Helix-turn-helix domain 35.4 41 0.0014 20.8 3.2 30 3-35 104-133 (292)
79 3gz2_P Invasin IPAB, 62 kDa an 29.7 15 0.0005 16.9 0.4 31 12-42 22-52 (78)
80 8tfv_A Protein (thanatin); bac 27.6 18 0.00061 12.4 0.4 8 22-29 7-14 (21)
81 1und_A Advillin, P92; actin bi 25.4 46 0.0016 13.6 1.6 19 27-45 5-23 (37)
82 1wy3_A Villin; structural prot 25.1 45 0.0015 13.5 1.6 19 27-45 3-21 (35)
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=99.77 E-value=1.7e-17 Score=88.11 Aligned_cols=86 Identities=31% Similarity=0.578 Sum_probs=72.1
Q ss_pred cCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEecCC
Q psy6003 6 HTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYKKDG 85 (109)
Q Consensus 6 ~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g 85 (109)
+++++++++|....+|+++++|++|++++||+.+|++|++ ...+.++.........+++++..++.+..+++.+++||
T Consensus 1 ~~~~~i~i~d~~~~~g~i~~~N~a~~~l~Gy~~~e~~G~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~kdG 78 (109)
T 1n9l_A 1 GLRHTFVVADATLPDCPLVYASEGFYAMTGYGPDEVLGHN--CRFLQGEGTDPKEVQKIRDAIKKGEACSVRLLNYRKDG 78 (109)
T ss_dssp CCSCEEEEEETTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEECTTS
T ss_pred CCccEEEEEcCCCCCCeEEEEchHHHHHHCcCHHHHcCCC--chhcCCCCCCHHHHHHHHHHHHcCCcEEEEEEEEcCCC
Confidence 3678999999543469999999999999999999999998 56666666666666778888888999999999999999
Q ss_pred CEEEEeee
Q psy6003 86 KYSSVGGS 93 (109)
Q Consensus 86 ~~~~~~~~ 93 (109)
+.+|+.++
T Consensus 79 ~~~~~~~~ 86 (109)
T 1n9l_A 79 TPFWNLLT 86 (109)
T ss_dssp CEEEEEEE
T ss_pred CEEEEEEE
Confidence 99999543
No 2
>2gj3_A Nitrogen fixation regulatory protein; PAS domain, FAD, redox sensor, atomic resolution, transferase; HET: FAD; 1.04A {Azotobacter vinelandii}
Probab=99.74 E-value=4.1e-17 Score=87.70 Aligned_cols=86 Identities=17% Similarity=0.190 Sum_probs=72.1
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++| .+|+++++|++|++++||+.++++|++ ...+.++.........+...+..+..+..+...++
T Consensus 10 ~~~~~~~~i~~~d---~~g~i~~~N~a~~~~~G~~~~elig~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 84 (120)
T 2gj3_A 10 TVEHAPIAISITD---LKANILYANRAFRTITGYGSEEVLGKN--ESILSNGTTPRLVYQALWGRLAQKKPWSGVLVNRR 84 (120)
T ss_dssp HHHHCSSEEEEEC---TTCBEEEECHHHHHHHCCCTTGGGGCB--GGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEEC
T ss_pred HHHhCCCeEEEEC---CCCCEEeehHHHHHHHCcCHHHHcCCC--HHHcCCCCCCHHHHHHHHHHHHcCCCEEEEEEEEc
Confidence 5789999999999 789999999999999999999999998 55565555555555667777788888889988999
Q ss_pred cCCCEEEEeee
Q psy6003 83 KDGKYSSVGGS 93 (109)
Q Consensus 83 ~~g~~~~~~~~ 93 (109)
++|+.+|+.+.
T Consensus 85 ~dG~~~~~~~~ 95 (120)
T 2gj3_A 85 KDKTLYLAELT 95 (120)
T ss_dssp TTSCEEEEEEE
T ss_pred CCCCEEEEEEE
Confidence 99999998543
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=99.72 E-value=2.8e-16 Score=85.66 Aligned_cols=90 Identities=26% Similarity=0.469 Sum_probs=70.3
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++++|.++.+++++++|++|++++||+.++++|++ ...+.++.........+...+..+..+..+...+
T Consensus 3 ~~~~~~~~~i~~~d~~g~~~~i~~~N~a~~~~~G~~~~el~g~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 80 (132)
T 2pr5_A 3 HMLDHVRVGVVITDPALEDNPIVYVNQGFVQMTGYETEEILGKN--CRFLQGKHTDPAEVDNIRTALQNKEPVTVQIQNY 80 (132)
T ss_dssp ---CCCCCEEEEECTTSTTCCEEEECHHHHHHHSCCHHHHTTSC--GGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEE
T ss_pred hHHhcCCCcEEEEeCCCCCCcEEEECHHHHHHhCcCHHHHcCCC--hhhhCCCCCCHHHHHHHHHHHHcCCCeEEEEEEE
Confidence 47899999999999432245999999999999999999999998 5555555555555566677777788888888889
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
++||+.+|+.+.
T Consensus 81 ~kdG~~~~~~~~ 92 (132)
T 2pr5_A 81 KKDGTMFWNELN 92 (132)
T ss_dssp CTTSCEEEEEEE
T ss_pred ecCCCeeeeEEE
Confidence 999999998654
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=99.67 E-value=9.1e-16 Score=82.36 Aligned_cols=86 Identities=10% Similarity=0.069 Sum_probs=69.7
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHH-cCCeeEEEEEEE
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALA-AGVEKHFEILYY 81 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~e~~~~ 81 (109)
+++++++.+++.| .+|+++|+|+++++++||++++++|++ ...+.++++.......+.+.+. .+..+..+++.+
T Consensus 7 l~e~~~d~i~~~d---~~g~i~~~n~~~~~~~G~~~~el~g~~--~~~~i~p~d~~~~~~~~~~~~~~~~~~~~~e~r~~ 81 (121)
T 3f1p_B 7 NVCQPTRFISRHN---IEGIFTFVDHRCVATVGYQPQELLGKN--IVEFCHPEDQQLLRDSFQQVVKLKGQVLSVMFRFR 81 (121)
T ss_dssp -CCCCCEEEEEEC---TTSBEEEECTTHHHHHSCCGGGTTTSB--GGGGBCTTTHHHHHHHHHHHTTSTTCCEEEEEEEE
T ss_pred eecCCCceEEEEC---CCceEEEECcchhhhhCCChHHHcCCC--HHHeECHHHHHHHHHHHHHHHhcCCCcccEEEEEE
Confidence 6789999999999 789999999999999999999999998 4555566665555556666654 455678889999
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
+++|+.+|++..
T Consensus 82 ~~dG~~~w~~~~ 93 (121)
T 3f1p_B 82 SKNQEWLWMRTS 93 (121)
T ss_dssp CTTSCEEEEEEE
T ss_pred ecCCCEEEEEEE
Confidence 999999999654
No 5
>2r78_A Sensor protein; sensory box sensor histidine kinase/response regulator, structural genomics, PSI, MCSG; 1.60A {Geobacter sulfurreducens pca}
Probab=99.67 E-value=1.5e-15 Score=81.35 Aligned_cols=86 Identities=17% Similarity=0.243 Sum_probs=65.9
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++++| .+|+++++|+++++++||++++++|++ ...+.++... .........+..+..+..+.+.+
T Consensus 15 ~l~e~~~d~i~~~d---~~g~i~~vN~a~~~l~Gy~~~el~g~~--~~~~~~~~~~-~~~~~~~~~~~~~~~~~~e~~~~ 88 (117)
T 2r78_A 15 ALFEHAIDGIFIMD---AEGHYLDVNPAICSAIGYTRDEFLALD--WGVLSRGVDS-GWAAASLARIVGGEPLREERTVW 88 (117)
T ss_dssp HHHHHCSSEEEEEC---TTSBEEEECHHHHHHHCCCHHHHTTCB--TTTTTTCSTT-SHHHHHHHHHHTTCCEEEEEEEE
T ss_pred HHHhcCCceEEEEC---CCCCEEEecHHHHHHHCcCHHHHcCCC--HHHhCCccch-hHHHHHHHHHHcCCcEEEEEEEE
Confidence 36889999999999 789999999999999999999999998 4444332221 12223444556666777888889
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
++||+.+|++++
T Consensus 89 ~kdG~~~~v~~~ 100 (117)
T 2r78_A 89 TRNGDQLTVELS 100 (117)
T ss_dssp CTTSCEEEEEEE
T ss_pred ecCCCEEEEEEE
Confidence 999999998543
No 6
>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=99.65 E-value=7.9e-15 Score=77.17 Aligned_cols=86 Identities=30% Similarity=0.499 Sum_probs=71.1
Q ss_pred ccccCCccEEEEecCCC---CeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEE
Q psy6003 3 LKHHTNRSFLVANSHLG---LCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEIL 79 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~---~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 79 (109)
.+++++++++++| . +++++++|+++++++|++.++++|++ ...+.++.........+...+..+..+..+..
T Consensus 2 ~l~~~~~~i~~~d---~~~~~g~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 76 (115)
T 4eet_B 2 SPEFIEKNFVITD---PRLPDNPIIFASDGFLELTEYSREEILGRN--ARFLQGPETDQATVQKIRDAIRDQRETTVQLI 76 (115)
T ss_dssp ---CCCCSEEEEC---TTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEE
T ss_pred ccccCCCcEEEEc---CCCCCCcEEEEcHHHHHHHCcCHHHHhCCC--HHHhcCCCCChHHHHHHHHHHHcCCCcceEEE
Confidence 5789999999999 6 89999999999999999999999998 56566666666666777778888888888888
Q ss_pred EEecCCCEEEEeee
Q psy6003 80 YYKKDGKYSSVGGS 93 (109)
Q Consensus 80 ~~~~~g~~~~~~~~ 93 (109)
..+++|+.+|+.+.
T Consensus 77 ~~~~~g~~~~~~~~ 90 (115)
T 4eet_B 77 NYTKSGKKFWNLLH 90 (115)
T ss_dssp EECTTCCEEEEEEE
T ss_pred EecCCCCEEEEEEE
Confidence 88999999998544
No 7
>4hia_A LOV protein; PAS, HTH, signaling protein; HET: FMN; 1.95A {Rhodobacter sphaeroides} PDB: 4hnb_A* 4hj4_A* 4hj6_A* 4hj3_A*
Probab=99.63 E-value=5e-15 Score=84.05 Aligned_cols=87 Identities=15% Similarity=0.267 Sum_probs=74.0
Q ss_pred cccccCCccEEEEecCCCC---eeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGL---CHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEI 78 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~---~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 78 (109)
.++++++++++++| .+ |+++++|++|++++||++++++|++ ...+.++.........+...+..+..+..+.
T Consensus 11 ~~~~~~~~~i~~~d---~~~~~g~i~~~N~a~~~~~G~~~~e~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 85 (176)
T 4hia_A 11 AVFDRSGVALTLVD---MSLPEQPVVLANPPFLRMTGYTEGQILGFN--CRFLQRGDENAQARADIRDALKLGRELQVVL 85 (176)
T ss_dssp HHHHHCSSCCEEEE---TTSTTCCEEEECHHHHHHHTCCHHHHTTSC--GGGGCCTTCCHHHHHHHHHHHHHTCCEEEEE
T ss_pred HHHhcCCCcEEEEe---cCCCCCcEEEECHHHHHHHCcCHHHHcCCC--cceeeCCCCCHHHHHHHHHHHHcCCceEEEE
Confidence 36789999999999 56 9999999999999999999999998 5656666666666677778888888888888
Q ss_pred EEEecCCCEEEEeee
Q psy6003 79 LYYKKDGKYSSVGGS 93 (109)
Q Consensus 79 ~~~~~~g~~~~~~~~ 93 (109)
...+++|..+|+.+.
T Consensus 86 ~~~~~dG~~~~~~~~ 100 (176)
T 4hia_A 86 RNYRANDEPFDNLLF 100 (176)
T ss_dssp EEECTTCCEEEEEEE
T ss_pred EEEcCCCCEEEEEEE
Confidence 889999999998543
No 8
>3t50_A Blue-light-activated histidine kinase; PAS superfamily, blue-light photoreceptor, FMN binding, TRAN; HET: FMN; 1.64A {Brucella melitensis}
Probab=99.63 E-value=1.8e-14 Score=77.47 Aligned_cols=89 Identities=31% Similarity=0.475 Sum_probs=73.3
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++|..+.+|+++++|+++++++|++.++++|++ ...+.++.........+...+..+..+..+....+
T Consensus 2 ~~~~~~~~i~~~d~~~~~g~i~~~N~~~~~l~g~~~~e~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 79 (128)
T 3t50_A 2 ASEFTLMPMLITNPHLPDNPIVFANPAFLKLTGYEADEVMGRN--CRFLQGHGTDPAHVRAIKSAIAAEKPIDIDIINYK 79 (128)
T ss_dssp CCCCCSSCEEEECTTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEEC
T ss_pred ccccCcccEEEecCCCCCCcEEEEcHHHHHHhCcCHHHHcCCC--HhhhcCCccCHHHHHHHHHHHHcCCCceeEEEEEc
Confidence 6899999999999311188999999999999999999999998 55566566666666777778888888888888889
Q ss_pred cCCCEEEEeee
Q psy6003 83 KDGKYSSVGGS 93 (109)
Q Consensus 83 ~~g~~~~~~~~ 93 (109)
++|..+|+.+.
T Consensus 80 ~~g~~~~~~~~ 90 (128)
T 3t50_A 80 KSGEAFWNRLH 90 (128)
T ss_dssp TTCCEEEEEEE
T ss_pred CCCCEEEEEEE
Confidence 99999998543
No 9
>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase, phosphoprotein, transfe flavoprotein; HET: FAD; 2.34A {Methylococcus capsulatus}
Probab=99.63 E-value=4.3e-15 Score=87.93 Aligned_cols=86 Identities=24% Similarity=0.385 Sum_probs=74.9
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++| .+|+++++|++|++++||++++++|++ ...+.++.........+++.+..++.+.+++..++
T Consensus 116 ~~~~~~~~i~~~d---~~g~i~~~N~~~~~~~G~~~~e~~g~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 190 (227)
T 3ewk_A 116 AMDANSEMILLTD---RAGRIIYANPALCRFSGMAEGELLGQS--PSILDSPLADQETLAAMQEALQAGQPWSGRLLNRR 190 (227)
T ss_dssp HHHTCCSEEEEEC---TTSCEEEECHHHHHHHTCCTHHHHSSC--GGGGBCTTSCHHHHHHHHHHHHHTCCEECCEEEEE
T ss_pred HHhcCcCeEEEEc---CCCcEEEEchHHHHHhCCCHHHHcCCC--hhhccCCCCCHHHHHHHHHHHHcCCceeEEEEEEC
Confidence 5678999999999 789999999999999999999999998 56677777777777888888999999999999999
Q ss_pred cCCC------EEEEeee
Q psy6003 83 KDGK------YSSVGGS 93 (109)
Q Consensus 83 ~~g~------~~~~~~~ 93 (109)
++|. .+|+.++
T Consensus 191 k~G~~~~dg~~~~~~~~ 207 (227)
T 3ewk_A 191 RTGPAPHDAEDYWAEIS 207 (227)
T ss_dssp ECCSSSSCEEEEEEEEE
T ss_pred CCCCcCcccceEEEEEE
Confidence 9886 7888543
No 10
>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=99.62 E-value=3.4e-15 Score=79.58 Aligned_cols=82 Identities=15% Similarity=0.183 Sum_probs=67.3
Q ss_pred CCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEecCCC
Q psy6003 7 TNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYKKDGK 86 (109)
Q Consensus 7 ~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~ 86 (109)
+++.+++.| .+|+++++|+++++++||++++++|++ ...+.++++.......+...+..+..+..+++.++++|.
T Consensus 8 ~~~~i~~~d---~~g~i~~~n~~~~~~~Gy~~~el~g~~--~~~~~~p~d~~~~~~~~~~~~~~~~~~~~e~r~~~~dG~ 82 (117)
T 3f1p_A 8 SKTFLSEHS---MDMKFTYCDDRITELIGYHPEELLGRS--AYEFYHALDSENMTKSHQNLCTKGQVVSGQYRMLAKHGG 82 (117)
T ss_dssp GGEEEEEEC---TTCBEEEECTHHHHHHCCCHHHHTTSB--GGGGBCGGGHHHHHHHHHHHHHHSEEECCCEEEECTTSS
T ss_pred CccEEEEEC---CCceEEEECcChhhhhCCCHHHHcCCc--hhheECHHHHHHHHHHHHHHHhCCCeeeeEEEEEecCCC
Confidence 457778888 789999999999999999999999998 455556666666666677777778778788899999999
Q ss_pred EEEEeee
Q psy6003 87 YSSVGGS 93 (109)
Q Consensus 87 ~~~~~~~ 93 (109)
.+|+++.
T Consensus 83 ~~w~~~~ 89 (117)
T 3f1p_A 83 YVWLETQ 89 (117)
T ss_dssp EEEEEEE
T ss_pred EEEEEEe
Confidence 9999654
No 11
>3p7n_A Sensor histidine kinase; LOV domain, light-activated transcription factor, DNA bindin; HET: FMN; 2.10A {Erythrobacter litoralis}
Probab=99.62 E-value=6.1e-15 Score=88.64 Aligned_cols=90 Identities=26% Similarity=0.361 Sum_probs=75.4
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++++|..+.+|+++++|++|++++||++++++|++ ...+.++.........+...+..+..+..+...+
T Consensus 67 ~i~~~~~~~i~~~d~~~~~g~i~~~N~a~~~l~G~~~~el~g~~--~~~l~~~~~~~~~~~~~~~~l~~~~~~~~e~~~~ 144 (258)
T 3p7n_A 67 DLIEASPIASVVSDPRLADNPLIAINQAFTDLTGYSEEECVGRN--CRFLAGSGTEPWLTDKIRQGVREHKPVLVEILNY 144 (258)
T ss_dssp HHHHTCSSEEEEECTTSTTCCEEEECHHHHHHHCCCGGGTTTSC--GGGGCCTTCCHHHHHHHHHHHHHTCCEEEEEEEE
T ss_pred HHHhcCCccEEEEcCCCCCCcEEEEhHHHHHHcCCCHHHHCCCC--hhhccCCCCchhHHHHHHHHHHcCCCeEEEEEEE
Confidence 35789999999999321188999999999999999999999998 5667767766777777788888888899999999
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
+++|..+|+.+.
T Consensus 145 ~~dG~~~~~~~~ 156 (258)
T 3p7n_A 145 KKDGTPFRNAVL 156 (258)
T ss_dssp CTTSCEEEEEEE
T ss_pred cCCCCEEEEeeE
Confidence 999999998543
No 12
>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=99.62 E-value=6.9e-15 Score=79.92 Aligned_cols=87 Identities=15% Similarity=0.128 Sum_probs=62.8
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe----eEEEE
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE----KHFEI 78 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~e~ 78 (109)
++++++++++++| .+|+|+++|+++++++||++++++|++ ...+.++.........+......+.. ...+.
T Consensus 21 l~~~~~d~i~~~d---~~g~i~~~N~a~~~l~Gy~~~eliG~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 95 (130)
T 1d06_A 21 ILDTVPDATVVSA---TDGTIVSFNAAAVRQFGYAEEEVIGQN--LRILMPEPYRHEHDGYLQRYMATGEKRIIGIDRVV 95 (130)
T ss_dssp HHTTCSSEEEEEE---TTSBEEEECHHHHHHHCCCHHHHTTSB--GGGGSCTTHHHHHHHHHHHHHHHCCCSSTTSCEEE
T ss_pred HHhhCcCeEEEEC---CCCeEEEEcHHHHHHHCCCHHHHcCCc--HHHHCCchhHHHHHHHHHHHHhcCCccccCCeeEE
Confidence 6899999999999 789999999999999999999999998 45554444332222233333333322 23466
Q ss_pred EEEecCCCEEEEeeec
Q psy6003 79 LYYKKDGKYSSVGGSY 94 (109)
Q Consensus 79 ~~~~~~g~~~~~~~~~ 94 (109)
..+++||+.+|++++.
T Consensus 96 ~~~~kdG~~~~~~~~~ 111 (130)
T 1d06_A 96 SGQRKDGSTFPMKLAV 111 (130)
T ss_dssp EEECTTSCEEEEEEEE
T ss_pred EEEeCCCCEEEEEEEE
Confidence 7789999999986543
No 13
>2vlg_A Sporulation kinase A; histidine kinase, two-component regulatory system, two-component signal transduction, transferase, phosphorylation, SCOD; 1.7A {Bacillus subtilis}
Probab=99.61 E-value=5.8e-15 Score=78.93 Aligned_cols=84 Identities=14% Similarity=-0.007 Sum_probs=58.8
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.+++++++.++++| .+|+++|+|+++++++||++++++|++ ...+.++++.......+. ........+++.+
T Consensus 3 ~lle~~~d~i~v~d---~~G~i~yvn~~~~~~lGy~~~el~G~~--~~~~ihp~D~~~~~~~~~---~~~~~~~~e~r~~ 74 (111)
T 2vlg_A 3 FPLQTKTDIHAVLA---SNGRIIYISANSKLHLGYLQGEMIGSF--LKTFLHEEDQFLVESYFY---NEHHLMPCTFRFI 74 (111)
T ss_dssp ------CCEEEEEC---TTSBEEEECTTHHHHHSCCHHHHTTSB--GGGGBCGGGHHHHHHHHH---CSCCSSCEEEEEE
T ss_pred chhhcCCCEEEEEc---CCCeEEEEChHHHHHhCCCHHHHcCCc--HHHeECHhHHHHHHHHHh---ccCCCccEEEEEE
Confidence 47899999999999 789999999999999999999999998 444555555444332221 2233345677888
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
++||+.+|++.+
T Consensus 75 ~kdG~~~wve~~ 86 (111)
T 2vlg_A 75 KKDHTIVWVEAA 86 (111)
T ss_dssp CTTSCEEEEEEE
T ss_pred cCCCCEEEEEEE
Confidence 999999999654
No 14
>2kdk_A ARYL hydrocarbon receptor nuclear translocator-LI 2; circadian clock, PAS domain, transcription, activator, biolo rhythms, DNA-binding, nucleus; NMR {Homo sapiens}
Probab=99.60 E-value=1.8e-14 Score=77.04 Aligned_cols=87 Identities=10% Similarity=0.115 Sum_probs=67.5
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcC-CeeEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAG-VEKHFEILY 80 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~e~~~ 80 (109)
.+++++++++++.| .+|+++++|+++++++||++++++|++ ...+.++.........+...+..+ .....+++.
T Consensus 7 ~~~~~~~~~i~~~d---~~g~i~~~N~~~~~~~G~~~~el~g~~--~~~~~~p~d~~~~~~~~~~~~~~~~~~~~~e~r~ 81 (121)
T 2kdk_A 7 EINVKPTEFITRFA---VNGKFVYVDQRATAILGYLPQELLGTS--CYEYFHQDDHNNLTDKHKAVLQSKEKILTDSYKF 81 (121)
T ss_dssp CCCCCSSEEEEEEC---TTSBEEEECTHHHHHTCCCTTTSBTSB--TTTTBCSSSHHHHHHHHHHHHTSSSCEEEEEEEE
T ss_pred ccccCCccEEEEEC---CCeeEEEEChhHHHHHCCCHHHHcCCc--HHHeeCHHHHHHHHHHHHHHHhCCCCCccEEEEE
Confidence 46789999999999 789999999999999999999999998 444555555554445555555543 345678888
Q ss_pred EecCCCEEEEeee
Q psy6003 81 YKKDGKYSSVGGS 93 (109)
Q Consensus 81 ~~~~g~~~~~~~~ 93 (109)
++++|+.+|+++.
T Consensus 82 ~~~dG~~~~~~~~ 94 (121)
T 2kdk_A 82 RAKDGSFVTLKSQ 94 (121)
T ss_dssp ECSSSCEEEEEEE
T ss_pred EEcCCCEEEEEEE
Confidence 8999999998543
No 15
>3mqq_A Transcriptional regulator, LUXR family; PAS domain, PSI, MCSG, structural genomics, center for structural genomics; 1.65A {Burkholderia thailandensis} PDB: 3mqo_A
Probab=99.60 E-value=7.5e-15 Score=78.64 Aligned_cols=87 Identities=11% Similarity=0.075 Sum_probs=66.5
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCc-HHHHHHHHHHHHcCCeeEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTS-QHAVQVVKEALAAGVEKHFEILY 80 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~e~~~ 80 (109)
.+++++++++++ + .+|+++++|+++++++||++++++|++ ...+.++... ......+...+..+..+..+...
T Consensus 7 ~~~~~~~~~i~~-~---~~g~i~~~N~a~~~l~G~~~~el~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 80 (120)
T 3mqq_A 7 TAFHLAPIGLVL-S---RDRVIEDCNDELAAIFRCARADLIGRS--FEVLYPSSDEFERIGERISPVMIAHGSYADDRIM 80 (120)
T ss_dssp HHHHHCSSEEEE-E---ETTEEEEECHHHHHHTTSCHHHHTTCB--GGGGSSSHHHHHHHHHHHHHHHHHHSCEEEEEEE
T ss_pred HHHhcCCceEEE-e---cCCEEHHHHHHHHHHhCcCHHHhCCCc--hhhccCChhhHHHHHHHHHHHHhcCCcceEEEEE
Confidence 368899999964 6 589999999999999999999999998 4545443222 23334455556667778888889
Q ss_pred EecCCCEEEEeeec
Q psy6003 81 YKKDGKYSSVGGSY 94 (109)
Q Consensus 81 ~~~~g~~~~~~~~~ 94 (109)
++++|+.+|+.++.
T Consensus 81 ~~~dG~~~~~~~~~ 94 (120)
T 3mqq_A 81 KRAGGELFWCHVTG 94 (120)
T ss_dssp ECTTSCEEEEEEEE
T ss_pred EeCCCCEEEEEEEE
Confidence 99999999996543
No 16
>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=99.60 E-value=3.2e-14 Score=88.22 Aligned_cols=90 Identities=28% Similarity=0.476 Sum_probs=75.1
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++++|....+|+++++|+++++++||++++++|++ ...+.++.........+...+..+..+..+.+.+
T Consensus 15 ~~~~~~~~~i~~~D~~~~~g~i~~~N~a~~~l~G~~~~el~G~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 92 (332)
T 2wkq_A 15 TTLERIEKNFVITDPRLPDNPIIFASDSFLQLTEYSREEILGRN--ARFLQGPETDRATVRKIRDAIDNQTEVTVQLINY 92 (332)
T ss_dssp CCGGGCCSEEEEECTTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTCCHHHHHHHHHHHHTTCCEEEEEEEE
T ss_pred hHhhcCCCcEEEecCCCCCCCEEEeehHHHHHhCCCHHHHcCCC--chhhcCCCCCHHHHHHHHHHHHcCCeeEEEEEEE
Confidence 36889999999999211189999999999999999999999998 5666666666666677788888888889999999
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
+++|+.+|+.+.
T Consensus 93 ~~dG~~~~~~~~ 104 (332)
T 2wkq_A 93 TKSGKKFWNLFH 104 (332)
T ss_dssp CTTCCEEEEEEE
T ss_pred cCCCCEEEEeeE
Confidence 999999998543
No 17
>3mfx_A Sensory BOX/ggdef family protein; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.40A {Shewanella oneidensis}
Probab=99.59 E-value=4.1e-15 Score=81.46 Aligned_cols=88 Identities=15% Similarity=0.139 Sum_probs=61.6
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcC-------Cee
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAG-------VEK 74 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~ 74 (109)
.++++++++++++| .+|+|+++|+++++++||++++++|++ ...+.++.........+......+ ..+
T Consensus 11 ~i~~~~~d~i~~~D---~~g~I~~~N~aa~~l~G~~~~el~G~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (129)
T 3mfx_A 11 LFIQHLTEAMILVN---ANGFIRSCNQRSAELLDCPQVSLKGQD--WRNFLTEHHQARYDNLLSHDVQLGTNCGQPVQHP 85 (129)
T ss_dssp HHHTTCSSEEEEEE---TTSBEEEECHHHHHHTTSCHHHHTTSB--GGGGBCTTCCGGGGCTTC----------CCSCEE
T ss_pred HHHhcCCceEEEEC---CCCEEEeEhHHHHHHHCcCHHHHcCCc--HHHHcChHhHHHHHHHHHHHHhcCcccccccCCC
Confidence 36899999999999 789999999999999999999999998 444444443322111111111111 123
Q ss_pred EEEEEEEecCCCEEEEeeec
Q psy6003 75 HFEILYYKKDGKYSSVGGSY 94 (109)
Q Consensus 75 ~~e~~~~~~~g~~~~~~~~~ 94 (109)
..+...+++||+.+|++++.
T Consensus 86 ~~E~~~~rkdG~~~~velsi 105 (129)
T 3mfx_A 86 AQETTLICASGKAKDVELSI 105 (129)
T ss_dssp EEEEEEECTTSCEEEEEEEE
T ss_pred ceEEEEEcCCCCEEEEEEEE
Confidence 56788889999999996543
No 18
>3ue6_A Aureochrome1; PAS/LOV domain, FMN-binding blue-light photoreceptor, signal protein; HET: FMN; 2.75A {Vaucheria frigida} PDB: 3ulf_A*
Probab=99.59 E-value=3.6e-14 Score=79.40 Aligned_cols=89 Identities=29% Similarity=0.536 Sum_probs=73.0
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++|...++|+++++|+++++++||+.++++|++ ...+.++.........+...+..+..+..+....+
T Consensus 40 ~~~~~~~~i~~~d~~~~~g~i~~~N~~~~~l~G~~~~e~~g~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 117 (166)
T 3ue6_A 40 ALQMAQQNFVITDASLPDNPIVYASRGFLTLTGYSLDQILGRN--CRFLQGPETDPRAVDKIRNAITKGVDTSVCLLNYR 117 (166)
T ss_dssp HHHHTTSCEEEEETTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTSCHHHHHHHHHHHHHTCCEEEEEEEEC
T ss_pred HHhcCCceEEEEEccCCCCcEEEECHHHHHHhCcCHHHHcCCC--HhheeCCCCCHHHHHHHHHHHhcCCceEEEEEEEc
Confidence 5788999999999311179999999999999999999999998 56566666666666777778888888888888889
Q ss_pred cCCCEEEEeee
Q psy6003 83 KDGKYSSVGGS 93 (109)
Q Consensus 83 ~~g~~~~~~~~ 93 (109)
++|..+|+.+.
T Consensus 118 ~~g~~~~~~~~ 128 (166)
T 3ue6_A 118 QDGTTFWNLFF 128 (166)
T ss_dssp TTSCEEEEEEE
T ss_pred CCCCEEEEEEE
Confidence 99999998543
No 19
>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=99.55 E-value=1.2e-13 Score=73.75 Aligned_cols=84 Identities=17% Similarity=0.102 Sum_probs=58.5
Q ss_pred cCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe----eEEEEEEE
Q psy6003 6 HTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE----KHFEILYY 81 (109)
Q Consensus 6 ~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~e~~~~ 81 (109)
+++++++++| .+|+|+++|+++++++||++++++|++ ...+.++.........+......+.. ...+...+
T Consensus 1 ~~~d~i~~~d---~~g~i~~~N~a~~~l~G~~~~el~G~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 75 (119)
T 2vv6_A 1 TIPDAMIVID---GHGIIQLFSTAAERLFGWSELEAIGQN--VNILMPEPDRSRHDSYISRYRTTSDPHIIGIGRIVTGK 75 (119)
T ss_dssp -CCCEEEEEE---TTSBEEEECHHHHHHHCCCHHHHTTSB--GGGGSCTTHHHHHHHHHHHHHHHCCCSSTTTCEEEEEE
T ss_pred CCcceEEEEC---CCCeEEEEhHHHHHHhCCCHHHHcCCC--HHHhCCchHHHHHHHHHHHHhcCCCcccCCCceEEEEE
Confidence 3678999999 789999999999999999999999998 45454443322222223333333322 23456678
Q ss_pred ecCCCEEEEeeec
Q psy6003 82 KKDGKYSSVGGSY 94 (109)
Q Consensus 82 ~~~g~~~~~~~~~ 94 (109)
++||+.+|++++.
T Consensus 76 ~~dG~~~~~~~~~ 88 (119)
T 2vv6_A 76 RRDGTTFPMHLSI 88 (119)
T ss_dssp CTTSCEEEEEEEE
T ss_pred eCCCCEEEEEEEE
Confidence 8999999986543
No 20
>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=99.54 E-value=4.7e-13 Score=73.84 Aligned_cols=88 Identities=23% Similarity=0.445 Sum_probs=68.2
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCC-----------cHHHHHHHHHHHHcC
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLT-----------SQHAVQVVKEALAAG 71 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~ 71 (109)
++++. ++++++|....+|+++++|+++++++||++++++|++ ...+.++.. .......+...+..+
T Consensus 31 ~~~~~-~~i~~~d~~d~~g~i~~~N~a~~~l~G~~~~el~g~~--~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 107 (149)
T 3d72_A 31 PVDTS-VALILCDLKQKDTPIVYASEAFLYMTGYSNAEVLGRN--CRFLQSPDGMVKPKSTRKYVDSNTINTMRKAIDRN 107 (149)
T ss_dssp SCCTT-SCEEEEETTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGGSTTSCCCTTCCCSSSCHHHHHHHHHHHHHT
T ss_pred hhcCC-ccEEEEeccCCCCcEEEECHHHHHHHCcCHHHHcCCC--hhHhCCccccccccccccccChHHHHHHHHHHHCC
Confidence 45664 8899888322378999999999999999999999998 555555442 455556667777778
Q ss_pred CeeEEEEEEEecCCCEEEEeee
Q psy6003 72 VEKHFEILYYKKDGKYSSVGGS 93 (109)
Q Consensus 72 ~~~~~e~~~~~~~g~~~~~~~~ 93 (109)
..+..+...++++|+.+|+.+.
T Consensus 108 ~~~~~e~~~~~~dG~~~~~~~~ 129 (149)
T 3d72_A 108 AEVQVEVVNFKKNGQRFVNFLT 129 (149)
T ss_dssp CCEEEEEEEECTTCCEEEEEEE
T ss_pred CceEEEEEEECCCCCEEEEEEE
Confidence 8888888888999999998543
No 21
>3ewk_A Sensor protein; PAS domain, alpha/beta fold, kinase, phosphoprotein, transfe flavoprotein; HET: FAD; 2.34A {Methylococcus capsulatus}
Probab=99.53 E-value=2.4e-13 Score=80.42 Aligned_cols=78 Identities=19% Similarity=0.335 Sum_probs=66.6
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEecCCCEEEE
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYKKDGKYSSV 90 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~~~~~ 90 (109)
++++| .+|+++++|++|++++||++++++|++ ...+.++.........+++.+..+..+..+...+++||+.+|+
T Consensus 2 i~i~D---~~g~i~~~N~a~~~l~Gy~~~el~G~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~dG~~~~~ 76 (227)
T 3ewk_A 2 VSITD---LQGRILYANDNFCAVSRYGREELVGQD--HRIVNSGYHGKAYIRDMWRTISRGNIWQGEFCNRRKDGTRYWV 76 (227)
T ss_dssp EEEEE---TTCBEEEECHHHHHHTTCCHHHHTTSB--GGGGCCSCSCHHHHHHHHHHHTTTCCEEEEEEEECSSSCEEEE
T ss_pred EEEEC---CCCcEEehHHHHHHHHCcCHHHHcCCC--HHHcCCCCCCHHHHHHHHHHHHcCCeEEEEEEEEcCCCCEEee
Confidence 67888 789999999999999999999999998 5666666666666677778888888899999999999999998
Q ss_pred eee
Q psy6003 91 GGS 93 (109)
Q Consensus 91 ~~~ 93 (109)
.+.
T Consensus 77 ~~~ 79 (227)
T 3ewk_A 77 DST 79 (227)
T ss_dssp EEE
T ss_pred eeE
Confidence 643
No 22
>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=99.53 E-value=8.3e-14 Score=73.74 Aligned_cols=81 Identities=17% Similarity=0.283 Sum_probs=62.3
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++| .+|+++++|+++++++||++++++|++ ...+.+...... ...+..+..+..+....+
T Consensus 18 ~~~~~~~~i~~~d---~~g~i~~~N~~~~~l~G~~~~el~g~~--~~~~~~~~~~~~-----~~~~~~~~~~~~e~~~~~ 87 (118)
T 3olo_A 18 LINNAVEASFCLG---DNWQFLYVNDATCRMTEYSREQLLSMN--LQDIDVDFALHD-----WEEIRQKNNYTFKTRYRS 87 (118)
T ss_dssp HHHHCSSEEEEEC---TTSBEEEECHHHHHHHCCCHHHHTTCB--GGGTBTTGGGSC-----HHHHHHHSEEEEEEEEEC
T ss_pred HHhcCCceEEEEC---CCCcEEEEHHHHHHHHCCCHHHHhCCC--hhhcccccCHHH-----HHHHHhcCcEEEEEEEEc
Confidence 5789999999999 789999999999999999999999998 444443332222 223344556777888889
Q ss_pred cCCCEEEEeee
Q psy6003 83 KDGKYSSVGGS 93 (109)
Q Consensus 83 ~~g~~~~~~~~ 93 (109)
++|..+|+.+.
T Consensus 88 ~~g~~~~~~~~ 98 (118)
T 3olo_A 88 QSGRIFLVEMS 98 (118)
T ss_dssp TTCCEEEEEEE
T ss_pred cCCCEEEEEEE
Confidence 99999988654
No 23
>3lyx_A Sensory BOX/ggdef domain protein; structural genomics, PSI- 2, protein structure initiative, northeast structural genomics consortium; 2.00A {Colwellia psychrerythraea}
Probab=99.52 E-value=6.3e-13 Score=70.06 Aligned_cols=87 Identities=22% Similarity=0.207 Sum_probs=71.7
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++++| .+++++++|+++++++|++.++++|++ ...+.++.........+...+..+..+..+....
T Consensus 11 ~~~~~~~~~i~~~d---~~~~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (124)
T 3lyx_A 11 KAFDYVFDAIVVTD---LQGFIIDWNKGSETLYGYSKEQAIGQP--VNMLHVPGDTEHITSEVISAVENQGKWTGEIRML 85 (124)
T ss_dssp HGGGTCSSEEEEEE---TTCBEEEECHHHHHHHCCCHHHHTTSB--GGGGSCTTTHHHHHHHHHHHHHHTSCEEEEEEEE
T ss_pred HHHhhcCceEEEEC---CCCcEeehhhHHHHHhCCCHHHHcCCC--HHHhcCcchhhHHHHHHHHHHHcCCcccceEEEE
Confidence 46899999999999 789999999999999999999999998 4555555555555566777777888888888888
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
.++|..+|+.+.
T Consensus 86 ~~~g~~~~~~~~ 97 (124)
T 3lyx_A 86 HKDGHIGWIESM 97 (124)
T ss_dssp CTTSCEEEEEEE
T ss_pred ccCCCEEEEEEE
Confidence 899999988543
No 24
>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=99.46 E-value=4.3e-12 Score=68.63 Aligned_cols=87 Identities=29% Similarity=0.515 Sum_probs=72.2
Q ss_pred cccccCCccEEEEecCCC---CeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLG---LCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEI 78 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~---~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 78 (109)
.++++++++++++| . +++++++|+++++++|++.++++|++ ...+.++.........+...+..+..+..+.
T Consensus 6 ~~~~~~~~~i~~~d---~~~~~~~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (146)
T 2v0u_A 6 TTLERIEKNFVITD---PRLPDNPIIFASDSFLQLTEYSREEILGRN--CRFLQGPETDRATVRKIRDAIDNQTEVTVQL 80 (146)
T ss_dssp CTGGGSSSCEEEEC---TTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTSCHHHHHHHHHHHHTTCCEEEEE
T ss_pred HHHhcCCCcEEEEc---CCCCCceEEEEcHHHHHHHCcCHHHHcCCC--HHHhcCCcCChHHHHHHHHHHhcCCCcceEE
Confidence 46899999999999 6 89999999999999999999999998 5555555555566667777778888888888
Q ss_pred EEEecCCCEEEEeee
Q psy6003 79 LYYKKDGKYSSVGGS 93 (109)
Q Consensus 79 ~~~~~~g~~~~~~~~ 93 (109)
....++|..+|+.+.
T Consensus 81 ~~~~~~g~~~~~~~~ 95 (146)
T 2v0u_A 81 INYTKSGKKFWNLFH 95 (146)
T ss_dssp EEECTTCCEEEEEEE
T ss_pred EEEecCCcEEEEEEE
Confidence 888899998888543
No 25
>3luq_A Sensor protein; PAS, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: PGE; 2.49A {Geobacter sulfurreducens}
Probab=99.45 E-value=8e-13 Score=69.31 Aligned_cols=85 Identities=12% Similarity=0.117 Sum_probs=60.2
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEE-EEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHF-EILY 80 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-e~~~ 80 (109)
.++++++++++++| .+++++++|+++++++|+++++++|++ ...+.+ .........+..... ++.... +...
T Consensus 7 ~~~~~~~~~i~~~d---~~g~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~~~~~ 79 (114)
T 3luq_A 7 LFTEHAPAALAMFD---REMRYLAVSRRWREDYGLGDGDILGMS--HYDIFP-EIGEEWKSVHRRGLA-GEVIRVEEDCF 79 (114)
T ss_dssp HHHHTCSSEEEEEE---TTCBEEEECHHHHHHTTCCSSCCTTCB--HHHHCT-TCCHHHHHHHHHHHT-TCCEEEEEEEE
T ss_pred HHHhcCCceEEEEc---CCcEEEEECHHHHHHHCCCHHHHcCCc--HHHHCC-ccHHHHHHHHHHHhc-CCcceeeeeEE
Confidence 36789999999999 789999999999999999999999998 444443 333333333444444 444433 3367
Q ss_pred EecCCCEEEEeee
Q psy6003 81 YKKDGKYSSVGGS 93 (109)
Q Consensus 81 ~~~~g~~~~~~~~ 93 (109)
..++|..+|+.+.
T Consensus 80 ~~~~g~~~~~~~~ 92 (114)
T 3luq_A 80 VRADGRTQWLRWE 92 (114)
T ss_dssp EC--CCEEEEEEE
T ss_pred EcCCCcEEEEEEE
Confidence 7889999888543
No 26
>3sw1_A Sensory box protein; light-oxygen-voltage, LOV, PAS, signaling protein; HET: FMN; 2.63A {Pseudomonas putida}
Probab=99.44 E-value=1.8e-12 Score=72.21 Aligned_cols=87 Identities=31% Similarity=0.438 Sum_probs=71.5
Q ss_pred cccccCCccEEEEecCCCCe---eEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLC---HIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEI 78 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~---~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 78 (109)
.++++++++++++| .++ +++++|+++++++|++.++++|+. ...+.++.........+...+..+..+..+.
T Consensus 29 ~i~~~~~~~i~~~d---~~~~~~~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 103 (162)
T 3sw1_A 29 SMVDASNDGIVVAE---KEGDDTILIYVNAAFEYLTGYSRDEILYQD--CRFLQGDDRDQLGRARIRKAMAEGRPCREVL 103 (162)
T ss_dssp HHHHTCSSEEEEEE---EETTEEEEEEECHHHHHHHTCCHHHHTTSB--GGGGTTTCCCCHHHHHHHHHHHHTCCEEEEE
T ss_pred HHHhhccCcEEEEe---CCCCccEEEEECHHHHHHHCCCHHHHcCCC--cceecCCCcCHHHHHHHHHHHhcCCCCcceE
Confidence 35789999999999 677 999999999999999999999998 5555555555556666777778888888888
Q ss_pred EEEecCCCEEEEeee
Q psy6003 79 LYYKKDGKYSSVGGS 93 (109)
Q Consensus 79 ~~~~~~g~~~~~~~~ 93 (109)
....++|..+|+.+.
T Consensus 104 ~~~~~~g~~~~~~~~ 118 (162)
T 3sw1_A 104 RNYRKDGSAFWNELS 118 (162)
T ss_dssp EEECTTCCEEEEEEE
T ss_pred EEECCCCCEEEEEEE
Confidence 888899999988544
No 27
>3mjq_A Uncharacterized protein; NESG, structural genomics, PSI-2, protein structure initiati northeast structural genomics consortium; 2.60A {Desulfitobacterium hafniense}
Probab=99.43 E-value=3.2e-12 Score=68.13 Aligned_cols=86 Identities=13% Similarity=0.209 Sum_probs=65.5
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++++| .+|+++++|+++++++|++.++++|++ ...+.++.........+......+. ...+....
T Consensus 3 ~l~~~~~~~i~~~d---~~g~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 76 (126)
T 3mjq_A 3 NFLETIEDMILIIN---REGRLLYANTAVPKKLGYTHEELMSMH--ILTITSAGKMAEGEKILAELFAGKK-ESLPLSLE 76 (126)
T ss_dssp TTGGGCSSEEEEEE---TTSBEEEECTHHHHHHSCCHHHHHHSB--HHHHHCTTCHHHHHHHHHHHHHTCC-SEEEEEEE
T ss_pred hHHhhCCceEEEEe---CCCcEEEEcHHHHHHHCCCHHHHcCCC--HHHHcCchhHHHHHHHHHHHHhCCC-ceeEEEEE
Confidence 57899999999999 789999999999999999999999998 4445544444444444444444443 36677778
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
.++|..+|+.+.
T Consensus 77 ~~~g~~~~~~~~ 88 (126)
T 3mjq_A 77 KKEGTSIPAKAR 88 (126)
T ss_dssp CTTSCEEEEEEE
T ss_pred ccCCCEEEEEEE
Confidence 889998888654
No 28
>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=99.40 E-value=2.2e-12 Score=69.22 Aligned_cols=83 Identities=20% Similarity=0.214 Sum_probs=56.5
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHh--CCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEE
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVM--QQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILY 80 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~--g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 80 (109)
++++++++++++| .+|+++++|+++++++||++++++ |++ ...+.+ ........+ .....+.....+...
T Consensus 22 l~e~~~~~i~~~d---~~g~i~~~N~a~~~~~G~~~~el~g~g~~--~~~~~~--~~~~~~~~~-~~~~~~~~~~~e~~~ 93 (126)
T 3bwl_A 22 LFENSPDMIDVLD---ADGTICEVNQRFCAELGYDESEVLGRSIW--EFDLMF--DAEDVQTQL-SGFSVDERRKFEGLY 93 (126)
T ss_dssp HHHHCSSEEEEEC---TTCBEEEECHHHHHHHTCCGGGTTTSBGG--GTBTTC--CHHHHHHHH-HTCCTTCEEEEEEEE
T ss_pred HHhhCCcEEEEEc---CCCCEEEEcHHHHHHhCCCHHHHhhCCCc--hhhccC--CHHHHHHHH-HHHhcCCCcceEEEE
Confidence 6789999999999 789999999999999999999994 565 222333 211111111 111123334455666
Q ss_pred EecCCCEEEEeee
Q psy6003 81 YKKDGKYSSVGGS 93 (109)
Q Consensus 81 ~~~~g~~~~~~~~ 93 (109)
.+++|..+|+.++
T Consensus 94 ~~~dG~~~~~~~~ 106 (126)
T 3bwl_A 94 ERRDGSTMSVEVH 106 (126)
T ss_dssp ECTTSCEEEEEEE
T ss_pred EeCCCCEEEEEEE
Confidence 7899999998644
No 29
>1mzu_A PPR; photoactive yellow protein, PAS, PYP, signaling protein; HET: HC4; 2.00A {Rhodospirillum centenum} SCOP: d.110.3.1
Probab=99.39 E-value=1.4e-11 Score=66.98 Aligned_cols=88 Identities=9% Similarity=-0.042 Sum_probs=65.2
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEE-E
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILY-Y 81 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~-~ 81 (109)
++++++.+++++| .+++|+++|+++++++|+++++++|++. .+.+.+......+..++.+.+.++. +..+... .
T Consensus 27 ~ld~l~~GiivlD---~dg~I~~~N~~~e~isG~s~eeviGk~~-f~~~~p~~~~~~f~grf~~~~~~G~-l~~~~~yv~ 101 (129)
T 1mzu_A 27 EFDALPVGAIQVD---GSGVIHRYNRTESRLSGRIPERVIGRNF-FTEVAPCTNIPAFSGRFMDGVTSGT-LDARFDFVF 101 (129)
T ss_dssp TGGGCSSEEEEEE---TTCBEEEECHHHHHHHCCCHHHHTTSBC-CCCCCGGGCSTTTHHHHHHHHHTSC-CEEEEEEEE
T ss_pred HHhccCceEEEEC---CCCeEEEEHHHHHHHhCCCHHHHcCCch-hhhccchhcccHHHHHHHHHHhcCc-eeEEEEEEE
Confidence 5899999999999 8999999999999999999999999992 2333333333445566777777665 5544433 3
Q ss_pred ecCCCEEEEeeecc
Q psy6003 82 KKDGKYSSVGGSYG 95 (109)
Q Consensus 82 ~~~g~~~~~~~~~~ 95 (109)
+.+|++.+++++..
T Consensus 102 ~~~~~p~~v~i~l~ 115 (129)
T 1mzu_A 102 DFQMAPVRVQIRMQ 115 (129)
T ss_dssp ECSSCEEEEEEEEE
T ss_pred cCCCCEEEEEEEEE
Confidence 77888888765543
No 30
>1byw_A Protein (human ERG potassium channel); PAS domain, potassium channel domain, membrane protein; 2.60A {Homo sapiens} SCOP: d.110.3.6
Probab=99.39 E-value=3.7e-11 Score=61.84 Aligned_cols=84 Identities=45% Similarity=0.867 Sum_probs=63.4
Q ss_pred ccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCc-cccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEecCCCE
Q psy6003 9 RSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQD-AICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYKKDGKY 87 (109)
Q Consensus 9 ~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~~ 87 (109)
++++++|....+|+++++|+++++++|++.++++|++ . ...+.++.........+...+..+..+..+....+++|..
T Consensus 2 ~~i~i~d~~~~~g~i~~~N~~~~~~~g~~~~~~~g~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~ 80 (110)
T 1byw_A 2 RKFIIANARVENCAVIYCNDGFCELCGYSRAEVMQRPCT-CDFLHGPCTQRRAAAQIAQALLGAEERKVEIAFYRKDGSC 80 (110)
T ss_dssp CEEEEEETTSSSCBEEEECHHHHHHHTCCHHHHTTSBTT-CGGGCCTTCCHHHHHHHHHHHHTTCCEEEEEEEECTTSCE
T ss_pred CCEEEEeccCCCCcEEEECHHHHHHhCCCHHHHccCCCc-cccccCCcCCHHHHHHHHHHHhcCCCceEEEEEEcCCCCE
Confidence 5788888532369999999999999999999999986 1 2444444444555566667777777788888888899999
Q ss_pred EEEeee
Q psy6003 88 SSVGGS 93 (109)
Q Consensus 88 ~~~~~~ 93 (109)
+|+.+.
T Consensus 81 ~~~~~~ 86 (110)
T 1byw_A 81 FLCLVD 86 (110)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 888543
No 31
>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=99.38 E-value=6.2e-12 Score=67.22 Aligned_cols=80 Identities=19% Similarity=0.193 Sum_probs=59.9
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
+++++++++++++| .+|+++++|+++++++|+++++++|++ ...+.++.........+.+.+..+.....++...
T Consensus 16 ~il~~~~~~i~~~D---~~g~i~~~N~a~~~l~g~~~~e~~G~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (118)
T 3fg8_A 16 NLYFQGGLGFMALD---EDLRIIYVNSGCLRHVRRSRDELLGRV--VTEVLPETQGSYFDALCRKVLATGREQQTRVDSL 90 (118)
T ss_dssp CSSSCTTCEEEEEC---TTCBEEEECHHHHHHHTCCHHHHTTSB--HHHHCGGGTTSHHHHHHHHHHHHCCCEEEEEECS
T ss_pred HHHhhCCceEEEEC---CCCeEEEECHHHHHHhCCCHHHHcCCc--HHHHcCccchHHHHHHHHHHHHcCCceEEEEEEE
Confidence 57899999999999 789999999999999999999999998 4445444444445556667777777766533223
Q ss_pred ecCCC
Q psy6003 82 KKDGK 86 (109)
Q Consensus 82 ~~~g~ 86 (109)
..+|.
T Consensus 91 ~~~g~ 95 (118)
T 3fg8_A 91 YSPGM 95 (118)
T ss_dssp SSTTC
T ss_pred cCCCe
Confidence 33554
No 32
>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=99.37 E-value=2.6e-11 Score=64.11 Aligned_cols=89 Identities=29% Similarity=0.538 Sum_probs=69.8
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++|....+++++++|+++++++|++.++++|++ ...+.++.........+...+..+..+..+.....
T Consensus 11 ~~~~~~~~i~~~d~~d~~~~i~~~N~~~~~~~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 88 (130)
T 2z6d_A 11 ALSTLQQTFVVSDATQPHCPIVYASSGFFTMTGYSSKEIVGRN--CRFLQGPDTDKNEVAKIRDCVKNGKSYCGRLLNYK 88 (130)
T ss_dssp HHHHTTCEEEEEETTSTTCCEEEECHHHHHHHCCCHHHHTTSC--GGGGCCTTSCHHHHHHHHHHHHTTCCEEEEEEEEC
T ss_pred HHHhcccceeeeeccCCCCcEEEecHHHHHHhCcCHHHHcCCC--hhhccCCCCCchHHHHHHHHHHcCCcceeEEEEEc
Confidence 5788999999998211268899999999999999999999998 45555555555556666777777887878888888
Q ss_pred cCCCEEEEeee
Q psy6003 83 KDGKYSSVGGS 93 (109)
Q Consensus 83 ~~g~~~~~~~~ 93 (109)
++|..+|+.+.
T Consensus 89 ~~g~~~~~~~~ 99 (130)
T 2z6d_A 89 KDGTPFWNLLT 99 (130)
T ss_dssp TTSCEEEEEEE
T ss_pred CCCcEEEEEEE
Confidence 89998888543
No 33
>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=99.37 E-value=1.4e-11 Score=66.78 Aligned_cols=87 Identities=15% Similarity=0.054 Sum_probs=64.1
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEE-E
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILY-Y 81 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~-~ 81 (109)
++++++.+++++| .+++|+++|+++++++|+++++++|++. .+.+.+......+..++.+.+.++. +..+... .
T Consensus 22 ~ld~l~~Gii~lD---~~g~I~~~N~~~e~~sG~~~~eviGk~~-f~~~~~~~~~~~f~~rf~~~~~~g~-l~~~~~~v~ 96 (125)
T 1nwz_A 22 QLDGLAFGAIQLD---GDGNILQYNAAEGDITGRDPKQVIGKNF-FKDVAPCTDSPEFYGKFKEGVASGN-LNTMFEYTF 96 (125)
T ss_dssp HHTTCSSEEEEEE---TTCBEEEECHHHHHHHCCCHHHHTTSBC-CCCCCGGGCSTTTHHHHHHHHHHTC-CEEEEEEEE
T ss_pred HHhccCceEEEEC---CCCEEEEEHHHHHHHhCCCHHHHcCCch-hhhccchhcccHHHHHHHHHHhcCc-eeEEEEEEE
Confidence 4789999999999 8999999999999999999999999992 2333333333445566677677665 5444333 3
Q ss_pred ecCCCEEEEeeec
Q psy6003 82 KKDGKYSSVGGSY 94 (109)
Q Consensus 82 ~~~g~~~~~~~~~ 94 (109)
+.+|++.+++++.
T Consensus 97 ~~~~~p~~v~i~l 109 (125)
T 1nwz_A 97 DYQMTPTKVKVHM 109 (125)
T ss_dssp CTTSCCEEEEEEE
T ss_pred cCCCCEEEEEEEE
Confidence 7788888776554
No 34
>3nja_A Probable ggdef family protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; 2.37A {Chromobacterium violaceum}
Probab=99.36 E-value=4.8e-12 Score=67.21 Aligned_cols=89 Identities=10% Similarity=-0.015 Sum_probs=64.3
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++..| .+++++++|+++++++|++++++.|.......+.++.+.......+...+..+..+..+++..
T Consensus 11 ~~~~~~~~~i~~~d---~~~~~~~~n~~~~~~~G~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~e~~~~ 87 (125)
T 3nja_A 11 TAESDAGIGSWVLH---MESGRLEWSQAVHDIFGTDSATFDATEDAYFQRVHPDDRARVRRELDRHVLGDRPFDVEYRIV 87 (125)
T ss_dssp ------CCEEEEEE---TTTTEEEECHHHHHHHTCCTTTCCCBHHHHHHHBCTTTHHHHHHHHHHHHHSCCCEEEEEEEE
T ss_pred HHHHhCCeeEEEEE---cCCCcEEECHHHHHHhCCCcccccccHHHHHhhcChhHHHHHHHHHHHHHhcCCCceEEEEEE
Confidence 46789999999999 788899999999999999999988832002223445555555666677777787788888888
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
+++|..+|+.+.
T Consensus 88 ~~~g~~~~~~~~ 99 (125)
T 3nja_A 88 RPDGQVRELLER 99 (125)
T ss_dssp CTTSCEEEEEEE
T ss_pred CCCCCEEEEEEe
Confidence 999999998654
No 35
>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=99.35 E-value=2.9e-11 Score=64.79 Aligned_cols=87 Identities=44% Similarity=0.811 Sum_probs=66.9
Q ss_pred cccCCccEEEEecCCC---CeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEE
Q psy6003 4 KHHTNRSFLVANSHLG---LCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILY 80 (109)
Q Consensus 4 ~~~~~~~i~i~d~~~~---~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 80 (109)
+++++++++++| . +++++++|+++++++|++.++++|++.....+..+.........+...+..+..+..+...
T Consensus 25 ~~~~~~~i~~~d---~~~~~g~i~~~N~~~~~l~g~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 101 (138)
T 2l0w_A 25 FEGQSRKFIIAN---ARVENCAVIYCNDGFCELCGYSRAEVMQRPCTCDFLHGPRTQRRAAAQIAQALLGAEERKVEIAF 101 (138)
T ss_dssp HTTTTSEEEEEE---SSSTTCBEEEECSHHHHHHSCCHHHHTTSBTTCGGGCCTTCCHHHHHHHHHHTTCSSCEEEEEEE
T ss_pred HhcCCCCEEEEe---cCCCCCEEEEeCHHHHHHhCCCHHHHcCCCCcccccCCcccchhHHHHHHHHHhhcCCceeEEEE
Confidence 567999999999 6 8999999999999999999999998600244445555455555666666677777778878
Q ss_pred EecCCCEEEEeee
Q psy6003 81 YKKDGKYSSVGGS 93 (109)
Q Consensus 81 ~~~~g~~~~~~~~ 93 (109)
.+++|..+|+.+.
T Consensus 102 ~~~~g~~~~~~~~ 114 (138)
T 2l0w_A 102 YRKDGSCFLCLVD 114 (138)
T ss_dssp ECTTSCEEEEEEE
T ss_pred ECCCCCEEEEEEE
Confidence 8889998888543
No 36
>1ll8_A PAS kinase; PAS domain, ligand binding, ligand screening, kinase regulation, transferase; NMR {Homo sapiens} SCOP: d.110.3.5
Probab=99.33 E-value=9.3e-13 Score=69.81 Aligned_cols=83 Identities=18% Similarity=0.248 Sum_probs=54.9
Q ss_pred ccCCccEEEEecCCCC-eeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHH-HHc-CCee---EEEE
Q psy6003 5 HHTNRSFLVANSHLGL-CHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEA-LAA-GVEK---HFEI 78 (109)
Q Consensus 5 ~~~~~~i~i~d~~~~~-~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~~~~---~~e~ 78 (109)
.+.+++++++| .+ |+|+++|+++++++||++++++|++ ...+.++..... ...+... ... +... ..+.
T Consensus 5 ~~~~~~i~~~d---~~~g~I~~~N~aa~~l~G~~~~el~g~~--~~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 78 (114)
T 1ll8_A 5 PEFNKAIFTVD---AKTTEILVANDKACGLLGYSSQDLIGQK--LTQFFLRSDSDV-VEALSEEHMEADGHAAVVFGTVV 78 (114)
T ss_dssp TTTTCEEEEEE---TTTCBEEEECTTHHHHHTCCTTTTTTSB--GGGGSSCTTTHH-HHHTTSSTTSSSSCSSCCCSSSE
T ss_pred CCCCceEEEEE---CCCCeEEEehHHHHHHhCCCHHHHcCCC--HHHhcCcchhHH-HHHHHHHhhccCCcceeccCcEE
Confidence 34557999999 77 9999999999999999999999998 444544433222 2222111 111 1111 2345
Q ss_pred EEEecCCCEEEEeee
Q psy6003 79 LYYKKDGKYSSVGGS 93 (109)
Q Consensus 79 ~~~~~~g~~~~~~~~ 93 (109)
..++++|+.+|++++
T Consensus 79 ~~~~~dG~~~~v~~~ 93 (114)
T 1ll8_A 79 DIISRSGEKIPVSVW 93 (114)
T ss_dssp EECCTTCCCEEEECC
T ss_pred EEEecCCCEEEEEEE
Confidence 567889999998543
No 37
>3h9w_A Diguanylate cyclase with PAS/PAC sensor; alpha-beta protein., structural genomics, PSI-2, protein STR initiative; 1.90A {Marinobacter aquaeolei}
Probab=99.33 E-value=5.7e-12 Score=66.75 Aligned_cols=84 Identities=14% Similarity=0.131 Sum_probs=63.9
Q ss_pred CCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEecCCC
Q psy6003 7 TNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYKKDGK 86 (109)
Q Consensus 7 ~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~ 86 (109)
++++++..|. .++++.|+|+++++++||+++++.|... ...+.++++.......+...+..+..+..+++.++++|+
T Consensus 2 a~~giw~~d~--~~~~~~~~n~~~~~l~G~~~~e~~~~~~-~~~~ihpdd~~~~~~~~~~~~~~~~~~~~e~r~~~~dG~ 78 (115)
T 3h9w_A 2 TKAIPWKINW--QTMAFEYIGPQIEALLGWPQGSWKSVED-WATRMHPEDQEWVVNFCVKQSECGVDHEADYRALHRDGH 78 (115)
T ss_dssp -CCEEEEEET--TTTEEEEECTHHHHHHCSCGGGCCBHHH-HHHSBCHHHHHHHHHHHHHHHHTTCCEEEEEEEECTTSC
T ss_pred cceEEEEEEc--CCCcEEEEChhHHHHhCCChHHccCHHH-HHHhcCHHHHHHHHHHHHHHHhcCCcccEEEEEEcCCCC
Confidence 4678888886 4788999999999999999999888321 222344555555556677777777788889999999999
Q ss_pred EEEEeee
Q psy6003 87 YSSVGGS 93 (109)
Q Consensus 87 ~~~~~~~ 93 (109)
.+|++..
T Consensus 79 ~~w~~~~ 85 (115)
T 3h9w_A 79 YVWIRDV 85 (115)
T ss_dssp EEEEEEE
T ss_pred EEEEEEE
Confidence 9998643
No 38
>3icy_A Sensor protein; sensory box histidine kinase/response regulator domain, kinase, chlorobium tepidum TLS, PSI-2; 2.68A {Chlorobaculum tepidum}
Probab=99.30 E-value=2.2e-12 Score=68.17 Aligned_cols=89 Identities=6% Similarity=-0.127 Sum_probs=69.5
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY 81 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~ 81 (109)
.++++++++++.+| .++.++++|+++.+++||+++++.+.......+.++++.......+...+..+..+..+++.+
T Consensus 8 ~l~~~~~~~i~~~d---~~~~~~~~n~~~~~~~G~~~~~~~~~~~~~~~~i~p~d~~~~~~~~~~~~~~~~~~~~e~r~~ 84 (118)
T 3icy_A 8 ALVDNIPAAIYHLD---VSGQATIRFRPPAFLKTLVSEHAGTTRLNTLSMIHHDDRHMLSNAYSKLREAKHSLTLVYRIV 84 (118)
T ss_dssp HHHTTCCCCCEEEC---TTSCEEECCCCCGGGGGGEEEETTEEEEGGGGGBCGGGHHHHHHHHHHHHHSCCEEEEEEEEE
T ss_pred HHHhcCCceEEEEE---cCCCceEEechhHhhcCCCHHHccCChhHHHHHcCHHHHHHHHHHHHHHHhcCCCceEEEEEE
Confidence 36789999999999 788999999999999999999987765101223455555556666677777888888899999
Q ss_pred ecCCCEEEEeee
Q psy6003 82 KKDGKYSSVGGS 93 (109)
Q Consensus 82 ~~~g~~~~~~~~ 93 (109)
+++|+.+|+...
T Consensus 85 ~~~g~~~w~~~~ 96 (118)
T 3icy_A 85 TPEGKLHWIEDH 96 (118)
T ss_dssp CTTCCEEEEEEE
T ss_pred CCCCCEEEEEEE
Confidence 999999998543
No 39
>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=99.30 E-value=2.9e-12 Score=71.96 Aligned_cols=66 Identities=11% Similarity=0.056 Sum_probs=52.9
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE 73 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 (109)
.++++++++++++| .+|+|+++|+++++++|+++++++|++ ...+.++ ........+..++..+..
T Consensus 26 ~il~~~~~gi~v~D---~~g~I~~~N~a~~~~~G~~~~eviG~~--~~~~~p~-~~~~~~~~l~~vl~~G~~ 91 (152)
T 3mxq_A 26 ELLDQLSFALCIVR---NDYVIVKVNEYFESRVIFDGETMQGKN--ILELFPE-SADYLKRKIDTALVIESS 91 (152)
T ss_dssp HHHHHHCCEEEEEE---TTSBEEEECHHHHHTSSSCHHHHTTSB--HHHHSGG-GHHHHHHHHHHHHHHTSC
T ss_pred HHHhcCCCCEEEEc---CCCEEEEECHHHHHHHCcCHHHHCCCC--HHHhcCC-hHHHHHHHHHHHHhcCCc
Confidence 36789999999999 899999999999999999999999999 5555555 444444556777776654
No 40
>3b33_A Sensor protein; structural genomics, PAS domain, nitrogen regulation protein APC91440.4, PSI-2; HET: MSE; 1.83A {Vibrio parahaemolyticus rimd 2210633}
Probab=99.28 E-value=1.5e-11 Score=65.03 Aligned_cols=82 Identities=13% Similarity=0.136 Sum_probs=57.2
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCee-EEEEEEE
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEK-HFEILYY 81 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~e~~~~ 81 (109)
++++++++++++| .+|+++++|+++++++|++.++++|++ ...+.+.... ....+.+.+..+... ..+....
T Consensus 12 il~~~~~~i~~~D---~~g~I~~~N~aa~~l~g~~~~~~~g~~--~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~ 84 (115)
T 3b33_A 12 ILNNMVTATLILD---DGLAIRYANPAAELLFSQSAKRIVEQS--LSQLIQHASL--DLALLTQPLQSGQSITDSDVTFV 84 (115)
T ss_dssp HHHHCSSEEEEEC---TTCBEEEECHHHHHHTTSCHHHHTTCB--HHHHCSEEEC--CTHHHHHHHHHCCCEEEEEEEEE
T ss_pred HHhhcCceEEEEC---CCCcEEEECHHHHHHhCCCHHHHhCCC--HHHHhCccch--hhHHHHHHHHcCCcccCCceEEe
Confidence 5789999999999 789999999999999999999999998 3433332211 112233445555443 3454444
Q ss_pred ecCCCEEEEee
Q psy6003 82 KKDGKYSSVGG 92 (109)
Q Consensus 82 ~~~g~~~~~~~ 92 (109)
++|..+|+.+
T Consensus 85 -~~g~~~~~~~ 94 (115)
T 3b33_A 85 -VDGRPLMLEV 94 (115)
T ss_dssp -ETTEEEEEEE
T ss_pred -cCCCEEEEEE
Confidence 6788777744
No 41
>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=99.24 E-value=5.1e-11 Score=62.81 Aligned_cols=85 Identities=14% Similarity=0.076 Sum_probs=62.5
Q ss_pred ccccCCccEEEEecCCCC-eeEEEecHHHHHhhCCChHHHhCCcccccc--ccCCCCcHHHHHHHHHHHHcCCeeEEEEE
Q psy6003 3 LKHHTNRSFLVANSHLGL-CHIIYCSDGFCRLTGFSRAEVMQQDAICKF--LHGPLTSQHAVQVVKEALAAGVEKHFEIL 79 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~-~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~e~~ 79 (109)
++++++++++++| .+ ++++++|+++++++|++++++.|.. ... +.++.........+ .....+..+..+++
T Consensus 16 ~~~~~~~~i~~~d---~~~~~i~~~n~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~e~~ 89 (125)
T 3eeh_A 16 LTEATNDILWEFT---ADLSEVLVINSAYEDIWGRSVAKLRENP--HDFLNGIHPEDRELMKDTM-QSLMDGESADVECR 89 (125)
T ss_dssp HHSCCCCEEEEEE---TTSSCEEEECTHHHHHHSSCHHHHHHCG--GGGGGGBCHHHHHHHHHHH-HHHHTTCCEEEEEE
T ss_pred HHhcCCceEEEEE---cCCCcEEEecHHHHHHHCCCHHHHccCc--HHHHHhcCHHHHHHHHHHH-HHHHcCCCccEEEE
Confidence 5789999999999 67 8999999999999999999999876 221 22222222222333 33566777788888
Q ss_pred EEecCCCEEEEeee
Q psy6003 80 YYKKDGKYSSVGGS 93 (109)
Q Consensus 80 ~~~~~g~~~~~~~~ 93 (109)
...++|..+|+.+.
T Consensus 90 ~~~~~g~~~~~~~~ 103 (125)
T 3eeh_A 90 VNATEEYQRWVWIQ 103 (125)
T ss_dssp ECGGGTTCEEEEEE
T ss_pred EEcCCCCEEEEEEe
Confidence 88889998898544
No 42
>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=99.23 E-value=3.1e-11 Score=64.30 Aligned_cols=41 Identities=10% Similarity=0.092 Sum_probs=36.9
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCc
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQD 45 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~ 45 (109)
.++++++++++++| .+|+++++|+++++++|+++++++|++
T Consensus 23 ~i~~~~~~~i~~~d---~~g~i~~~N~~~~~~~g~~~~~~~g~~ 63 (125)
T 3fc7_A 23 SLVSDSPDGIVHLT---TNGTILSVNPSMAGRLGADPDTLVGQQ 63 (125)
T ss_dssp ---CCSCCEEEEEE---TTSBEEEECHHHHHHHTSCHHHHTTSB
T ss_pred HHHhcCCCeEEEEc---CCCeEEEECHHHHHHhCCCHHHHcCcc
Confidence 46899999999999 789999999999999999999999998
No 43
>3mr0_A Sensory box histidine kinase/response regulator; PAS fold, structural genomics, PSI-2; HET: PG5; 1.49A {Burkholderia thailandensis}
Probab=99.22 E-value=1.2e-10 Score=63.94 Aligned_cols=87 Identities=13% Similarity=0.106 Sum_probs=66.9
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++.+++..| ..+..+++|+++.+++||+++++.+.......+.+|++.......+...+..+..+..+++.+.
T Consensus 14 ~~~~~~~g~w~~d---~~~~~~~~s~~~~~~~G~~~~~~~~~~~~~~~~ihpdD~~~~~~~~~~~~~~~~~~~~e~r~~~ 90 (142)
T 3mr0_A 14 AVSGASAGLWDWN---PKTGAMYLSPHFKKIMGYEDHELPDEITGHRESIHPDDRARVLAALKAHLEHRDTYDVEYRVRT 90 (142)
T ss_dssp HHHHTTCEEEEEC---TTTCCEEECHHHHHHTTCCGGGSCSEEC---CCBCTTTHHHHHHHHHHHHHHCCCEEEEEEEEC
T ss_pred HHHhCCcEEEEEE---cCCCeEEECHHHHHHhCCCccccCCCHHHHHhhcCHHHHHHHHHHHHHHHhCCCceEEEEEEEC
Confidence 4578899999999 5677889999999999999998766320022344566666666677777778888889999999
Q ss_pred cCCCEEEEee
Q psy6003 83 KDGKYSSVGG 92 (109)
Q Consensus 83 ~~g~~~~~~~ 92 (109)
++|..+|+..
T Consensus 91 ~~G~~~w~~~ 100 (142)
T 3mr0_A 91 RSGDFRWIQS 100 (142)
T ss_dssp TTSCEEEEEE
T ss_pred CCCCEEEEEE
Confidence 9999999854
No 44
>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=99.20 E-value=8.9e-11 Score=65.27 Aligned_cols=86 Identities=15% Similarity=0.130 Sum_probs=59.1
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe----eEEEE
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE----KHFEI 78 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~e~ 78 (109)
++++++++++++| .+|+++++|+++.+++|++.++++|++ ...+.++.........+......+.. +..+.
T Consensus 45 ~l~~~~~~i~~~d---~~g~i~~~N~~~~~l~g~~~~~~~g~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 119 (167)
T 1v9y_A 45 ALEQNMMGAVLIN---ENDEVMFFNPAAEKLWGYKREEVIGNN--IDMLIPRDLRPAHPEYIRHNREGGKARVEGMSREL 119 (167)
T ss_dssp HHHTCSSEEEEEC---TTSBEEEECHHHHHHHSCCGGGTTTSB--GGGGSCGGGTTTHHHHHHHHHC----------CEE
T ss_pred HHHhCCCCEEEEC---CCCcEEEECHHHHHHhCCCHHHHcCCC--hhhccCccccchHHHHHHHHhhcCCCcccccceEE
Confidence 5788999999999 789999999999999999999999998 45454444333333333333332222 34466
Q ss_pred EEEecCCCEEEEeee
Q psy6003 79 LYYKKDGKYSSVGGS 93 (109)
Q Consensus 79 ~~~~~~g~~~~~~~~ 93 (109)
....++|..+|+.+.
T Consensus 120 ~~~~~~g~~~~~~~~ 134 (167)
T 1v9y_A 120 QLEKKDGSKIWTRFA 134 (167)
T ss_dssp EEECTTSCEEEEEEE
T ss_pred EEEcCCCcEEEEEEE
Confidence 677888998888543
No 45
>3rty_A Period circadian protein; PAS domain, signalling, timeless, circadian clock protein; 2.85A {Drosophila melanogaster} PDB: 1wa9_A 3gec_A
Probab=99.19 E-value=1.3e-10 Score=72.79 Aligned_cols=82 Identities=6% Similarity=0.022 Sum_probs=63.9
Q ss_pred CccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe-----eEEEEEEEe
Q psy6003 8 NRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE-----KHFEILYYK 82 (109)
Q Consensus 8 ~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~e~~~~~ 82 (109)
.+.+...+ .+|.++|+|+++..++||+++|++|++ ...+.++++.......+...+.++.. ...+++.++
T Consensus 154 ~~fi~r~~---~dG~~~yvn~~~~~lLGY~peELiG~s--~~~~vHPdD~~~~~~~~~~~l~~G~~~~~~~~s~~yR~~~ 228 (339)
T 3rty_A 154 PKFAIRHT---ATGIISHVDSAAVSALGYLPQDLIGRS--IMDFYHHEDLSVMKETYETVMKKGQTAGASFCSKPYRFLI 228 (339)
T ss_dssp CEEEEEEE---TTCBEEEECTTHHHHHCCCHHHHTTSB--GGGGBCGGGHHHHHHHHHHHHHHTTSTTCCCBCCCEEEEC
T ss_pred ceEEEEEC---CCCeEEEcChhhhcccCCCHHHHcCCc--HHHEECHHHHHHHHHHHHHHHHcCCcccccccceEEEEEc
Confidence 45566677 789999999999999999999999998 45566666666666666777766653 356788999
Q ss_pred cCCCEEEEeeec
Q psy6003 83 KDGKYSSVGGSY 94 (109)
Q Consensus 83 ~~g~~~~~~~~~ 94 (109)
++|..+|++...
T Consensus 229 kdG~~vWlet~~ 240 (339)
T 3rty_A 229 QNGCYVLLETEW 240 (339)
T ss_dssp TTSCEEEEEEEE
T ss_pred cCCCEEEEEEEE
Confidence 999999997543
No 46
>4eho_A Bacteriophytochrome, PAS/PAC sensor; photoreceptor, bacteriopbhytochrome; HET: MSE BLA; 2.90A {Rhodopseudomonas palustris tie-1}
Probab=99.18 E-value=1.5e-11 Score=82.45 Aligned_cols=83 Identities=13% Similarity=0.085 Sum_probs=68.5
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEe
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYK 82 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 82 (109)
++++++++++++| .+|+++++|++|++++||+.++.+|++ .....++.. ......+.+.+..++.+.++++.++
T Consensus 523 lle~a~~~i~~~D---~~grI~~~N~a~~~l~G~s~~e~~g~~--~l~~~~~~~-~~~~~~i~~~l~~g~~~~~E~~~~~ 596 (635)
T 4eho_A 523 QVHASMQPVLITD---AEGRILLMNDSFRDMLPAGSPSAVHLD--DLAGFFVES-NDFLRNVAELIDHGRGWRGEVLLRG 596 (635)
T ss_dssp HHHHCSSCCEEEE---TTCCEEEECHHHHTTSCSSCCCCCSSG--GGTTSSSSC-THHHHHHHHHHHHCCCBCCCCEECC
T ss_pred HHHhCCCcEEEEC---CCCeEeeHHHHHHHHHCcChHHHcCcc--hhhccCCCC-HHHHHHHHHHHHcCCcEEEEEEEEc
Confidence 4678899999999 789999999999999999999999987 333344443 3445667777888888999999999
Q ss_pred cCCCEEEEe
Q psy6003 83 KDGKYSSVG 91 (109)
Q Consensus 83 ~~g~~~~~~ 91 (109)
+||+.+|+.
T Consensus 597 ~dG~~~~~~ 605 (635)
T 4eho_A 597 AGNRPLPLA 605 (635)
T ss_dssp SSSSCEECC
T ss_pred cCCcEEEEE
Confidence 999999984
No 47
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=99.18 E-value=5.2e-11 Score=75.14 Aligned_cols=80 Identities=8% Similarity=-0.027 Sum_probs=63.5
Q ss_pred ccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEEecCCCEE
Q psy6003 9 RSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYYKKDGKYS 88 (109)
Q Consensus 9 ~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~g~~~ 88 (109)
..++..+ .+|.++|+|+++..++||+++|++|++ ...+.++++.......+...+..+.....+++.++++|..+
T Consensus 252 ~f~~~~~---~dg~~~~vn~~~~~ilGY~~eEl~g~~--~~~~iHpdD~~~~~~~~~~~l~~g~~~~~eyR~~~kdG~~v 326 (361)
T 4f3l_A 252 EFTSRHS---LEWKFLFLDHRAPPIIGYLPFEVLGTS--GYDYYHVDDLENLAKCHEHLMQYGKGKSCYYRFLTKGQQWI 326 (361)
T ss_dssp EEEEEEC---TTSBEEEECTTSHHHHCCCHHHHTTSB--GGGGBCHHHHHHHHHHHHHHHHHSEEECCCEEEECTTSEEE
T ss_pred eeEEEEc---CCceEEEECChhhhhhCcCHHHHcCCC--HHHeECHHHHHHHHHHHHHHHhCCCcceEEEEEEecCCCEE
Confidence 3445555 689999999999999999999999998 45555666555556667777777777777889999999999
Q ss_pred EEeee
Q psy6003 89 SVGGS 93 (109)
Q Consensus 89 ~~~~~ 93 (109)
|++..
T Consensus 327 Wv~~~ 331 (361)
T 4f3l_A 327 WLQTH 331 (361)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 99643
No 48
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm, protein binding; 2.50A {Mus musculus}
Probab=99.10 E-value=9e-10 Score=68.44 Aligned_cols=78 Identities=13% Similarity=0.204 Sum_probs=60.7
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe---eEEEEEEEecCCCE
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE---KHFEILYYKKDGKY 87 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~e~~~~~~~g~~ 87 (109)
+...+ .+|+++|+|+++..++||.++|++|++ ...+.++++.....+...+.+..++. ...+++.+++||..
T Consensus 177 itrh~---~dG~~~yvs~~~~~lLGY~peELig~s--~~~~vHPdD~~~~~~~~~~~l~~~~~~~f~s~~yR~~~kdG~~ 251 (317)
T 4dj3_A 177 TTTHT---PGCVFLEVDERAVPLLGYLPQDLIGTS--ILTYLHPEDRPLMVAIHQKVLKYAGHPPFEHSPVRFCTQNGEY 251 (317)
T ss_dssp EEEEC---TTSBEEEECTTHHHHHSCCHHHHTTSB--GGGGBCTTTTTHHHHHHHHHHHTTTSCCEECCCEEEECTTSCE
T ss_pred EEEec---CCCeEEEEChHHhhhcCcChHHHcCCC--HHHeECHHHHHHHHHHHHHHHHcCCCccccceEEEEEccCCCE
Confidence 44445 689999999999999999999999998 45555666666666666677776554 35678999999999
Q ss_pred EEEeee
Q psy6003 88 SSVGGS 93 (109)
Q Consensus 88 ~~~~~~ 93 (109)
.|++..
T Consensus 252 vwvet~ 257 (317)
T 4dj3_A 252 VILDSS 257 (317)
T ss_dssp EEEEEE
T ss_pred EEEEEE
Confidence 998754
No 49
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=99.10 E-value=3.9e-10 Score=71.76 Aligned_cols=81 Identities=9% Similarity=0.085 Sum_probs=60.9
Q ss_pred CccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe-eEEEEEEEecCCC
Q psy6003 8 NRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE-KHFEILYYKKDGK 86 (109)
Q Consensus 8 ~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~e~~~~~~~g~ 86 (109)
.+.++..+ .+|.++|+|+++..++||+++|++|++ ...+.++++.......+...+..++. ...+++.+++||.
T Consensus 278 ~~fi~~~~---~dg~~~~vn~~~~~ilGY~~eEl~g~~--~~~~iHpdD~~~~~~~~~~~l~~~~~~~~~eyR~~~kdG~ 352 (387)
T 4f3l_B 278 MEYVSRHA---IDGKFVFVDQRATAILAYLPQELLGTS--CYEYFHQDDIGHLAECHRQVLQTREKITTNCYKFKIKDGS 352 (387)
T ss_dssp CEEEEEEC---TTSBEEEECTHHHHHHCCCHHHHTTSB--GGGTBCHHHHHHHHHHHHHHTTCSSCEECCCEEEECTTSC
T ss_pred ceEEEEEC---CCCEEEEECCCcccccCCCHHHHcCCc--HHHeeCHHHHHHHHHHHHHHHhcCCCeeeEEEEEEccCCC
Confidence 34556666 689999999999999999999999998 44455555555555555555555443 4568899999999
Q ss_pred EEEEeee
Q psy6003 87 YSSVGGS 93 (109)
Q Consensus 87 ~~~~~~~ 93 (109)
.+|++..
T Consensus 353 ~vWv~~~ 359 (387)
T 4f3l_B 353 FITLRSR 359 (387)
T ss_dssp EEEEEEE
T ss_pred EEEEEEE
Confidence 9999643
No 50
>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=99.07 E-value=3.6e-10 Score=62.74 Aligned_cols=85 Identities=6% Similarity=-0.001 Sum_probs=58.2
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEE-E
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEIL-Y 80 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~-~ 80 (109)
.++++++++++++|. .+++++++|+++++++|++ +++|++ ...+.++.........+.+.+..+.....+.. .
T Consensus 21 ~~~~~~~~~i~~~d~--~~~~i~~~N~~~~~~~g~~--~~~G~~--~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~ 94 (158)
T 3k3c_A 21 RIFEHIPAILVGLEG--PDHRFVAVNAAYRGFSPLL--DTVGQP--AREVYPELEGQQIYEMLDRVYQTGEPQSGSEWRL 94 (158)
T ss_dssp HHHHHCSSEEEEEET--TTTEEEEECHHHHHHCTTC--CSTTSB--HHHHSGGGGGTTHHHHHHHHHHHCCCEEEEEEEE
T ss_pred HHHhcCCceEEEEEC--CCcEeHHHHHHHHHHcCCc--hhcCCc--HHHhCCchhHHHHHHHHHHHHHhCCcccccceeE
Confidence 367899999999982 3789999999999999999 889998 44455444444455566677767766544322 2
Q ss_pred --Eec-C-CCEEEEee
Q psy6003 81 --YKK-D-GKYSSVGG 92 (109)
Q Consensus 81 --~~~-~-g~~~~~~~ 92 (109)
.+. + |..+|+.+
T Consensus 95 ~~~~~~~~g~~~~~~~ 110 (158)
T 3k3c_A 95 QTDYDGSGVEERYFDF 110 (158)
T ss_dssp EEESSSSCEEEEEEEE
T ss_pred EeccCCCCcceEEEEE
Confidence 222 2 55567743
No 51
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological rhythms, cytoplasm, nucleus, phosphoprotein, transcription; 2.40A {Mus musculus}
Probab=99.04 E-value=2.6e-09 Score=66.15 Aligned_cols=78 Identities=15% Similarity=0.222 Sum_probs=60.1
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCe-eE-EEEEEEecCCCEE
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVE-KH-FEILYYKKDGKYS 88 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~-~e~~~~~~~g~~~ 88 (109)
+...+ .+|.++|+|+++..++||.++|++|++ ...+.++++.....+...+.+..++. .. .+++.++++|...
T Consensus 168 itrh~---~dG~~~yvd~~~~~lLGY~peELig~s--~~~~iHpdD~~~~~~~~~~~l~~~g~~~~~~~yR~~~kdG~~v 242 (309)
T 3gdi_A 168 TTTHT---PNCLFQAVDERAVPLLGYLPQDLIETP--VLVQLHPSDRPLMLAIHKKILQAGGQPFDYSPIRFRTRNGEYI 242 (309)
T ss_dssp EEEEC---TTCBEEEECTTHHHHHSCCHHHHTTSB--HHHHBCTTSHHHHHHHHHHHHHTTTCCEEEEEEEEECTTSCEE
T ss_pred EEEec---CCCeEEEECcccccccCcCHHHHcCCC--HHHhCCHHHHHHHHHHHHHHHhcCCceeeceEEEEEccCCCEE
Confidence 44445 689999999999999999999999998 45555666656665666666665443 44 5889999999999
Q ss_pred EEeee
Q psy6003 89 SVGGS 93 (109)
Q Consensus 89 ~~~~~ 93 (109)
|++..
T Consensus 243 wvet~ 247 (309)
T 3gdi_A 243 TLDTS 247 (309)
T ss_dssp EEEEE
T ss_pred EEEEE
Confidence 98644
No 52
>3a0s_A Sensor protein; PAS-fold, kinase, phosphoprotein, transferase, two-component regulatory system; HET: PG4 PGE; 1.47A {Thermotoga maritima} PDB: 3a0v_A*
Probab=99.03 E-value=4e-09 Score=52.82 Aligned_cols=60 Identities=12% Similarity=0.043 Sum_probs=43.9
Q ss_pred CCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCee
Q psy6003 7 TNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEK 74 (109)
Q Consensus 7 ~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 74 (109)
++++++++| .+|+++++|+++++++|++.++++|++ ...+ + . .......+.+....+...
T Consensus 1 ~~~~i~~~d---~~g~i~~~N~~~~~l~g~~~~~~~g~~--~~~~-~-~-~~~~~~~~~~~~~~~~~~ 60 (96)
T 3a0s_A 1 METAIITLS---KDGRITEWNKKAEQLFGLKKENVLGRR--LKDL-P-D-FEEIGSVAESVFENKEPV 60 (96)
T ss_dssp CCCEEEEEE---TTSBEEEECHHHHHHHCCCHHHHTTSB--GGGS-T-T-CHHHHHHHHHHHHHTCCE
T ss_pred CCceEEEEc---CCCCEeehhHHHHHHhCCCHHHhcCCC--HHHC-c-c-hHHHHHHHHHHhccCCeE
Confidence 468899999 789999999999999999999999998 4444 2 2 233334445555555544
No 53
>3kx0_X Uncharacterized protein RV1364C/MT1410; PAS domain, sensory domain, mycobacteium tuberculos molecule binding domain; 2.30A {Mycobacterium tuberculosis}
Probab=99.02 E-value=8.6e-10 Score=63.12 Aligned_cols=85 Identities=6% Similarity=-0.001 Sum_probs=57.1
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEEE-
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILYY- 81 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~- 81 (109)
++++++++++++|. .+++++++|+++++++|++ +++|++ ...+.++.........+..++..+.....+....
T Consensus 42 l~~~~~~~i~~~d~--~~g~i~~~N~a~~~l~G~~--~~~G~~--~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~ 115 (185)
T 3kx0_X 42 IFEHIPAILVGLEG--PDHRFVAVNAAYRGFSPLL--DTVGQP--AREVYPELEGQQIYEMLDRVYQTGEPQSGSEWRLQ 115 (185)
T ss_dssp HHHHCSSEEEEEET--TTTEEEEECHHHHHHCCCC--SCTTSB--HHHHCTTSCSSSSHHHHHHHHHHCCCEEEEEEEEC
T ss_pred HHhcCCceEEEEEC--CCcEEEEEcHHHHHHcCCc--cccCCc--HHHHCCchhhhhHHHHHHHHHHcCCcccccceeEE
Confidence 67899999999982 3789999999999999999 889998 4545554444334445666666776655442222
Q ss_pred --ec-C-CCEEEEeee
Q psy6003 82 --KK-D-GKYSSVGGS 93 (109)
Q Consensus 82 --~~-~-g~~~~~~~~ 93 (109)
++ + |..+|+.+.
T Consensus 116 ~~~~~~gg~~~~~~~~ 131 (185)
T 3kx0_X 116 TDYDGSGVEERYFDFV 131 (185)
T ss_dssp --------CCEEEEEE
T ss_pred eeccCCCCccEEEEEE
Confidence 21 2 566777443
No 54
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock protein, protein binding; 2.75A {Mus musculus}
Probab=99.00 E-value=2e-09 Score=66.92 Aligned_cols=78 Identities=14% Similarity=0.213 Sum_probs=58.6
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcC-Cee-EEEEEEEecCCCEE
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAG-VEK-HFEILYYKKDGKYS 88 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~-~~e~~~~~~~g~~~ 88 (109)
+...+ .+|+++|+|+++..++||.++|++|++ ...+.++++.....+...+.+..+ ... ..+++.+++||...
T Consensus 179 itrh~---~dG~~~yvd~~~~~lLGY~peELig~s--~~~~vHPdD~~~~~~~~~~~l~~~g~~~~~~~yR~~~kdG~~v 253 (320)
T 4dj2_A 179 TTRHT---PSCLFQDVDERAAPLLGYLPQDLLGAP--VLLFLHPEDRPLMLAIHKKILQLAGQPFDHSPIRFCARNGEYV 253 (320)
T ss_dssp EEEEC---TTCBEEEECTTHHHHHSCCHHHHTTSB--GGGGBCGGGHHHHHHHHHHHTTSSSCCEECCCEEEECSSSCEE
T ss_pred EEEec---CCceEEEcCcceeccCCcChHHHcCCc--HHHhCCHHHHHHHHHHHHHHHhcCCCcccceEEEEEccCCCEE
Confidence 44445 689999999999999999999999998 455555666555555555555543 334 35789999999999
Q ss_pred EEeee
Q psy6003 89 SVGGS 93 (109)
Q Consensus 89 ~~~~~ 93 (109)
|++..
T Consensus 254 wvet~ 258 (320)
T 4dj2_A 254 TMDTS 258 (320)
T ss_dssp EEECE
T ss_pred EEEEE
Confidence 98643
No 55
>2qkp_A Uncharacterized protein; structural genomics, unknown function, PSI-2, protein struct initiative; 1.75A {Streptococcus mutans}
Probab=98.82 E-value=8.8e-09 Score=57.63 Aligned_cols=73 Identities=14% Similarity=0.118 Sum_probs=52.8
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHH---HHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDG---FCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEI 78 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~---~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~ 78 (109)
.++++++++++++| .+|+++|+|++ +++++| ..++++|++ ...+.+ .........+...+++++....+.
T Consensus 23 ~IL~~~~~gI~~vD---~~g~I~~~N~a~~~~~~i~g-~~~~~iGr~--v~~~~~-~~~~~~v~~i~~~l~~g~~~~~~~ 95 (151)
T 2qkp_A 23 LILNHLPLEITFVN---KDDIFQYYNDSVPAAEMVFK-RTPSQVGRN--VELCHP-PKVLDKVKKVFELLRNGQRDKVNM 95 (151)
T ss_dssp HHHHHSSSEEEEEE---TTSBEEEECCCSCGGGCSSC-CCGGGTTSB--GGGSSC-HHHHHHHHHHHHHHHTTSBSEEEE
T ss_pred HHHHhCCCceEEEc---CCCeEEEEeCCCchhhhhcC-CCHHHcCCC--HHHhCC-HHHHHHHHHHHHHHHcCCccEEEE
Confidence 36889999999999 89999999999 999999 557899998 444443 212223345566677676665555
Q ss_pred EEE
Q psy6003 79 LYY 81 (109)
Q Consensus 79 ~~~ 81 (109)
+..
T Consensus 96 ~~~ 98 (151)
T 2qkp_A 96 WFQ 98 (151)
T ss_dssp EEE
T ss_pred EEe
Confidence 543
No 56
>4hi4_A Aerotaxis transducer AER2; PAS domain, diatomic GAS sensor, signaling protein; HET: HEM GOL; 2.30A {Pseudomonas aeruginosa}
Probab=98.79 E-value=6.2e-09 Score=55.64 Aligned_cols=46 Identities=17% Similarity=0.387 Sum_probs=40.3
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhC------------CChHHHhCCcccccccc
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTG------------FSRAEVMQQDAICKFLH 52 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g------------~~~~e~~g~~~~~~~~~ 52 (109)
.++++++++++++| .+|+|+++|+++++++| +++++++|++ ...+.
T Consensus 9 ~il~~~~~gviv~D---~~g~I~~~N~a~~~llg~~~~~i~~~~~g~~~~~~~G~~--~~~~~ 66 (121)
T 4hi4_A 9 SALDNVSANVMIAD---NDLNIIYMNRTVSEMLGRAEADIRKQLPNFDAGRLMGAN--IDVFH 66 (121)
T ss_dssp HHHTTSSSEEEEEE---TTCBEEEECHHHHHHHHHTHHHHHHHCTTCCGGGCTTCB--GGGGC
T ss_pred HHHhcCCccEEEEc---CCCeEEEecHHHHHHHHHHHHHHHHhcCCCChHHhcCCC--HHHhc
Confidence 46899999999999 89999999999999995 8999999998 44444
No 57
>3vol_A Aerotaxis transducer AER2; heme, oxygen sensor protein, PAS, HAMP, cyanoMet, CN-bound, protein; HET: HEM; 2.40A {Pseudomonas aeruginosa}
Probab=98.79 E-value=1.8e-08 Score=60.01 Aligned_cols=45 Identities=16% Similarity=0.338 Sum_probs=40.2
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhh------------CCChHHHhCCcccccccc
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLT------------GFSRAEVMQQDAICKFLH 52 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~------------g~~~~e~~g~~~~~~~~~ 52 (109)
++++++++++++| .+|+|+|+|+++++++ ||++++++|++ ...+.
T Consensus 27 iLd~~~~~vii~D---~~g~I~~~N~a~~~ll~~~~~~~~~~l~G~~~~eliG~~--~~~~~ 83 (233)
T 3vol_A 27 ALDNVSANVMIAD---NDLNIIYMNRTVSEMLGRAEADIRKQLPNFDAGRLMGAN--IDVFH 83 (233)
T ss_dssp HHTTSSSEEEEEE---TTSBEEEECHHHHHHHHHTHHHHHTTCTTCCTTSCTTCB--GGGGS
T ss_pred HHhcCCCcEEEEC---CCCcEEEecHHHHHHHHHHHHHHHhhcCCCCHHHHcCCC--HHHHc
Confidence 5789999999999 7999999999999998 89999999998 45554
No 58
>2jhe_A Transcription regulator TYRR; aromatic hydrocarbons catabolism, TYRR protei nucleotide-binding, transcription regulation, activator; HET: PG4; 2.30A {Escherichia coli}
Probab=98.66 E-value=3e-07 Score=52.60 Aligned_cols=47 Identities=13% Similarity=0.124 Sum_probs=41.1
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccC
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHG 53 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~ 53 (109)
.++++++++++++| .+|+++++|+++++++|++.++++|++ ...+.+
T Consensus 84 ~il~~~~~gvi~~D---~~g~I~~~N~aa~~llg~~~~~~~g~~--~~~~~~ 130 (190)
T 2jhe_A 84 ALLEALPEPVLSVD---MKSKVDMANPASCQLFGQKLDRLRNHT--AAQLIN 130 (190)
T ss_dssp HHHHHCSSCEEEEC---TTCBEEEECHHHHHHHTSCHHHHTTSB--GGGTST
T ss_pred HHHHhCCCcEEEEc---CCCCEEEEcHHHHHHhCCCHHHhcCcc--HHHHhC
Confidence 36789999999999 799999999999999999999999998 444443
No 59
>3a0r_A Sensor protein; four helix bundle, PAS fold, kinase, phosphoprotein, transfe two-component regulatory system; 3.80A {Thermotoga maritima}
Probab=98.56 E-value=1.2e-07 Score=58.89 Aligned_cols=41 Identities=10% Similarity=0.137 Sum_probs=39.0
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCc
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQD 45 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~ 45 (109)
.++++++++++++| .+|+++++|+++++++||++++++|++
T Consensus 12 ~i~~~~~~~i~~~d---~~g~i~~~N~a~~~l~G~~~~e~~G~~ 52 (349)
T 3a0r_A 12 SILESLETAIITLS---KDGRITEWNKKAEQLFGLKKENVLGRR 52 (349)
T ss_dssp SSGGGSSSEEEEEE---SSSBCSCBCHHHHHHHSCCSTTTTTCB
T ss_pred HHHhhhcCeEEEEC---CCCCEEeeHHHHHHHhCCCHHHHcCcC
Confidence 47899999999999 789999999999999999999999998
No 60
>4f3l_A Mclock, circadian locomoter output cycles protein kaput; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=98.56 E-value=1e-07 Score=60.21 Aligned_cols=58 Identities=14% Similarity=0.119 Sum_probs=46.7
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHH
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVK 65 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~ 65 (109)
+++++++.+++++ .+|+++|+|+++.+++||++++++|++ ...+.++++.......+.
T Consensus 91 ~l~a~~~~i~v~~---~~G~i~yvs~~~~~~lGy~~~el~g~~--~~~~ihp~D~~~~~~~l~ 148 (361)
T 4f3l_A 91 MLEALDGFFLAIM---TDGSIIYVSESVTSLLEHLPSDLVDQS--IFNFIPEGEHSEVYKILS 148 (361)
T ss_dssp HHHHTTEEEEEEE---TTSBEEEECTTHHHHHCCCHHHHTTSB--GGGGSCGGGHHHHHHHHH
T ss_pred HHHhcCceEEEEc---CCccEEEEechhhhhcCCCHHHhcCCc--HHHhcCHHHHHHHHHHhc
Confidence 4578888899999 789999999999999999999999999 455556666555544444
No 61
>4f3l_B BMAL1B; BHLH, PAS, circadian rhythm proteins, transcription-activato; 2.27A {Mus musculus}
Probab=98.48 E-value=2.5e-07 Score=58.98 Aligned_cols=56 Identities=11% Similarity=0.174 Sum_probs=44.3
Q ss_pred ccccCCccEEEEecCCCC-eeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHH
Q psy6003 3 LKHHTNRSFLVANSHLGL-CHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQV 63 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~-~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~ 63 (109)
+++++++.+++++ .+ |+++|+|+++++++||++++++|++ ...+.++++.......
T Consensus 91 ll~~~~gfi~v~~---~~~G~i~yvs~~~~~~lG~~~~el~g~~--~~~~ihp~D~~~~~~~ 147 (387)
T 4f3l_B 91 ILRAADGFLFVVG---CDRGKILFVSESVFKILNYSQNDLIGQS--LFDYLHPKDIAKVKEQ 147 (387)
T ss_dssp HHHTCCSEEEEEE---TTTCBEEEECTTHHHHHSCCHHHHTTSB--GGGGBCGGGHHHHHHH
T ss_pred HHhcCCCEEEEEe---cCCeEEEEEchhhHHHcCCCHHHHCCCc--HHHhcCCCCHHHHHHH
Confidence 4678888888888 55 9999999999999999999999999 4555555555544433
No 62
>2w0n_A Sensor protein DCUS; signal transduction, two-component regulatory system, PAS, kinase, membrane, transferase, solid state cell inner membrane; NMR {Escherichia coli}
Probab=98.45 E-value=4.9e-08 Score=50.98 Aligned_cols=41 Identities=7% Similarity=0.131 Sum_probs=37.5
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCC---ChHHHhCCc
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGF---SRAEVMQQD 45 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~---~~~e~~g~~ 45 (109)
.++++++++++++| .+|+++++|+++++++|+ +.++++|++
T Consensus 19 ~il~~~~~~i~~~d---~~g~i~~~N~~~~~~~g~~~~~~~~~~g~~ 62 (118)
T 2w0n_A 19 AMLQSIKEGVVAVD---DRGEVTLINDAAQELLNYRKSQDDEKLSTL 62 (118)
T ss_dssp HHHHCCCCCCEEEB---TTTBCCCBCHHHHHHHCSCTTTTTSSCCCT
T ss_pred HHHhhccccEEEEC---CCCcEeehhHHHHHHhCCCccChhhhhccC
Confidence 36789999999999 789999999999999997 788999988
No 63
>3cax_A Uncharacterized protein PF0695; structural genomics, unknown function, PSI-2, protein struct initiative; 2.43A {Pyrococcus furiosus dsm 3638}
Probab=98.39 E-value=5.1e-07 Score=57.19 Aligned_cols=71 Identities=15% Similarity=0.163 Sum_probs=51.5
Q ss_pred cccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHcCCeeEEEEEE
Q psy6003 2 TLKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAAGVEKHFEILY 80 (109)
Q Consensus 2 ~~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~ 80 (109)
.++++++++++++| .+|+|+++|++ ++++ ++.++++|++ ...+.++. .......+...+.+++....+...
T Consensus 243 ~IL~~l~dgIivvD---~~g~I~~~N~a-e~i~-~~~~e~iGr~--v~~~~p~~-~~~~~~~l~~~l~~g~~~~~~~~~ 313 (369)
T 3cax_A 243 AIFEALPVDVTFID---KDDRVRFFSPG-ERIF-TRTPSVLGRP--VQLCHPPK-SVYVVNKILKAFKEGRKKEATFWL 313 (369)
T ss_dssp HHHHHSSSEEEEEC---TTSBEEEECCS-SCSS-CCCGGGTTCB--TTTSSCGG-GHHHHHHHHHHHHHTSCSCEEEEE
T ss_pred HHHHhCCCcEEEEC---CCCcEEEEcCH-HHcc-CChHHHcCCc--HHHHCChh-hHHHHHHHHHHHHcCCceEEEEEE
Confidence 36889999999999 89999999999 9999 8999999998 44444322 223334455666666655444433
No 64
>4dj3_A Period circadian protein homolog 3; PAS domain, circadian rhythm, protein binding; 2.50A {Mus musculus}
Probab=98.06 E-value=7.3e-06 Score=51.03 Aligned_cols=57 Identities=11% Similarity=-0.066 Sum_probs=43.4
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHH
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQV 63 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~ 63 (109)
++++++.-+++++. .+|+++|+|++..+++||++++++|++ ...+.++.+...+..+
T Consensus 31 ~L~aldgF~~vvs~--~~G~i~yvS~~~~~~Lg~~~~el~g~s--~~d~ihp~D~~~f~~q 87 (317)
T 4dj3_A 31 TSKNTDTFAAVFSF--LSGRLVHISEQAALILNSKRGFLKSVH--FVDLLAPQDVRAFYAH 87 (317)
T ss_dssp HTSCTTEEEEEEET--TTCBEEEECTTHHHHTTCCHHHHHTSB--GGGGBCGGGHHHHHHH
T ss_pred HHhccCCEEEEEEc--CCcEEEEECCHHHHHcCCCHHHHcCCc--hhhhcChhhHHHHHHh
Confidence 46777777788873 259999999999999999999999999 4445555555555443
No 65
>3gdi_A Period circadian protein homolog 2; tandem PAS domains, biological rhythms, cytoplasm, nucleus, phosphoprotein, transcription; 2.40A {Mus musculus}
Probab=98.03 E-value=2.9e-06 Score=52.64 Aligned_cols=57 Identities=7% Similarity=0.019 Sum_probs=34.6
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHH
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQV 63 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~ 63 (109)
+++++++-+++++. .+|+|+|+++++..++||++++++|++ ...+.++++...+...
T Consensus 20 ll~a~dgF~~vvs~--~~G~i~yvS~s~~~~Lg~~~~el~g~s--~~d~iHp~D~~~~~~~ 76 (309)
T 3gdi_A 20 IVKNADMFAVAVSL--VSGKILYISNQVASIFHCKKDAFSDAK--FVEFLAPHDVSVFHSY 76 (309)
T ss_dssp ---CTTEEEEEECT--TTCBEEEECTTTTTTC-------CCSB--GGGGBCTTTHHHHHHH
T ss_pred HHHhcCCEEEEEEC--CCceEEEECCHHHHHcCCCHHHHcCCc--hhhccCHhHHHHHHHh
Confidence 46777777788873 249999999999999999999999999 4445555555544443
No 66
>4dj2_A Period circadian protein homolog 1; PAS domains, circadian clock protein, protein binding; 2.75A {Mus musculus}
Probab=97.98 E-value=4.7e-06 Score=51.92 Aligned_cols=55 Identities=13% Similarity=-0.020 Sum_probs=41.3
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHH
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAV 61 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~ 61 (109)
++++++.-++++.. .+|+++|+|++..+++||++++++|++ ...+.++.+...+.
T Consensus 31 lLqaldGF~~vvs~--~~G~i~yvS~sv~~~Lg~~~~~l~g~s--~~d~iHp~D~~~f~ 85 (320)
T 4dj2_A 31 TLRNQDTFSVAVSF--LTGRIVYISEQAGVLLRCKRDVFRGAR--FSELLAPQDVGVFY 85 (320)
T ss_dssp TTSCSSEEEEEEET--TTCBEEEECTHHHHHHTSCSTTTTTSB--GGGGBCHHHHHHHH
T ss_pred HHhccCCEEEEEEC--CCceEEEECcHHHHHhCcCHHHHcCCc--HHHhcCHHHHHHHH
Confidence 46777777777773 259999999999999999999999999 34444444433333
No 67
>1oj5_A Steroid receptor coactivator 1A; transcriptional coactivator, complex, LXXLL motif, transcriptional regulation; 2.2A {Mus musculus} SCOP: d.110.3.8
Probab=97.86 E-value=4.6e-05 Score=41.42 Aligned_cols=77 Identities=14% Similarity=0.116 Sum_probs=56.6
Q ss_pred cEEEEecCCCCeeEEEecHHHHHhhCCCh--HHHhCCccccccccCCCCcH--HHHHHHHHHHHcCCeeEEEEEEEecCC
Q psy6003 10 SFLVANSHLGLCHIIYCSDGFCRLTGFSR--AEVMQQDAICKFLHGPLTSQ--HAVQVVKEALAAGVEKHFEILYYKKDG 85 (109)
Q Consensus 10 ~i~i~d~~~~~~~i~~~N~~~~~~~g~~~--~e~~g~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~e~~~~~~~g 85 (109)
-+...| .+|.++++.++..+ .++.+ +|++|+. +..+.++.+.. ...+...+.+..+.....-++++.++|
T Consensus 9 F~sRh~---~dGKf~~vDq~~~r-~~~~~g~qdLlGrs--iy~f~H~~D~~~s~l~~h~~~vl~~Gq~~S~~YRfr~k~g 82 (132)
T 1oj5_A 9 FMTKQD---TTGKIISIDTSSLR-AAGRTGWEDLVRKC--IYAFFQPQGREPSYARQLFQEVMTRGTASSPSYRFILNDG 82 (132)
T ss_dssp EEEEEC---TTCCEEEEECHHHH-TTCCSCHHHHHHHH--HHHHTSCBTTBCCHHHHHHHHHHHHSEEECCCEEEECTTS
T ss_pred eEEeec---CCCcEEEEeccccc-ccccccHHHHHHHH--HHHHhCcccchHHHHHHHHHHHHHcCCccccceEEEecCC
Confidence 344555 68999999998774 66677 9999998 44455555533 566667777777777777789999999
Q ss_pred CEEEEee
Q psy6003 86 KYSSVGG 92 (109)
Q Consensus 86 ~~~~~~~ 92 (109)
...|+..
T Consensus 83 ~~V~~qT 89 (132)
T 1oj5_A 83 TMLSAHT 89 (132)
T ss_dssp CEEEEEE
T ss_pred cEEEEEE
Confidence 9888753
No 68
>3rty_A Period circadian protein; PAS domain, signalling, timeless, circadian clock protein; 2.85A {Drosophila melanogaster} PDB: 1wa9_A 3gec_A
Probab=97.63 E-value=4.3e-05 Score=47.99 Aligned_cols=45 Identities=9% Similarity=0.044 Sum_probs=33.6
Q ss_pred EEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHH
Q psy6003 12 LVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHA 60 (109)
Q Consensus 12 ~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~ 60 (109)
++++. .+|+|+|+|+++.+++||++++++|++ ...+.++.+...+
T Consensus 7 ~vv~~--~~G~i~yvS~~~~~~LGy~~~el~G~s--~~d~ihp~D~~~f 51 (339)
T 3rty_A 7 CVISM--HDGIVLYTTPSITDVLGYPRDMWLGRS--FIDFVHLKDRATF 51 (339)
T ss_dssp EEEET--TTCBEEEECTTHHHHHCCCTTSSTTSB--GGGGBCHHHHHHH
T ss_pred EEEEC--CCcEEEEEChHHHHHcCCCHHHHCCCc--HHHhcCHHHHHHH
Confidence 44552 389999999999999999999999999 3445444443333
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=96.37 E-value=4e-05 Score=47.43 Aligned_cols=39 Identities=10% Similarity=0.056 Sum_probs=34.0
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhC---CChHHHhCCc
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTG---FSRAEVMQQD 45 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g---~~~~e~~g~~ 45 (109)
++++++++++++| .+|+|+++|+++.++++ ++ ++++|++
T Consensus 175 ~~~~~~dGIivvD---~~G~Ii~~N~aA~~ll~~lG~~-~~~iGk~ 216 (305)
T 2ykf_A 175 SSPRAGDGFIRLD---VDGVVSYASPNALSAYHRMGLT-TELEGVN 216 (305)
Confidence 4678999999999 89999999999999985 44 6788988
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=95.17 E-value=0.025 Score=35.62 Aligned_cols=38 Identities=13% Similarity=0.009 Sum_probs=30.4
Q ss_pred EEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccC
Q psy6003 12 LVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHG 53 (109)
Q Consensus 12 ~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~ 53 (109)
+.++. .+++|+.+|+...+++|+++++++|++ ...+.+
T Consensus 46 l~~~~--~~~~i~~~S~N~~~~lg~~~~~llG~~--l~~ll~ 83 (337)
T 2ool_A 46 FVVSE--TDLRIASVSANVEDLLRQPPASLLNVP--IAHYLT 83 (337)
T ss_dssp EEECT--TTCBEEEEETTHHHHHSSCGGGGTTCB--GGGGBC
T ss_pred EEEEC--CCCEEEEEehhHHHHHCcCHHHHcCCC--HHHHcC
Confidence 44552 468999999999999999999999998 454544
No 71
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}
Probab=91.69 E-value=1.6 Score=27.49 Aligned_cols=51 Identities=20% Similarity=0.213 Sum_probs=36.6
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCCCCcHHHHHHHHHHHHc
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGPLTSQHAVQVVKEALAA 70 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~ 70 (109)
++.+| .+++|+.++.....++|.++++++|++ ...+.+ ......+...+..
T Consensus 32 Ll~~~---~~~~I~~~S~N~~~~lg~~~~~~lG~~--l~~ll~----~~~~~~l~~~l~~ 82 (327)
T 4e04_A 32 LLALA---ADMTIVAGSDNLPELTGLAIGALIGRS--AADVFD----SETHNRLTIALAE 82 (327)
T ss_dssp EEEEC---TTCBEEEEETTHHHHHSCCHHHHTTCB--HHHHBC----HHHHHHHHHHHHS
T ss_pred EEEEc---CCCeEEEEcccHHHHhCCChHhhcCCC--HHHHcC----HHHHHHHHHHhhc
Confidence 35555 578999999999999999999999998 454443 2333444555443
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=89.13 E-value=0.65 Score=29.42 Aligned_cols=40 Identities=15% Similarity=0.053 Sum_probs=31.9
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCccccccccCC
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQDAICKFLHGP 54 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~~~~~~~~~~ 54 (109)
++.++. .+++|+.++.....++|.++++++|++ ...+.++
T Consensus 55 LL~l~~--~~~~I~~~S~N~~~~lg~~~~~llG~~--l~~ll~~ 94 (343)
T 3s7o_A 55 LLTADG--HSGEVLQMSLNAATFLGQEPTVLRGQT--LAALLPE 94 (343)
T ss_dssp EEEEET--TTCBEEEEETTHHHHHSSCHHHHTTCB--HHHHSTT
T ss_pred EEEEEC--CCCEEEEEcccHHHHhCcChHHHcCCC--HHHHHhH
Confidence 355553 478999999999999999999999998 4555544
No 73
>4ew7_A Conjugative transfer: regulation; alpha-beta-alpha structure, structural genomics, midwest CEN structural genomics (MCSG), PSI-biology; 1.67A {Salmonella enterica subsp}
Probab=86.21 E-value=2.4 Score=22.10 Aligned_cols=30 Identities=23% Similarity=0.248 Sum_probs=24.9
Q ss_pred cccCCccEEEEecCCCCeeEEEecHHHHHhhCC
Q psy6003 4 KHHTNRSFLVANSHLGLCHIIYCSDGFCRLTGF 36 (109)
Q Consensus 4 ~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g~ 36 (109)
..++|..+++-+ ....++|.|.+|.+++.-
T Consensus 26 Y~nSPVpVCVRN---q~RkilYaN~aF~elF~K 55 (127)
T 4ew7_A 26 YKNSPVPVCVRN---QSRKIIYANGAFIELFSK 55 (127)
T ss_dssp HTTCSSCEEEEC---TTSCEEEECHHHHHHTTS
T ss_pred hcCCCccEEEec---ccceEEEecchHHHHhhc
Confidence 467888899888 677899999999999643
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=82.06 E-value=1.3 Score=29.65 Aligned_cols=33 Identities=15% Similarity=0.113 Sum_probs=28.4
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCc
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQD 45 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~ 45 (109)
++.++. .+++|+.++.....++|.++++++|++
T Consensus 32 LLal~~--~~~~I~~~S~N~~~~lg~~~~~llG~~ 64 (520)
T 3zq5_A 32 VVVLQE--PDLTISQISANCTGILGRSPEDLLGRT 64 (520)
T ss_dssp EEEEET--TTTEEEEEETTHHHHHSCCHHHHTTSB
T ss_pred EEEEEC--CCCEEEEEcccHHHHhCcChHHHcCCC
Confidence 455553 478999999999999999999999998
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=67.07 E-value=13 Score=24.93 Aligned_cols=30 Identities=13% Similarity=0.128 Sum_probs=25.3
Q ss_pred EEEEecCCCCeeEEEecHHHHHhhCCChHHHhCCc
Q psy6003 11 FLVANSHLGLCHIIYCSDGFCRLTGFSRAEVMQQD 45 (109)
Q Consensus 11 i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~g~~ 45 (109)
++.++ .+++|+.++.+...++|.++ ++|++
T Consensus 29 Ll~l~---~~~~I~~~S~N~~~~lg~~~--~lG~~ 58 (505)
T 3nhq_A 29 LVTLR---ADGMVLAASENIQALLGFVA--SPGSY 58 (505)
T ss_dssp EEEEC---TTSBEEEEETTHHHHHSSCC--CTTCB
T ss_pred EEEEc---CCCeEEEEcccHHHHhCccc--ccCCc
Confidence 35555 47899999999999999988 89998
No 76
>3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482}
Probab=56.16 E-value=8.2 Score=23.02 Aligned_cols=32 Identities=6% Similarity=0.115 Sum_probs=26.6
Q ss_pred CccEEEEecCCCCeeEEEecHHHHHhhCCChHHH
Q psy6003 8 NRSFLVANSHLGLCHIIYCSDGFCRLTGFSRAEV 41 (109)
Q Consensus 8 ~~~i~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~ 41 (109)
...+++.|. ..++..+++..+..++|++++++
T Consensus 43 ~~~~~l~D~--~~~~~~~~s~~~~~llG~~~~~~ 74 (258)
T 3clo_A 43 GGCAVISDL--SNRKSYVTVHPWANFLGLTPEEA 74 (258)
T ss_dssp SSEEEEEET--TTTEEEEEECTTCGGGCCCHHHH
T ss_pred CCeEEEEEc--CCCeEEEEeCCHHHHhCCCcccc
Confidence 345677776 57889999999999999999987
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=38.41 E-value=54 Score=18.53 Aligned_cols=24 Identities=8% Similarity=-0.007 Sum_probs=19.4
Q ss_pred eeEEEecHHHHHhhCCChHHHhCC
Q psy6003 21 CHIIYCSDGFCRLTGFSRAEVMQQ 44 (109)
Q Consensus 21 ~~i~~~N~~~~~~~g~~~~e~~g~ 44 (109)
-.+...+..+.+++|.+.+++...
T Consensus 92 ~~~t~F~~~ae~ilG~sA~el~~l 115 (181)
T 1l1o_C 92 QWVTCFQESAEAILGQNAAYLGEL 115 (181)
T ss_dssp EEEEEEHHHHHHHHSSCHHHHHHH
T ss_pred EEEEEEhHHHHHHhCCCHHHHHHH
Confidence 346778999999999999997543
No 78
>3pxp_A Helix-turn-helix domain protein; DNA-binding, basic helix-loop-helix motif, BHLH motif, lambd repressor-like DNA-binding fold; HET: MSE MYR; 2.30A {Chloroflexus aurantiacus}
Probab=35.41 E-value=41 Score=20.78 Aligned_cols=30 Identities=17% Similarity=0.130 Sum_probs=24.4
Q ss_pred ccccCCccEEEEecCCCCeeEEEecHHHHHhhC
Q psy6003 3 LKHHTNRSFLVANSHLGLCHIIYCSDGFCRLTG 35 (109)
Q Consensus 3 ~~~~~~~~i~i~d~~~~~~~i~~~N~~~~~~~g 35 (109)
+++..+..-+++| ....++.+|+++..+++
T Consensus 104 lLd~l~~PA~V~d---~~~dvla~N~~a~~L~~ 133 (292)
T 3pxp_A 104 MIRNMNVPAFVTD---QYVNIIAANMITIRFFN 133 (292)
T ss_dssp HHHTCSSCEEEEE---TTCBEEEEEHHHHHHHT
T ss_pred HHHhcCCCeEEEC---CCCCHhhcCHHHHHHhC
Confidence 3445566778899 78999999999999985
No 79
>3gz2_P Invasin IPAB, 62 kDa antigen; tetratricopeptide repeat, TPR, chaperone, chaperone binding virulence, secreted, transmembrane; 2.65A {Shigella flexneri}
Probab=29.74 E-value=15 Score=16.92 Aligned_cols=31 Identities=19% Similarity=0.294 Sum_probs=21.8
Q ss_pred EEEecCCCCeeEEEecHHHHHhhCCChHHHh
Q psy6003 12 LVANSHLGLCHIIYCSDGFCRLTGFSRAEVM 42 (109)
Q Consensus 12 ~i~d~~~~~~~i~~~N~~~~~~~g~~~~e~~ 42 (109)
++...+..+..|..+|.+..+++..+-.++-
T Consensus 22 iltstelgdntiqaandaanklfsltiadlt 52 (78)
T 3gz2_P 22 ILTSTELGDNTIQAANDAANKLFSLTIADLT 52 (78)
T ss_pred EEeeeccCccHHHHHHHHhhhhheeehhhhc
Confidence 3344444567788899999988888777653
No 80
>8tfv_A Protein (thanatin); bactericidal, fungicidal, antimicrobial; NMR {Synthetic} SCOP: j.3.1.2
Probab=27.57 E-value=18 Score=12.39 Aligned_cols=8 Identities=50% Similarity=1.074 Sum_probs=5.3
Q ss_pred eEEEecHH
Q psy6003 22 HIIYCSDG 29 (109)
Q Consensus 22 ~i~~~N~~ 29 (109)
-|+|||..
T Consensus 7 piiycnrr 14 (21)
T 8tfv_A 7 PIIYCNRR 14 (26)
T ss_dssp CCEEEEGG
T ss_pred cEEEEcCc
Confidence 36788764
No 81
>1und_A Advillin, P92; actin binding, F-actin binding, cytoskeleton, headpiece subdomain; NMR {Homo sapiens} SCOP: a.14.1.1
Probab=25.41 E-value=46 Score=13.63 Aligned_cols=19 Identities=16% Similarity=0.361 Sum_probs=14.5
Q ss_pred cHHHHHhhCCChHHHhCCc
Q psy6003 27 SDGFCRLTGFSRAEVMQQD 45 (109)
Q Consensus 27 N~~~~~~~g~~~~e~~g~~ 45 (109)
...|..++|.++++....+
T Consensus 5 d~dF~~vFgmsr~eF~~LP 23 (37)
T 1und_A 5 EQDFVSVFGITRGQFAALP 23 (37)
T ss_dssp HHHHHHHHSSCHHHHHHSC
T ss_pred HHHHHHHHCcCHHHHHHCh
Confidence 3568999999999875544
No 82
>1wy3_A Villin; structural protein; HET: NLE; 0.95A {Synthetic} PDB: 1wy4_A 1yri_A* 1yrf_A* 2f4k_A* 1vii_A 3trv_A* 3trw_A 3tjw_B* 3trv_B* 3try_A* 2ppz_A 2jm0_A* 3tjw_A* 3iur_B*
Probab=25.10 E-value=45 Score=13.47 Aligned_cols=19 Identities=16% Similarity=0.349 Sum_probs=14.3
Q ss_pred cHHHHHhhCCChHHHhCCc
Q psy6003 27 SDGFCRLTGFSRAEVMQQD 45 (109)
Q Consensus 27 N~~~~~~~g~~~~e~~g~~ 45 (109)
...|..++|.++++....+
T Consensus 3 d~dF~~vFgmsr~eF~~LP 21 (35)
T 1wy3_A 3 DEDFKAVFGMTRSAFANLP 21 (35)
T ss_dssp HHHHHHHHSSCHHHHHHSC
T ss_pred HHHHHHHHCCCHHHHHHCc
Confidence 3568899999998875544
Done!