Query psy680
Match_columns 122
No_of_seqs 102 out of 1022
Neff 8.0
Searched_HMMs 29240
Date Fri Aug 16 18:41:29 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy680.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/680hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3dba_A CONE CGMP-specific 3',5 99.7 4.4E-18 1.5E-22 118.1 4.6 104 1-105 10-117 (180)
2 3mmh_A FRMSR, methionine-R-sul 99.6 2.3E-15 7.7E-20 104.6 7.7 88 2-101 21-108 (167)
3 2zmf_A CAMP and CAMP-inhibited 99.5 2.7E-14 9.3E-19 97.1 6.5 102 1-105 16-120 (189)
4 3ksh_A Putative uncharacterize 99.4 2.5E-13 8.6E-18 93.8 6.5 83 5-101 24-107 (160)
5 3rfb_A Putative uncharacterize 99.4 3.6E-13 1.2E-17 93.9 6.7 85 3-101 23-108 (171)
6 2e4s_A CAMP and CAMP-inhibited 99.4 3.4E-13 1.2E-17 91.9 6.3 100 2-104 17-119 (189)
7 1vhm_A Protein YEBR; structura 99.4 7.5E-13 2.6E-17 94.0 7.2 86 2-101 33-119 (195)
8 1f5m_A GAF; CGMP binding, sign 99.3 2E-12 6.9E-17 90.4 6.7 88 3-101 32-124 (180)
9 3trc_A Phosphoenolpyruvate-pro 99.3 1.1E-11 3.6E-16 82.9 7.7 93 2-102 12-104 (171)
10 3oov_A Methyl-accepting chemot 99.2 1.8E-11 6.3E-16 81.5 6.3 92 1-100 5-98 (169)
11 3bjc_A CGMP-specific 3',5'-cyc 99.2 1.3E-12 4.4E-17 109.7 0.0 105 1-105 156-260 (878)
12 3ibj_A CGMP-dependent 3',5'-cy 99.2 4.8E-12 1.7E-16 103.5 2.8 87 1-99 18-104 (691)
13 3e0y_A Conserved domain protei 99.2 3.7E-11 1.3E-15 80.7 6.6 90 2-101 19-108 (181)
14 3ci6_A Phosphoenolpyruvate-pro 99.1 1.8E-10 6E-15 76.1 7.6 94 2-103 14-107 (171)
15 3k2n_A Sigma-54-dependent tran 99.1 2.7E-10 9.2E-15 76.7 8.2 94 2-102 10-104 (177)
16 2vjw_A GAF-B, GAF family prote 99.1 1.3E-10 4.3E-15 78.5 6.1 79 12-97 1-82 (149)
17 1ykd_A Adenylate cyclase; GAF 99.1 8.3E-11 2.8E-15 89.4 5.4 94 2-105 13-113 (398)
18 1ykd_A Adenylate cyclase; GAF 99.1 1.7E-10 5.8E-15 87.7 7.0 91 2-102 203-295 (398)
19 1mc0_A 3',5'-cyclic nucleotide 99.1 3.4E-11 1.1E-15 90.3 2.8 86 2-98 18-103 (368)
20 3ibj_A CGMP-dependent 3',5'-cy 99.0 4.9E-10 1.7E-14 91.7 6.7 94 2-104 185-279 (691)
21 1mc0_A 3',5'-cyclic nucleotide 99.0 1.2E-09 4.1E-14 81.8 7.4 95 2-105 185-280 (368)
22 3p01_A Two-component response 98.9 5.9E-10 2E-14 76.4 4.0 88 2-101 34-121 (184)
23 2lb5_A Sensor histidine kinase 98.9 3.4E-09 1.2E-13 73.9 6.6 100 2-103 20-140 (208)
24 3hcy_A Putative two-component 98.9 3.1E-09 1E-13 70.0 5.1 80 11-102 2-81 (151)
25 2qyb_A Membrane protein, putat 98.8 3.5E-09 1.2E-13 71.7 5.4 90 1-98 6-95 (181)
26 2w3g_A DOSS, two component sen 98.8 1.2E-09 4E-14 71.4 1.3 85 9-102 3-88 (153)
27 3bjc_A CGMP-specific 3',5'-cyc 98.8 9.2E-10 3.2E-14 92.4 0.0 101 2-105 338-442 (878)
28 2k2n_A Sensor protein, SYB-CPH 98.6 8.4E-08 2.9E-12 65.0 7.3 90 13-104 1-111 (172)
29 3o5y_A Sensor protein; GAF dom 98.4 5.3E-07 1.8E-11 61.7 7.0 85 9-102 2-86 (165)
30 4glq_A Methyl-accepting chemot 98.4 4.7E-07 1.6E-11 62.2 4.9 88 3-98 2-91 (171)
31 3cit_A Sensor histidine kinase 98.1 1.8E-06 6E-11 59.4 2.7 40 1-41 18-57 (160)
32 4e04_A Bacteriophytochrome (li 97.6 0.00022 7.5E-09 54.1 7.3 87 2-96 138-226 (327)
33 3s7o_A Bacteriophytochrome; bi 97.5 0.00025 8.4E-09 54.1 7.3 88 2-97 156-245 (343)
34 2ool_A Sensor protein; bacteri 97.5 0.00032 1.1E-08 53.3 7.3 87 3-97 152-240 (337)
35 3zq5_A Phytochrome-like protei 97.4 0.00049 1.7E-08 55.1 7.7 87 2-96 142-230 (520)
36 3nhq_A Bacteriophytochrome; ph 97.4 0.00051 1.8E-08 54.8 7.4 88 2-97 129-218 (505)
37 4eho_A Bacteriophytochrome, PA 96.8 0.004 1.4E-07 50.6 7.8 47 3-51 137-183 (635)
38 2o8m_C Protease; NS3, NS4A, vi 93.2 0.061 2.1E-06 25.4 2.1 18 76-93 6-23 (26)
39 3eea_A GAF domain/HD domain pr 79.9 3.6 0.00012 27.5 4.8 36 7-42 8-43 (162)
40 4eu0_A PELD; C-DI-GMP, signali 79.6 1.1 3.7E-05 33.3 2.6 68 13-93 24-91 (298)
41 3e98_A GAF domain of unknown f 67.9 11 0.00038 27.0 5.4 39 3-41 108-146 (252)
42 3nhq_A Bacteriophytochrome; ph 51.9 8.1 0.00028 30.7 2.4 38 3-40 325-362 (505)
43 2o0y_A Transcriptional regulat 47.9 35 0.0012 24.0 5.1 79 2-87 84-162 (260)
44 3r4k_A Transcriptional regulat 46.3 51 0.0018 23.2 5.8 80 2-87 68-147 (260)
45 2ia2_A Putative transcriptiona 45.8 41 0.0014 23.7 5.2 79 2-87 81-159 (265)
46 3szt_A QCSR, quorum-sensing co 42.5 57 0.002 22.5 5.5 39 2-41 7-45 (237)
47 1mkm_A ICLR transcriptional re 41.5 51 0.0017 22.9 5.1 78 3-87 70-147 (249)
48 1tf1_A Negative regulator of a 36.9 29 0.00099 23.3 3.1 74 7-87 19-92 (198)
49 3mq0_A Transcriptional repress 36.5 48 0.0016 23.6 4.4 79 2-87 91-169 (275)
50 3obf_A Putative transcriptiona 32.6 71 0.0024 20.7 4.5 70 11-87 3-72 (176)
51 3zq5_A Phytochrome-like protei 32.3 45 0.0015 26.5 3.9 36 4-39 339-374 (520)
52 3bjn_A Transcriptional regulat 28.1 1.2E+02 0.0039 19.4 4.9 73 8-87 6-78 (165)
53 3qp6_A CVIR transcriptional re 27.8 55 0.0019 23.1 3.4 39 2-41 26-64 (265)
54 3ix3_A Transcriptional activat 27.3 81 0.0028 20.3 4.0 39 2-41 5-43 (173)
55 1ysq_A HTH-type transcriptiona 26.0 1.1E+02 0.0037 20.1 4.5 73 9-87 6-78 (193)
56 2xrn_A HTH-type transcriptiona 24.8 1.2E+02 0.004 20.9 4.7 72 9-87 73-144 (241)
57 2g7u_A Transcriptional regulat 21.5 42 0.0015 23.5 1.8 71 10-87 82-152 (257)
58 3d3o_A Putative transcriptiona 21.0 80 0.0027 20.5 3.0 71 10-87 3-73 (178)
No 1
>3dba_A CONE CGMP-specific 3',5'-cyclic phosphodiesterase alpha'; 3', GAF domain, cyclic nucleotide phosphodiesterase hydrolase, lipoprotein, membrane; HET: 35G; 2.57A {Gallus gallus}
Probab=99.71 E-value=4.4e-18 Score=118.09 Aligned_cols=104 Identities=22% Similarity=0.375 Sum_probs=83.7
Q ss_pred ChhHHHHHhcc-CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCccc---CCCceeeeeCCCc
Q psy680 1 MAIVRDIARDL-DLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVY---STADEVEVPWGVG 76 (122)
Q Consensus 1 ~ei~~~l~~~l-dl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~---~~~~~i~~~~g~G 76 (122)
+++++.|++++ |++++|..++..++++++|++|+||++|++. +..++++..|+...|..+++ .....+++|+++|
T Consensus 10 ~eis~~l~~~~~dl~~ll~~il~~~~~~~~a~~~~i~L~d~~~-~~~~l~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~g 88 (180)
T 3dba_A 10 FELLTEIQDEAGSMEKIVHKTLQRLSQLLAADRCSMFICRSRN-GIPEVATRLLNVTPTSKFEDNLVNPDKETVFPLDIG 88 (180)
T ss_dssp HHHHTTSCSSSSHHHHHHHHHHHHHHHHHTEEEEEEEEEEEET-TEEEEEEEEEEECTTCCHHHHBCCGGGCCEECTTSS
T ss_pred HHHHHHHHHhhhcHHHHHHHHHHHHHHHhCcceEEEEEEeCCC-CcceeeeeeeccccCccchhhccccccceeeeCCCC
Confidence 36788888999 9999999999999999999999999999864 22367766665433322210 1234678999999
Q ss_pred eeeeeeccCCeEeccCCCCCCCCChHHHH
Q psy680 77 ILGHVAVTGETVNLQKKKEKKKKKKKKKK 105 (122)
Q Consensus 77 I~G~Va~tg~pi~i~Dv~~d~rF~~~~~~ 105 (122)
|+|+|+++|+|++|+|+..||+|....+.
T Consensus 89 i~g~v~~tg~~v~i~d~~~d~~f~~~~~~ 117 (180)
T 3dba_A 89 IAGWVAHTKKFFNIPDVKKNNHFSDYLDK 117 (180)
T ss_dssp HHHHHHHHTCCEEESCGGGCTTCCCHHHH
T ss_pred HHHHHHHhCCEEEecCCCCCcccChhhcc
Confidence 99999999999999999999999987664
No 2
>3mmh_A FRMSR, methionine-R-sulfoxide reductase; oxidoreductase; HET: SME MRD; 1.25A {Neisseria meningitidis} SCOP: d.110.2.0
Probab=99.60 E-value=2.3e-15 Score=104.62 Aligned_cols=88 Identities=18% Similarity=0.198 Sum_probs=74.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++.+.++.+.|+...|..++..+.+.+++++|++|++|++. .+|....|.+. ....++|+|+|++|+|
T Consensus 21 ~i~~ll~~~~dl~~~L~~v~~~l~~~l~~~~~~iyL~d~~~---~~L~l~a~~G~---------~~~~~i~~geGi~G~v 88 (167)
T 3mmh_A 21 QIESVVADETDWVANLANTAAVLKEAFGWFWVGFYLVDTRS---DELVLAPFQGP---------LACTRIPFGRGVCGQA 88 (167)
T ss_dssp HHHHHHHTCCCHHHHHHHHHHHHHHHHCCSEEEEEEEETTT---TEEEEEEEESS---------CCCSEEETTSHHHHHH
T ss_pred HHHHHHccCCCHHHHHHHHHHHHHHHcCCcEEEEEEEECCC---CEEEEEEeccc---------ccceEeccCCChHHHH
Confidence 45666777889999999999999999999999999999864 35666554432 1346899999999999
Q ss_pred eccCCeEeccCCCCCCCCCh
Q psy680 82 AVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~ 101 (122)
+++|+|++|+|++.||+|..
T Consensus 89 ~~~g~~~~v~Dv~~~p~~~~ 108 (167)
T 3mmh_A 89 WAKGGTVVVGDVDAHPDHIA 108 (167)
T ss_dssp HHHTSCEEESCGGGSTTCCC
T ss_pred HhCCcEEEECCcccCcchhh
Confidence 99999999999999999964
No 3
>2zmf_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phospho 10A; GAF domain, phosphodiesterase, CGMP-binding, HYD nucleotide-binding, structural genomics; HET: MSE CMP; 2.10A {Homo sapiens}
Probab=99.51 E-value=2.7e-14 Score=97.07 Aligned_cols=102 Identities=23% Similarity=0.342 Sum_probs=77.5
Q ss_pred ChhHHHH-HhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcc--cCCCceeeeeCCCce
Q psy680 1 MAIVRDI-ARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLV--YSTADEVEVPWGVGI 77 (122)
Q Consensus 1 ~ei~~~l-~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~--~~~~~~i~~~~g~GI 77 (122)
+++++.+ ++.+|++++|..++..+.++++|++|+||++|++. ..++...+......... ......+++|.+.|+
T Consensus 16 l~~~~~i~~~~~dld~ll~~i~~~~~~~l~ad~~~i~l~d~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 92 (189)
T 2zmf_A 16 LDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKN---KELYSDLFDIGEEKEGKPVFKKTKEIRFSIEKGI 92 (189)
T ss_dssp HHHHHHHHHCSSCHHHHHHHHHHHHHHHHTEEEEEEEEEETTT---TEEEEEEECCSCEETTEECCEECCCCEEETTSHH
T ss_pred HHHHHHHHHccCCHHHHHHHHHHHHHHHhCCCEEEEEEEecCC---cEEEEEEEecccccccccccccccccccCCCccH
Confidence 3677775 45589999999999999999999999999999865 34554443322111100 113455688999999
Q ss_pred eeeeeccCCeEeccCCCCCCCCChHHHH
Q psy680 78 LGHVAVTGETVNLQKKKEKKKKKKKKKK 105 (122)
Q Consensus 78 ~G~Va~tg~pi~i~Dv~~d~rF~~~~~~ 105 (122)
+|+|+++|+|++++|+..||+|......
T Consensus 93 ~~~v~~~~~~~~i~d~~~~~~~~~~~~~ 120 (189)
T 2zmf_A 93 AGQVARTGEVLNIPDAYADPRFNREVDL 120 (189)
T ss_dssp HHHHHHHCCCEEESCGGGSTTCCTHHHH
T ss_pred HHHHHHhCCeEEEecccccccccccchh
Confidence 9999999999999999999999876543
No 4
>3ksh_A Putative uncharacterized protein; FRMSR, free-Met-R-SO, oxidoreductase; 1.50A {Staphylococcus aureus} SCOP: d.110.2.0 PDB: 3ksf_A 3ksi_A 3ksg_A*
Probab=99.42 E-value=2.5e-13 Score=93.80 Aligned_cols=83 Identities=17% Similarity=0.217 Sum_probs=69.6
Q ss_pred HHHHhccCHHHHHHHHHHHHHHHhc-CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeec
Q psy680 5 RDIARDLDLKSLSKKTVDNVSVLLD-ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAV 83 (122)
Q Consensus 5 ~~l~~~ldl~~ll~~il~~~~~~l~-~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~ 83 (122)
..+..+.|+...|..++..+.+.++ +++|++|+++++ +|...+|.+.. ...++|+|+||+|+|++
T Consensus 24 ~ll~~~~dl~~~L~~v~~ll~~~l~~~~~~gfYL~~~~-----~L~l~~~~G~~---------a~~ri~~GeGv~G~aa~ 89 (160)
T 3ksh_A 24 SLIEDEHHMIAILSNMSALLNDNLDQINWVGFYLLEQN-----ELILGPFQGHP---------ACVHIPIGKGVCGTAVS 89 (160)
T ss_dssp HTTTTCCCHHHHHHHHHHHHHHHCSSCSEEEEEEEETT-----EEEEEEEEESC---------CCSEEETTSHHHHHHHH
T ss_pred HHHcCCCCHHHHHHHHHHHHHHHcccCCEEEEEEEECC-----EEEEEeccCCc---------ccEEeeCCCCHHHHHHh
Confidence 3344567999999999999999997 999999999852 46666655421 25799999999999999
Q ss_pred cCCeEeccCCCCCCCCCh
Q psy680 84 TGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 84 tg~pi~i~Dv~~d~rF~~ 101 (122)
+|+|++|+|+..+|+|..
T Consensus 90 ~~~~i~V~Dv~~~p~~i~ 107 (160)
T 3ksh_A 90 ERRTQVVADVHQFKGHIA 107 (160)
T ss_dssp HTSCEEESCGGGSTTCCG
T ss_pred hCCEEEECCcccCccccc
Confidence 999999999999999965
No 5
>3rfb_A Putative uncharacterized protein; FRMSR, GAF, oxidoreductase, SME; HET: SME; 2.30A {Streptococcus pneumoniae}
Probab=99.41 E-value=3.6e-13 Score=93.94 Aligned_cols=85 Identities=13% Similarity=0.099 Sum_probs=70.4
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhc-CCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLD-ADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~-~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+...+..+.|+...|..++..+.+.++ +++|++|+++++ +|...+|.+. ...+++|+|+||+|+|
T Consensus 23 l~~ll~~~~dl~~~L~nv~~lL~~~l~~~~~~gfYL~~~~-----~L~l~a~~G~---------~a~~ri~~GeGv~G~v 88 (171)
T 3rfb_A 23 LSFLLEGETNVLANLSNASALIKSRFPNTVFAGFYLFDGK-----ELVLGPFQGG---------VSCIRIALGKGVCGEA 88 (171)
T ss_dssp HHHHHTTCCBHHHHHHHHHHHHHHHCTTEEEEEEEEECSS-----EEEEEEEESS---------SCCCEEETTSHHHHHH
T ss_pred HHHHHcCCCCHHHHHHHHHHHHHHHccCCCEEEEEEEECC-----EEEEEeccCC---------ccceEeeCCcCHHHHH
Confidence 344455667999999999999999997 999999999852 4665555432 1257999999999999
Q ss_pred eccCCeEeccCCCCCCCCCh
Q psy680 82 AVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~ 101 (122)
+++|+|++|+|+..+|+|..
T Consensus 89 a~tg~~i~V~Dv~~~p~~i~ 108 (171)
T 3rfb_A 89 AHFQETVIVGDVTTYLNYIS 108 (171)
T ss_dssp HHTTSCEEESCTTSCSSCCC
T ss_pred HhhCCEEEECCcccCccccc
Confidence 99999999999999999954
No 6
>2e4s_A CAMP and CAMP-inhibited CGMP 3',5'-cyclic phosphodiesterase 10A; GAF domain, structural genomics, NPPSFA; HET: MSE CMP; 2.10A {Homo sapiens} PDB: 2zmf_A*
Probab=99.41 E-value=3.4e-13 Score=91.89 Aligned_cols=100 Identities=24% Similarity=0.390 Sum_probs=77.2
Q ss_pred hhHHHHHhc-cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCC-Ccc-cCCCceeeeeCCCcee
Q psy680 2 AIVRDIARD-LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGA-GLV-YSTADEVEVPWGVGIL 78 (122)
Q Consensus 2 ei~~~l~~~-ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~-~~~-~~~~~~i~~~~g~GI~ 78 (122)
++++.|++. +|+++++..++..+.+++++++|+||++|++. ..+....+....+. +.. ........+|.+.|++
T Consensus 17 ~~~~~l~~~~~d~~~~l~~i~~~~~~~~~a~~~~i~l~d~~~---~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 93 (189)
T 2e4s_A 17 DVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKN---KELYSDLFDIGEEKEGKPVFKKTKEIRFSIEKGIA 93 (189)
T ss_dssp HHHHHHHHCSSCHHHHHHHHHHHHHHHHTEEEEEEEEEETTT---TEEEEEEEEEEEEETTEEEEEECCCCEEETTSHHH
T ss_pred HHHHHHHhcccCHHHHHHHHHHHHHHHhCCCeEEEEEEECCC---CEEEEEEeccCccccccccccCCcceEeeCCCcHH
Confidence 678888877 49999999999999999999999999999864 34554433222100 000 0024466889999999
Q ss_pred eeeeccCCeEeccCCCCCCCCChHHH
Q psy680 79 GHVAVTGETVNLQKKKEKKKKKKKKK 104 (122)
Q Consensus 79 G~Va~tg~pi~i~Dv~~d~rF~~~~~ 104 (122)
|+|+.+|+|++++|+..||+|....+
T Consensus 94 ~~v~~~~~~~~i~d~~~~~~~~~~~~ 119 (189)
T 2e4s_A 94 GQVARTGEVLNIPDAYADPRFNREVD 119 (189)
T ss_dssp HHHHHHCCCEEESCGGGSTTCCTHHH
T ss_pred HHHHHhCCEEEecCCCcCcccChhhc
Confidence 99999999999999999999986654
No 7
>1vhm_A Protein YEBR; structural genomics, unknown function; HET: MES; 2.10A {Escherichia coli} SCOP: d.110.2.1
Probab=99.39 E-value=7.5e-13 Score=93.97 Aligned_cols=86 Identities=16% Similarity=0.173 Sum_probs=71.3
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHh-cCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLL-DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l-~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
++.+.|..+.|+..+|..++..+.+.+ ++++|++|++|+. +|....|.+ .....++|+|+|++|+
T Consensus 33 ~l~~ll~~~~dl~~~L~~v~~ll~~~l~~~~~~~iyL~d~~-----~L~l~~~~G---------~~~~~~i~~GeGi~G~ 98 (195)
T 1vhm_A 33 DFNALMAGETSFLATLANTSALLYERLTDINWAGFYLLEDD-----TLVLGPFQG---------KIACVRIPVGRGVCGT 98 (195)
T ss_dssp HHHHHHTTCCCHHHHHHHHHHHHHHHSSSCSEEEEEEEETT-----EEEEEEEEE---------SCCCSEEETTSHHHHH
T ss_pred HHHHHHhcCCcHHHHHHHHHHHHHHhCCCCCEEEEEEEECC-----EEEEEEecC---------cccceEecCCCChHHH
Confidence 355666677899999999999999999 9999999999862 354444332 1236789999999999
Q ss_pred eeccCCeEeccCCCCCCCCCh
Q psy680 81 VAVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF~~ 101 (122)
|+++|+|++|+|+..+|+|..
T Consensus 99 aa~tg~~i~V~Dv~~~p~~~~ 119 (195)
T 1vhm_A 99 AVARNQVQRIEDVHVFDGHIA 119 (195)
T ss_dssp HHHHTSCEEESCTTTCTTCCC
T ss_pred HHhcCCEEEECCcccCcchhh
Confidence 999999999999999999964
No 8
>1f5m_A GAF; CGMP binding, signaling protein; 1.90A {Saccharomyces cerevisiae} SCOP: d.110.2.1 PDB: 3ko6_A*
Probab=99.34 E-value=2e-12 Score=90.39 Aligned_cols=88 Identities=13% Similarity=0.079 Sum_probs=70.8
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHh-----cCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCce
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLL-----DADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGI 77 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l-----~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI 77 (122)
+...+..+.|+..+|..++..+.+.+ ++++|++|++|+++++ +|....|.+ ....+++++|+|+
T Consensus 32 l~~ll~~~~dl~~~L~~v~~~l~~~l~~~~~~~~~~~~yl~d~~~~~--~L~l~~~~g---------~~~~~~i~~g~Gi 100 (180)
T 1f5m_A 32 YEGLSDGQVNWVCNLSNASSLIWHAYKSLAVDINWAGFYVTQASEEN--TLILGPFQG---------KVACQMIQFGKGV 100 (180)
T ss_dssp HHHHHTTCCBHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEECSSSSC--EEEEEEEEE---------SCCCSEEETTSHH
T ss_pred HHHHHhcCccHHHHHHHHHHHHHHHHhhccCCccEEEEEEEecCCCC--eEEEeecCC---------CccceeecCCCcc
Confidence 44455556799999999999999999 9999999999975312 455444322 2236789999999
Q ss_pred eeeeeccCCeEeccCCCCCCCCCh
Q psy680 78 LGHVAVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 78 ~G~Va~tg~pi~i~Dv~~d~rF~~ 101 (122)
+|+|+.+|+|++|+|+..||+|..
T Consensus 101 ~G~aa~~g~~v~v~Dv~~dp~~~~ 124 (180)
T 1f5m_A 101 CGTAASTKETQIVPDVNKYPGHIA 124 (180)
T ss_dssp HHHHHHHTSCEEESCGGGSTTCCC
T ss_pred hhhhhhcCCEEEeCCcccCccccc
Confidence 999999999999999999999973
No 9
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii}
Probab=99.29 E-value=1.1e-11 Score=82.85 Aligned_cols=93 Identities=24% Similarity=0.339 Sum_probs=74.2
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++++.|++..|+++++..+++.+.+++++++|+||++|++. + .+...... | ..+.......++.+.|++|+|
T Consensus 12 ~i~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~l~d~~~-~--~l~~~~~~---g--~~~~~~~~~~~~~~~~~~~~~ 83 (171)
T 3trc_A 12 QITQEVNAAPNLEQALKLVVVRLCEALPADACSLFICDDVH-G--EYVLMATQ---G--LNSKQVGKLRLKFGEGLIGLV 83 (171)
T ss_dssp HHHHHHHHCSSHHHHHHHHHHHHHHHTTCSEEEEEEEETTT-T--EEEEEEEE---S--SCGGGTTTCEEETTCHHHHHH
T ss_pred HHHHHHhcccCHHHHHHHHHHHHHHHhCCcEEEEEEEECCC-C--eEEEEEec---C--CCccccccEeecCCCChhhHH
Confidence 67888999999999999999999999999999999999864 2 33322211 1 111133345789999999999
Q ss_pred eccCCeEeccCCCCCCCCChH
Q psy680 82 AVTGETVNLQKKKEKKKKKKK 102 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~~ 102 (122)
+.+++|++++|+..||+|...
T Consensus 84 ~~~~~~~~~~d~~~~~~~~~~ 104 (171)
T 3trc_A 84 GEREEPINLADAPLHPAYKHR 104 (171)
T ss_dssp HHHTSCEEESCGGGSTTCCCC
T ss_pred HhcCCeEEeCCCCCCCccccc
Confidence 999999999999999999653
No 10
>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens}
Probab=99.22 E-value=1.8e-11 Score=81.52 Aligned_cols=92 Identities=11% Similarity=0.170 Sum_probs=72.6
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeC--CCcee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPW--GVGIL 78 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~--g~GI~ 78 (122)
.++++.|++..|+++++..+++.+.+++++++|+||++|++. ..+...... +.... ......+++ +.|++
T Consensus 5 ~~i~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~l~d~~~---~~l~~~~~~---g~~~~--~~~~~~~~~~~~~~~~ 76 (169)
T 3oov_A 5 HQISSRIQKSIDVDEVLRLCAEGLHDVLGYERVNILMADTAR---TSLSFVAAV---GTADF--NPAGVVLPLDQRGGVI 76 (169)
T ss_dssp -CHHHHHHHCCCHHHHHHHHHHHHHHTTCCSEEEEEEECTTS---SEEEEEEEE---SCSSC--CCTTCEEESSGGGHHH
T ss_pred HHHHHHHhhhcCHHHHHHHHHHHHHHhhCCceEEEEEEeCCC---CeEEEEEEe---Cchhh--hhhcccCCcccccchH
Confidence 368899999999999999999999999999999999999864 234433211 11111 334566777 68999
Q ss_pred eeeeccCCeEeccCCCCCCCCC
Q psy680 79 GHVAVTGETVNLQKKKEKKKKK 100 (122)
Q Consensus 79 G~Va~tg~pi~i~Dv~~d~rF~ 100 (122)
|+|+.+|+|+.++|+..++++.
T Consensus 77 ~~~~~~~~~~~i~d~~~~~~~~ 98 (169)
T 3oov_A 77 TKCFTDRQVYMIDDVSAYPTDF 98 (169)
T ss_dssp HHHHHHTCCEEESCGGGSCGGG
T ss_pred HHHHhcCCCEEeccccchhhhh
Confidence 9999999999999999998765
No 11
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A*
Probab=99.21 E-value=1.3e-12 Score=109.65 Aligned_cols=105 Identities=30% Similarity=0.542 Sum_probs=0.0
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
+++++.|++.+|+++++..++..++++++|++|+||++|++.++...+++..|....|...++.....+++|++.|++|+
T Consensus 156 ~eis~~L~~~ldl~~ll~~il~~l~~~l~ad~~~I~L~d~~~~~~~~lv~~~f~~~~G~~~~~~~~~~~~~p~~~gi~g~ 235 (878)
T 3bjc_A 156 LELVKDISSHLDVTALCHKIFLHIHGLISADRYSLFLVCEDSSNDKFLISRLFDVAEGSTLEEVSNNCIRLEWNKGIVGH 235 (878)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHhhcCCHHHHHHHHHHHHHHHhCCCeEEEEEEeCCCCCceeEEeeecccccCccccccCCcceeeeCCccHHHH
Confidence 36788889999999999999999999999999999999986422234554444433332221112456788999999999
Q ss_pred eeccCCeEeccCCCCCCCCChHHHH
Q psy680 81 VAVTGETVNLQKKKEKKKKKKKKKK 105 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF~~~~~~ 105 (122)
|+.+|+|++|+|+..||+|....+.
T Consensus 236 v~~~g~pv~I~D~~~dp~f~~~~~~ 260 (878)
T 3bjc_A 236 VAALGEPLNIKDAYEDPRFNAEVDQ 260 (878)
T ss_dssp -------------------------
T ss_pred HHhcCceEEeCCcccCccccccccc
Confidence 9999999999999999999887663
No 12
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens}
Probab=99.20 E-value=4.8e-12 Score=103.51 Aligned_cols=87 Identities=24% Similarity=0.344 Sum_probs=71.7
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
+++++.|+ ++|++++++.++..++++++|++|+||++|++. ..+++.. ..|..+ ...+++|++ ||+|+
T Consensus 18 ~~i~~~ls-~ldl~~ll~~il~~l~~~l~ad~~~i~L~d~~~---~~l~~~~---~~g~~~----~~~~~~p~~-Gi~g~ 85 (691)
T 3ibj_A 18 LQLCGELY-DLDASSLQLKVLQYLQQETRASRCCLLLVSEDN---LQLSCKV---IGDKVL----GEEVSFPLT-GCLGQ 85 (691)
T ss_dssp HHHHHHCC-CSSHHHHHHHHHHHHHHHTTBSCEEEEEECTTS---SEEEEEE---ETTEEE----EEEEEEECC-SSSHH
T ss_pred HHHHHHHH-hccHHHHHHHHHHHHHHHhCCCEEEEEEEECCC---CeEEEEe---cCCCcc----ccceecCCc-cHHHH
Confidence 36889999 999999999999999999999999999999864 3455433 222112 235789999 99999
Q ss_pred eeccCCeEeccCCCCCCCC
Q psy680 81 VAVTGETVNLQKKKEKKKK 99 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF 99 (122)
|+++|+|++|+|+..||+|
T Consensus 86 v~~~~~pv~i~d~~~~~~~ 104 (691)
T 3ibj_A 86 VVEDKKSIQLKDLTSEDVQ 104 (691)
T ss_dssp HHHHCCCEEGGGSCHHHHH
T ss_pred HHHHCCeEEeccchhcccc
Confidence 9999999999999998865
No 13
>3e0y_A Conserved domain protein; APC87688.2, geobacter sulfurreducens PCA, structural genomics, PSI-2, midwest center for structural G MCSG; 3.10A {Geobacter sulfurreducens}
Probab=99.19 E-value=3.7e-11 Score=80.72 Aligned_cols=90 Identities=18% Similarity=0.303 Sum_probs=71.9
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++++.|+...|+++++..++..+.+++++++|+||++|++. ..+.+. .+ ..+.......++++.|++|+|
T Consensus 19 ~i~~~l~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~~---~~~~~~-~g------~~~~~~~~~~~~~~~~~~~~~ 88 (181)
T 3e0y_A 19 EISMLVSSDFDLPEVLQHVTAKVATQLKVSVCNIYLREGDE---VVLAAT-HG------FDPAFIGKIRIKIGDGITGSV 88 (181)
T ss_dssp HHHHHHSTTSCHHHHHHHHHHHHHHHTTCSCEEEEEEETTE---EEEEEE-ES------SCGGGTTTCEEETTTSSHHHH
T ss_pred HHHHHHhhcCCHHHHHHHHHHHHHHHhCCCeEEEEEEcCCC---ceEEEe-cC------CCHHHhccccccCCCCeeeeh
Confidence 67888888999999999999999999999999999999864 233321 11 111133455789999999999
Q ss_pred eccCCeEeccCCCCCCCCCh
Q psy680 82 AVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~ 101 (122)
+.+|+|++++|+..+|+|..
T Consensus 89 ~~~~~~~~i~d~~~~~~~~~ 108 (181)
T 3e0y_A 89 ARDGQYISLSRASQDPRYRY 108 (181)
T ss_dssp HHHCCCEEEEEECCCCCC--
T ss_pred hhcCCeEEecCcccCccccc
Confidence 99999999999999999864
No 14
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP}
Probab=99.13 E-value=1.8e-10 Score=76.09 Aligned_cols=94 Identities=20% Similarity=0.299 Sum_probs=71.8
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++++.|.+..++++++..+++.+.+++++++|+|+++|++. + .+..... .+ ..+.......++.+.|++|+|
T Consensus 14 ~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~l~~~~~-~--~l~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~ 85 (171)
T 3ci6_A 14 RIVQEINSSVSLHDSLDIMVNQVADAMKVDVCSIYLLDERN-Q--RYLLMAS---KG--LNPESVGHVSLQLSEGLVGLV 85 (171)
T ss_dssp HHHHHHHTCSSHHHHHHHHHHHHHHHHTCSEEEEEEEETTT-T--EEEEEEE---ES--SCGGGTTTCEEETTSHHHHHH
T ss_pred HHHHHHhcCCCHHHHHHHHHHHHHHHhCCCeEEEEEEeCCC-C--EEEEEec---cC--CCcccccceeeeccCCeehhh
Confidence 57788888899999999999999999999999999999864 2 2332221 11 111123355788999999999
Q ss_pred eccCCeEeccCCCCCCCCChHH
Q psy680 82 AVTGETVNLQKKKEKKKKKKKK 103 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~~~ 103 (122)
+.+++|+.++|+..+|+|....
T Consensus 86 ~~~~~~~~~~d~~~~~~~~~~~ 107 (171)
T 3ci6_A 86 GQREEIVNLENASKHERFAYLP 107 (171)
T ss_dssp HHHTSCEEESSGGGSTTC----
T ss_pred hccCceEEecCCCcCcchhccc
Confidence 9999999999999999987543
No 15
>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein structure initiative, structural genomics; 2.50A {Chlorobium tepidum tls}
Probab=99.12 E-value=2.7e-10 Score=76.70 Aligned_cols=94 Identities=13% Similarity=-0.001 Sum_probs=70.8
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++++.|.+.+|+++++..++..+.+++++++|+|+++|++. + .+.... ..... .. +.......+|.+.|++|+|
T Consensus 10 ~i~~~l~~~~d~~~~l~~i~~~~~~~~~~~~~~i~l~d~~~-~--~l~~~~-~~~~~-~~-~~~~~~~~~~~~~~~~~~v 83 (177)
T 3k2n_A 10 YIGDAIGTIRDPQELFRTVTDKLRLLFAFDSAVIITIDRER-R--EASVFF-EMLRF-EL-PEQLRHQTRSIAGTWLEGH 83 (177)
T ss_dssp HHHHHHTTCCSHHHHHHHHHHHHTTTCCCSEEEEEEEETTT-T--EEEEEE-EECSS-CC-CSTTCCSEEECTTSGGGGG
T ss_pred HHHHHHhcccCHHHHHHHHHHHHHHhcCCCeEEEEEEcCCC-C--eEEeEE-ecccC-CC-CchhhcccCCccccHHHHH
Confidence 68888999999999999999999999999999999999864 2 232211 00010 11 1123455788999999999
Q ss_pred eccCCeEeccCCCC-CCCCChH
Q psy680 82 AVTGETVNLQKKKE-KKKKKKK 102 (122)
Q Consensus 82 a~tg~pi~i~Dv~~-d~rF~~~ 102 (122)
+++++|+++ |+.. +++|...
T Consensus 84 ~~~~~~~~~-d~~~~~~~~~~~ 104 (177)
T 3k2n_A 84 LDDRTVTVA-SIARDIPSFGAD 104 (177)
T ss_dssp TTCCSCEEE-ETTTTCTTTTTT
T ss_pred hccCCceEe-chhhcccccCCc
Confidence 999999999 7777 7777653
No 16
>2vjw_A GAF-B, GAF family protein; histidine kinase, hypoxia sensing, hydrolase; HET: MSE; 2.0A {Mycobacterium smegmatis} PDB: 2vks_A
Probab=99.11 E-value=1.3e-10 Score=78.45 Aligned_cols=79 Identities=15% Similarity=0.121 Sum_probs=60.3
Q ss_pred CHHHHHHHHHHHHHHHhcCCeEEEEEEeccCC---CceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeE
Q psy680 12 DLKSLSKKTVDNVSVLLDADGASLFFVERRRG---GKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETV 88 (122)
Q Consensus 12 dl~~ll~~il~~~~~~l~~er~si~l~d~~~~---~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi 88 (122)
|++++|..+++.+++++++++|+|++.|++.. + .+..... .| .........++|+++|++|+|+++|+|+
T Consensus 1 ~~~~~L~~i~~~a~~~~~ad~~~i~l~~~~~~~~~~--~l~~~a~---~g--~~~~~~~~~~~~~~~g~~g~v~~~g~~v 73 (149)
T 2vjw_A 1 DPATVFRLVAAEALTLTGADGTLVAVPADPDASAAE--ELVIVEV---AG--AVPAEVEASAIPVQDNAIGQAFRDRAPR 73 (149)
T ss_dssp CTHHHHHHHHHHHHHHHCCSEEEEEEECC----CCS--EEEEEEE---EE--TSCGGGTTCEEESSSSHHHHHHHHCCCE
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEcCCCCCcCc--eEEEEEE---ec--CChHhhcCcccCCCCCHHHHHhhcCceE
Confidence 57899999999999999999999999987420 2 2433221 11 1111345678999999999999999999
Q ss_pred eccCCCCCC
Q psy680 89 NLQKKKEKK 97 (122)
Q Consensus 89 ~i~Dv~~d~ 97 (122)
+++|+..||
T Consensus 74 ~v~d~~~d~ 82 (149)
T 2vjw_A 74 RLDVLDGPG 82 (149)
T ss_dssp EESCCCTTS
T ss_pred EecCcccCC
Confidence 999999887
No 17
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP}
Probab=99.10 E-value=8.3e-11 Score=89.38 Aligned_cols=94 Identities=20% Similarity=0.241 Sum_probs=68.9
Q ss_pred hhHHHHHhccCHHHHHHHHHHH----HHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCce
Q psy680 2 AIVRDIARDLDLKSLSKKTVDN----VSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGI 77 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~----~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI 77 (122)
++.+.+++ .|++.+|..+++. +.++++|++|+||++|++. .+++..+..+ ... ....+++|.+.|+
T Consensus 13 ~~~~~l~~-~~l~~~l~~~l~~i~~~~~~~~~a~~~~i~l~d~~~---~~l~~~~~~g-----~~~-~~~~~~~~~~~g~ 82 (398)
T 1ykd_A 13 QTLSMLDS-HGFENILQEMLQSITLKTGELLGADRTTIFLLDEEK---QELWSIVAAG-----EGD-RSLEIRIPADKGI 82 (398)
T ss_dssp HHHHHHTT-SCHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEETTT---TEEEEEEECC-----GGG-CCCCCEEETTSHH
T ss_pred HHHHHHHh-ccHHHHHHHHHHHHHHHHHHHhCCceEEEEEEECCC---CeEEEEeecC-----CCC-ccceeecCCCCch
Confidence 34555544 7877766665555 8999999999999999864 3455443211 111 2335688999999
Q ss_pred eeeeeccCCeEeccCCCCC---CCCChHHHH
Q psy680 78 LGHVAVTGETVNLQKKKEK---KKKKKKKKK 105 (122)
Q Consensus 78 ~G~Va~tg~pi~i~Dv~~d---~rF~~~~~~ 105 (122)
+|+|+.+|+|++|+|+..+ ++|....+.
T Consensus 83 ~g~v~~~~~~v~i~d~~~~~~~~~~~~~~~~ 113 (398)
T 1ykd_A 83 AGEVATFKQVVNIPFDFYHDPRSIFAQKQEK 113 (398)
T ss_dssp HHHHHHHCCCEEECSCGGGSGGGHHHHHHHH
T ss_pred hhhhhccCcEEeccchhcccchhhcccccCc
Confidence 9999999999999999998 888776653
No 18
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP}
Probab=99.09 E-value=1.7e-10 Score=87.67 Aligned_cols=91 Identities=26% Similarity=0.493 Sum_probs=75.5
Q ss_pred hhHHHHHh-ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 2 AIVRDIAR-DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 2 ei~~~l~~-~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
++++.|.. ..++++++..++..+..++++++|+||++|++. ..+..... ..+ . ....+++|++.|++|+
T Consensus 203 ~~~~~l~~~~~dl~~~l~~i~~~~~~~~~~~~~~i~l~d~~~---~~l~~~~~--~~~--~---~~~~~~~~~~~~~~~~ 272 (398)
T 1ykd_A 203 KAVKSLSQSSLDLEDTLKRVMDEAKELMNADRSTLWLIDRDR---HELWTKIT--QDN--G---STKELRVPIGKGFAGI 272 (398)
T ss_dssp HHHHHHHHCCCCHHHHHHHHHHHHHHHTTEEEEEEEEEETTT---TEEEEEEE--CSS--S---CEEEEEEETTSHHHHH
T ss_pred HHHHHHhcccCCHHHHHHHHHHHHHHHhCcCeEEEEEEECCC---CEEEEEEe--cCC--C---ceeeeeccCCCchhhH
Confidence 56778888 899999999999999999999999999999864 24554331 111 1 3456789999999999
Q ss_pred eeccCCeEecc-CCCCCCCCChH
Q psy680 81 VAVTGETVNLQ-KKKEKKKKKKK 102 (122)
Q Consensus 81 Va~tg~pi~i~-Dv~~d~rF~~~ 102 (122)
|+.+|+|++++ |+..+|+|...
T Consensus 273 v~~~~~~~~i~~d~~~~~~~~~~ 295 (398)
T 1ykd_A 273 VAASGQKLNIPFDLYDHPDSATA 295 (398)
T ss_dssp HHHHCCCEEECSCGGGSTTCHHH
T ss_pred HhccCCeEEeccccccCcccCcc
Confidence 99999999999 99999999876
No 19
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1
Probab=99.08 E-value=3.4e-11 Score=90.32 Aligned_cols=86 Identities=24% Similarity=0.332 Sum_probs=70.1
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
++++.| +++|+++++..++..+++++++++|+||++|++. ..+++.... + .. ....+.+|.+.|++|+|
T Consensus 18 ~l~~~l-~~~dl~~~l~~i~~~~~~~~~~~~~~i~l~d~~~---~~l~~~~~~---g--~~--~~~~~~~~~~~g~~g~~ 86 (368)
T 1mc0_A 18 QLCGEL-FDLDATSLQLKVLQYLQQETQATHCCLLLVSEDN---LQLSCKVIG---D--KV--LGEEVSFPLTMGRLGQV 86 (368)
T ss_dssp HHHHTC-CCSSHHHHHHHHHHHHHHHSCEEEEEEEEECSSS---CEEEEEEET---T--EE--EEEEEEEESSSSSHHHH
T ss_pred HHHHHH-hhhhHHHHHHHHHHHHHHHhCCcEEEEEEEeCCC---CeEEEEecC---C--Cc--cccceeeccccCHHHHH
Confidence 566777 6789999999999999999999999999999864 345544321 1 11 23467889999999999
Q ss_pred eccCCeEeccCCCCCCC
Q psy680 82 AVTGETVNLQKKKEKKK 98 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~r 98 (122)
+.+|+|++|+|+..||+
T Consensus 87 ~~~~~~~~i~d~~~~~~ 103 (368)
T 1mc0_A 87 VEDKQCIQLKDLTSDDV 103 (368)
T ss_dssp HHHCCCEEGGGSCHHHH
T ss_pred HhcCCeEEecccccccc
Confidence 99999999999998886
No 20
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens}
Probab=99.00 E-value=4.9e-10 Score=91.67 Aligned_cols=94 Identities=26% Similarity=0.364 Sum_probs=73.1
Q ss_pred hhHHHHHh-ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 2 AIVRDIAR-DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 2 ei~~~l~~-~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
++++.+++ ..++++++..++..+.++++|++|+|+++|+. +++..++.+.. .+......++|.+.|++|+
T Consensus 185 ei~~~l~~~~~dl~~ll~~i~~~~~~~l~ad~~~i~L~d~~-----~l~~~~~~g~~----~~~~~~~~~~~~~~gi~g~ 255 (691)
T 3ibj_A 185 QVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQN-----ELVAKVFDGGV----VDDESYEIRIPADQGIAGH 255 (691)
T ss_dssp HHHHHHTTCCSCTTTHHHHHHHHHHHHHTEEEEEEEEECSS-----EEEEECCSSSC----CSSCCCEEEEETTSHHHHH
T ss_pred HHHHHHhhccccHHHHHHHHHHHHHHHhCCCeEEEEEEeCC-----eEEEEeecCCc----ccccccceeccCCCCHHHH
Confidence 56777888 58999999999999999999999999999972 35544432211 1114457789999999999
Q ss_pred eeccCCeEeccCCCCCCCCChHHH
Q psy680 81 VAVTGETVNLQKKKEKKKKKKKKK 104 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF~~~~~ 104 (122)
|+++|+|++++|+..||+|....+
T Consensus 256 v~~~g~~v~i~d~~~d~~~~~~~~ 279 (691)
T 3ibj_A 256 VATTGQILNIPDAYAHPLFYRGVD 279 (691)
T ss_dssp HHHHCSCEEESCSTTSTTC-----
T ss_pred HHHhCCEEEecCcccCccccchhh
Confidence 999999999999999999976544
No 21
>1mc0_A 3',5'-cyclic nucleotide phosphodiesterase 2A; GAF domain, 3',5' guanosine monophosphate, hydrolase; HET: PCG; 2.86A {Mus musculus} SCOP: d.110.2.1 d.110.2.1
Probab=98.97 E-value=1.2e-09 Score=81.79 Aligned_cols=95 Identities=26% Similarity=0.415 Sum_probs=75.1
Q ss_pred hhHHHHHhc-cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 2 AIVRDIARD-LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 2 ei~~~l~~~-ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
++++.|.+. .|+++++..++..+++++++++|+||++|+. .+....+.+ +..+.......+|.+.|++|+
T Consensus 185 ~i~~~l~~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~-----~l~~~~~~g----~~~~~~~~~~~~~~~~~~~~~ 255 (368)
T 1mc0_A 185 QVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQN-----ELVAKVFDG----GVVDDESYEIRIPADQGIAGH 255 (368)
T ss_dssp HHHHHHHHTTTCHHHHHHHHHHHHHHHHTEEEEEEEEECSS-----SEEEEEETT----EECCCSTTCCEECTTSHHHHH
T ss_pred HHHHHHHhcccCHHHHHHHHHHHHHHHhcccEEEEEEEeCC-----ceEEEEecc----ccccccccceeecCCCceeee
Confidence 567778888 5999999999999999999999999999972 244333221 111113456688999999999
Q ss_pred eeccCCeEeccCCCCCCCCChHHHH
Q psy680 81 VAVTGETVNLQKKKEKKKKKKKKKK 105 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~rF~~~~~~ 105 (122)
|+.+|+|++|+|+..+|+|....+.
T Consensus 256 ~~~~~~~~~i~d~~~~~~~~~~~~~ 280 (368)
T 1mc0_A 256 VATTGQILNIPDAYAHPLFYRGVDD 280 (368)
T ss_dssp HHHHCCCEEESCSTTCTTCCCTTHH
T ss_pred ehhhCCEEEecCcccCcccchhhhh
Confidence 9999999999999999999876543
No 22
>3p01_A Two-component response regulator; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, signali protein; 2.65A {Nostoc SP}
Probab=98.93 E-value=5.9e-10 Score=76.37 Aligned_cols=88 Identities=9% Similarity=0.084 Sum_probs=66.2
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+|++.|.+.+|+++++..+++.+.+++++++|+||+++++. .......+. .. +. ....+| +.|++|+|
T Consensus 34 ~is~~l~~~~dl~~il~~i~~~l~~~l~~d~~~i~l~~~~~---~~~~~~~~~-~~--~~-----~~~~~~-~~~~~~~~ 101 (184)
T 3p01_A 34 VLVQVTQASNSLEAILTPIATAFAESFAVNACILQMLEGQT---LSTIQGFYS-QQ--GT-----VNNWLN-QDPLTNEA 101 (184)
T ss_dssp HHHHHHHHCSSSHHHHHHHHHHHHHHHTCSEEEEEEEETTE---EEEEEEEEE-SS--SS-----CCCCGG-GCHHHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEecCCc---eeeeeeecc-cc--Cc-----cCcccC-CCcHHHHH
Confidence 67888999999999999999999999999999999995431 222221111 11 11 111244 48899999
Q ss_pred eccCCeEeccCCCCCCCCCh
Q psy680 82 AVTGETVNLQKKKEKKKKKK 101 (122)
Q Consensus 82 a~tg~pi~i~Dv~~d~rF~~ 101 (122)
+.+|+|+.|+|+..||+|..
T Consensus 102 ~~~~~~~~i~d~~~~~~~~~ 121 (184)
T 3p01_A 102 IATGQIQVAANIAKDPKLAS 121 (184)
T ss_dssp HHHCSCEEESCGGGCHHHHT
T ss_pred HhhCCeEEEeccccCccccc
Confidence 99999999999999998754
No 23
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain, phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB: 2lb9_A*
Probab=98.89 E-value=3.4e-09 Score=73.87 Aligned_cols=100 Identities=15% Similarity=0.097 Sum_probs=58.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCc-c---c-C--C---------
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL-V---Y-S--T--------- 65 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~-~---~-~--~--------- 65 (122)
++++.|.+++|+++++..++..+.++++++||+||++|++.+ ..+++..........+ . + . +
T Consensus 20 ~i~~~i~~~~dl~~il~~~~~~l~~~l~~dr~~i~~~d~~~~--~~~~~~~~~~~~~~~~~g~~~~~~~~p~~~~~~~~~ 97 (208)
T 2lb5_A 20 RITHQIRQSLELDQILRATVEEVRAFLGTDRVKVYRFDPEGH--GTVVAEARGGERLPSLLGLTFPAGDIPEEARRLFRL 97 (208)
T ss_dssp -----------CHHHHHHHHHHHHHHHCCSEEEEEECCTTSE--EEEEEEEESSCCSCCCTTCEEEGGGCCSHHHHHHHH
T ss_pred HHHHHHHHcCCHHHHHHHHHHHHHHHHCCCEEEEEEEcCCCC--EEEEEEEecCCCCccccCCcCChhhCcHHHHHHHHh
Confidence 678888999999999999999999999999999999998642 2344333211000000 0 0 0 0
Q ss_pred -CceeeeeCCCceeee----eeccCCeEeccCCCCCCCCChHH
Q psy680 66 -ADEVEVPWGVGILGH----VAVTGETVNLQKKKEKKKKKKKK 103 (122)
Q Consensus 66 -~~~i~~~~g~GI~G~----Va~tg~pi~i~Dv~~d~rF~~~~ 103 (122)
...+-...+.|++|+ |+.+|+|++++|+..++.+....
T Consensus 98 ~~~~~i~d~~~~~~~~~~~~~~~~~~~i~i~d~~~~~~~~~~~ 140 (208)
T 2lb5_A 98 AQVRVIVDVEAQSRSISQPESWGLSARVPLGEPLQRPVDPCHV 140 (208)
T ss_dssp TCCCEECCGGGCCCCCCCSSCCCCCSCCCCCSCSSCCCCHHHH
T ss_pred CCeEEEeccccccccccccccccccccccccchhhccCCHHHH
Confidence 000111234677887 79999999999999998876543
No 24
>3hcy_A Putative two-component sensor histidine kinase PR; two-component sensor histidine kinase protein, structural GE PSI, MCSG; 2.80A {Sinorhizobium meliloti}
Probab=98.85 E-value=3.1e-09 Score=70.05 Aligned_cols=80 Identities=14% Similarity=0.100 Sum_probs=57.6
Q ss_pred cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEec
Q psy680 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNL 90 (122)
Q Consensus 11 ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i 90 (122)
.|+++++..+++.+.+++++++|+|+++|++. .+..... . ++.+ .....+.+.|++|+++.+|+|++|
T Consensus 2 ~~l~~~l~~~~~~~~~~~~~~~~~i~l~d~~~----~l~~~a~---~--g~~~---~~~~~~~~~~~~~~~~~~~~~~~i 69 (151)
T 3hcy_A 2 NAIEEVYEATLDAIQGALNCDRASILLFDEAG----TMRFVAA---R--GLSE---HYQRAVDGHSPWITGANEPEPIFV 69 (151)
T ss_dssp CCCHHHHHHHHHHHHHHHCCSEEEEEEECTTS----CEEEEEE---E--SCCH---HHHHHTCBCCSCC---CCCCCEEE
T ss_pred ccHHHHHHHHHHHHHHhhcCCEEEEEEEcCCC----cEEEEee---C--CCCH---HHHhhccCCCchhhhhhcCCcEEE
Confidence 58999999999999999999999999999853 2322221 1 1111 011124678899999999999999
Q ss_pred cCCCCCCCCChH
Q psy680 91 QKKKEKKKKKKK 102 (122)
Q Consensus 91 ~Dv~~d~rF~~~ 102 (122)
+|+..||+|...
T Consensus 70 ~d~~~~~~~~~~ 81 (151)
T 3hcy_A 70 ENVDDAEFSREL 81 (151)
T ss_dssp SCGGGSCCCHHH
T ss_pred eChhhCcccchh
Confidence 999999999553
No 25
>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane protein, PSI-2, MCSG structural genomics; 2.40A {Geobacter sulfurreducens pca}
Probab=98.85 E-value=3.5e-09 Score=71.66 Aligned_cols=90 Identities=14% Similarity=0.110 Sum_probs=64.7
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeee
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGH 80 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~ 80 (122)
+++++.|++..|+++++..++..+.++++++.|+|+++++. + .+......+... .. .......|.+.|++|+
T Consensus 6 ~~i~~~l~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~~~~--~--~l~~~a~~g~~~-~~---~~~~~~~~~~~~~~~~ 77 (181)
T 2qyb_A 6 LRASEIMNRTLDLQIIMDDLLNLLLKEFKLDLAVIRLVDEK--G--VLRVRSYSGKGI-AG---IAGKDWEPEIETYIGE 77 (181)
T ss_dssp ---CHHHHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEECTT--S--CEEEEEEEESCT-TS---TTCSCBCCCTTSHHHH
T ss_pred HHHHHHHHhccCHHHHHHHHHHHHHHHhCCcEEEEEEECCC--C--CEEEEEEeCCCc-ce---ecccccccCCCCchhh
Confidence 36788999999999999999999999999999999999542 2 232222111111 00 1111234447899999
Q ss_pred eeccCCeEeccCCCCCCC
Q psy680 81 VAVTGETVNLQKKKEKKK 98 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~r 98 (122)
|+.+|+|+.++|+..+++
T Consensus 78 ~~~~~~~~~v~d~~~~~~ 95 (181)
T 2qyb_A 78 AFLSNRLQFVNDTQYMTK 95 (181)
T ss_dssp HHHHTSCEEESCGGGCSC
T ss_pred hhhcCCCEEecChhcCCc
Confidence 999999999999999887
No 26
>2w3g_A DOSS, two component sensor histidine kinase DEVS (GAF family protein); redox sensor, heme, hypoxia, GAF domain, transferase; HET: HEM; 1.40A {Mycobacterium tuberculosis} PDB: 2w3d_A* 2w3f_A* 2w3e_A* 2w3h_A* 2y79_A* 2y8h_A* 2vzw_A*
Probab=98.79 E-value=1.2e-09 Score=71.37 Aligned_cols=85 Identities=19% Similarity=0.275 Sum_probs=63.7
Q ss_pred hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCce-eeeeCCCceeeeeeccCCe
Q psy680 9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADE-VEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~-i~~~~g~GI~G~Va~tg~p 87 (122)
+++|+++++..+++.+.+++++++|+|+++|++ + .+..... .+ ..+..... ..+|.+.|++|+|+.+++|
T Consensus 3 ~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~--~--~l~~~~~---~g--~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 73 (153)
T 2w3g_A 3 MDPDLEATLRAIVHSATSLVDARYGAMEVHDRQ--H--RVLHFVY---EG--IDEETVRRIGHLPKGLGVIGLLIEDPKP 73 (153)
T ss_dssp CCHHHHHHHHHHHHHHHHHTTEEEEEEEEECTT--C--CEEEEEE---ES--CCHHHHHHHCSCCCSCTHHHHHHHSCSC
T ss_pred CccCHHHHHHHHHHHHHHHhCCCEEEEEEECCC--C--CEEEEEE---ec--CCHHHHHhhccCCCCCCHHHHHHhcCCc
Confidence 457899999999999999999999999999953 2 2332221 11 11001122 2677889999999999999
Q ss_pred EeccCCCCCCCCChH
Q psy680 88 VNLQKKKEKKKKKKK 102 (122)
Q Consensus 88 i~i~Dv~~d~rF~~~ 102 (122)
+.++|+..+++|...
T Consensus 74 ~~~~d~~~~~~~~~~ 88 (153)
T 2w3g_A 74 LRLDDVSAHPASIGF 88 (153)
T ss_dssp EEESSGGGSTTCCCC
T ss_pred EEecCcccCchhcCC
Confidence 999999999988654
No 27
>3bjc_A CGMP-specific 3',5'-cyclic phosphodiesterase; PDE5, erectIle dysfunction, inhibitor design, allosteric enzyme, alternative splicing, CGMP binding; HET: WAN; 2.00A {Homo sapiens} SCOP: a.211.1.2 PDB: 3mf0_A 3lfv_A 2xss_A 2k31_A*
Probab=98.75 E-value=9.2e-10 Score=92.42 Aligned_cols=101 Identities=15% Similarity=0.106 Sum_probs=0.0
Q ss_pred hhHHHHHh-ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCc---ccCCCceeeeeCCCce
Q psy680 2 AIVRDIAR-DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGL---VYSTADEVEVPWGVGI 77 (122)
Q Consensus 2 ei~~~l~~-~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~---~~~~~~~i~~~~g~GI 77 (122)
++++.|.. ..++++++..++..+++++++++|+||++|++. .++++.++........ ........++|++.|+
T Consensus 338 ~ls~~L~~~s~dl~~ll~~I~~~a~~ll~a~~~~V~L~d~~~---~~l~a~a~~~~s~~~~~~~~~~~~~~~~~p~~~gi 414 (878)
T 3bjc_A 338 DLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDEDC---SDSFSSVFHMECEELEKSSDTLTREHDANKINYMY 414 (878)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHhhhccccHHHHHHHHHHHHHHHhCcceeEEEEEcCcc---cchhHHHhhccccccccccccccccccccchhhhH
Confidence 45666654 469999999999999999999999999999853 3566554432211000 0001235678999999
Q ss_pred eeeeeccCCeEeccCCCCCCCCChHHHH
Q psy680 78 LGHVAVTGETVNLQKKKEKKKKKKKKKK 105 (122)
Q Consensus 78 ~G~Va~tg~pi~i~Dv~~d~rF~~~~~~ 105 (122)
+|+|+.+|+|++|+|+..|++|....+.
T Consensus 415 ~g~v~~~g~~v~i~D~~~d~r~~~~~~~ 442 (878)
T 3bjc_A 415 AQYVKNTMEPLNIPDVSKDKRFPWTTEN 442 (878)
T ss_dssp ----------------------------
T ss_pred HHHHhhcCCeeeecCccccccccccccc
Confidence 9999999999999999999999876554
No 28
>2k2n_A Sensor protein, SYB-CPH1(GAF); phytochrome, GAF domain, phycocyanobilin, PCB, bacteriophytochrome, cyanobacterial phytochrome, kinase; HET: CYC; NMR {Synechococcus SP} SCOP: d.110.2.1 PDB: 2kli_A* 2koi_A*
Probab=98.65 E-value=8.4e-08 Score=64.99 Aligned_cols=90 Identities=16% Similarity=0.144 Sum_probs=59.3
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeecccc-CC--Cc--ccCCC----------ceeee--eCCC
Q psy680 13 LKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHS-GA--GL--VYSTA----------DEVEV--PWGV 75 (122)
Q Consensus 13 l~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~-~~--~~--~~~~~----------~~i~~--~~g~ 75 (122)
++++|..+++.+++++++|||+||++|++.++ .+++....... .+ +. ..... ..+++ ....
T Consensus 1 l~~il~~~~~~~~~~l~~dr~~i~~~~~~~~~--~~~~e~~~~~~~~~~~g~~~~~~~~p~~~~~~~~~~~~~~i~d~~~ 78 (172)
T 2k2n_A 1 LDQILRATVEEVRAFLGTDRVKVYRFDPEGHG--TVVAEARGGERLPSLLGLTFPAGDIPEEARRLFRLAQVRVIVDVEA 78 (172)
T ss_dssp CHHHHHHHHHHHHHHHCCSEEEEEECCTTSCC--EEEEEEESSTTSCCCTTCBCCTTCSCSHHHHHHHHTCCEECCCGGG
T ss_pred CHHHHHHHHHHHHHHhCCCeEEEEEECCCCCE--EEEEEEecCCCCccccCCccCcccCcHHHHHHHHhCCeEEEeeccc
Confidence 47899999999999999999999999986433 34443322110 00 00 00000 01111 1236
Q ss_pred ceeeee----eccCCeEeccCCCCCCCCChHHH
Q psy680 76 GILGHV----AVTGETVNLQKKKEKKKKKKKKK 104 (122)
Q Consensus 76 GI~G~V----a~tg~pi~i~Dv~~d~rF~~~~~ 104 (122)
|++|+| +.+|+|++++|++.++.|....+
T Consensus 79 ~~~g~v~~~~~~~~~~~~i~d~~~~~~~~~~~~ 111 (172)
T 2k2n_A 79 QSRSISQPESWGLSARVPLGEPLQRPVDPCHVH 111 (172)
T ss_dssp CCCCCSCCCSCCCSSCCCCCSSSSCCCCHHHHH
T ss_pred cccccccccccccCCceeccchhhcCCCHHHHH
Confidence 888886 99999999999999999875543
No 29
>3o5y_A Sensor protein; GAF domain, histidine, kinase, PSI, MCSG, structural genomics, midwest center for structural genomics, protein S initiative; 2.45A {Bacillus halodurans}
Probab=98.45 E-value=5.3e-07 Score=61.69 Aligned_cols=85 Identities=11% Similarity=0.100 Sum_probs=59.7
Q ss_pred hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeE
Q psy680 9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETV 88 (122)
Q Consensus 9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi 88 (122)
..+++++++..++..+++++++++++|++++++ .+....+.+... .. ......+|.+.+++++|+++|+|+
T Consensus 2 ~~~sldevL~~v~~~l~~~~~~d~~~l~L~~~~-----~L~l~a~~~~~~-~~---~~~~~~ip~~~s~~~~v~~~~~~~ 72 (165)
T 3o5y_A 2 NAMSLDDIINNMIDKLKLLVHFDRISFLLLANE-----TLKLSHVYPKGS-HS---LDIGSTIPKEQSLYWSALDQRQTI 72 (165)
T ss_dssp --CCHHHHHHHHHHHHHHHSCCSEEEEEEEETT-----EEEEEEEESTTC-CS---SCTTCEECSTTCHHHHHHHHTSCE
T ss_pred CCCCHHHHHHHHHHHHHHhcCcceEEEEEEECC-----EEEEEEEecCCc-cc---cccccccCCccCHHHHHHHhCCeE
Confidence 457999999999999999999999999999863 243333221111 00 112346788889999999999999
Q ss_pred eccCCCCCCCCChH
Q psy680 89 NLQKKKEKKKKKKK 102 (122)
Q Consensus 89 ~i~Dv~~d~rF~~~ 102 (122)
++++...+++|...
T Consensus 73 v~~~~~~~~~~~~~ 86 (165)
T 3o5y_A 73 FRSLTDTQDNFYEK 86 (165)
T ss_dssp EEESCCTTCCCTTH
T ss_pred EEcCcccccccccc
Confidence 86554444577644
No 30
>4glq_A Methyl-accepting chemotaxis protein; chromophore, phytochrome, cyanobacteriochrome, phycoviolobil bilin, BILI-protein; HET: PVN; 1.77A {Thermosynechococcus elongatus} PDB: 4fof_A*
Probab=98.36 E-value=4.7e-07 Score=62.24 Aligned_cols=88 Identities=11% Similarity=0.049 Sum_probs=57.6
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceeee
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILGH 80 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G~ 80 (122)
.+..|.+++|+++++..+++.+++++++|||.||.++++.+| ++++... .++.. +.....+|... .-...
T Consensus 2 ~a~~Ir~sldl~~il~~~v~~v~~~l~~DRv~Iy~f~~d~~g--~vvaE~~----~~~~~--s~lg~~~~~~~~~~~~~~ 73 (171)
T 4glq_A 2 AAVQLSELRDRQAIFETLVAKGRELLACDRVIVYAFDDNYVG--TVVAESV----AEGWP--QARDQVIEDPCFREHWVE 73 (171)
T ss_dssp ------CTTHHHHHHHHHHHHHHHHHTCSEEEEEEECTTCCE--EEEEEEE----CTTSC--CCTTCEECCTHHHHHTHH
T ss_pred hHHHHhhcCCHHHHHHHHHHHHHHHHCCCeEEEEEEeCCCCe--EEEEEEc----CCCCc--cccCCccCccccHHHHHH
Confidence 367788999999999999999999999999999999986433 3443321 12222 22233444321 12345
Q ss_pred eeccCCeEeccCCCCCCC
Q psy680 81 VAVTGETVNLQKKKEKKK 98 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~r 98 (122)
...+|+++.|+|+..++.
T Consensus 74 ~~~~g~~~~I~Dv~~~~~ 91 (171)
T 4glq_A 74 AYRQGRIQATTDIFKAGL 91 (171)
T ss_dssp HHHTTCCEEESCGGGTTC
T ss_pred HHHcCCEEEEcCcCcCCC
Confidence 789999999999987543
No 31
>3cit_A Sensor histidine kinase; MEGA: 3.30.450.40, structural genomics, sensor histidine KIN pseudomonas syringae, PSI-2; HET: MSE; 1.90A {Pseudomonas syringae PV}
Probab=98.06 E-value=1.8e-06 Score=59.36 Aligned_cols=40 Identities=10% Similarity=0.125 Sum_probs=34.6
Q ss_pred ChhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 1 MAIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 1 ~ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
+++++.| ..++.+.++..++..++.+++||+|+||++|++
T Consensus 18 ~e~~~~L-~~l~~~~~l~~il~~a~~~~~~d~gsL~l~d~~ 57 (160)
T 3cit_A 18 VDTGQEL-IQLPPEAMRKCVLQRACAFVAMDHGLLLEWGAD 57 (160)
T ss_dssp HHHHHHH-HHSCHHHHHHHHHHHHHHHTTCSEEEEEECC--
T ss_pred HHHHHHH-hcCCHHHHHHHHHHHHHHHhccCeeEEEEEcCC
Confidence 3678888 667889999999999999999999999999984
No 32
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}
Probab=97.57 E-value=0.00022 Score=54.05 Aligned_cols=87 Identities=9% Similarity=0.054 Sum_probs=60.2
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILG 79 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G 79 (122)
.+...|.+++|+++++..+++.+++++++||+.||-++++.+| ++++.... ++++ +.....+|-.. --+.
T Consensus 138 ~i~~rIr~sldl~~il~~av~evr~llg~DRVmIYrF~~d~~G--~VvAEs~~----~~~~--s~LGl~~p~~dip~~ar 209 (327)
T 4e04_A 138 SAIRRLQAAETLESACAAAAQEVREITGFDRVMIYRFASDFSG--EVIAEDRC----AEVE--SYLGLHFPASDIPAQAR 209 (327)
T ss_dssp HHHHHHHHCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTCEECGGGSCHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHCCCeEEEEEEcCCCCE--EEEEEEec----CCCc--CccCCccccccchHHHH
Confidence 3567788889999999999999999999999999999987544 55554321 2333 33344444321 1233
Q ss_pred eeeccCCeEeccCCCCC
Q psy680 80 HVAVTGETVNLQKKKEK 96 (122)
Q Consensus 80 ~Va~tg~pi~i~Dv~~d 96 (122)
.....|....|+|++..
T Consensus 210 ~ly~~~~vr~I~Di~~~ 226 (327)
T 4e04_A 210 RLYTINPVRIIPDINYR 226 (327)
T ss_dssp HHHHHSCEEEESCTTCC
T ss_pred HHHHcCCEEEEeCCCCC
Confidence 45667777788888765
No 33
>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=97.54 E-value=0.00025 Score=54.07 Aligned_cols=88 Identities=11% Similarity=0.066 Sum_probs=60.3
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCC--Cceee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWG--VGILG 79 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g--~GI~G 79 (122)
.+...|.+++|+++++..++..+++++++||+.||-++++.+| ++++.... ++++ +.....+|-. ---+.
T Consensus 156 ~i~~rIr~sldl~~ilq~tV~eVR~llg~DRVmIYrF~~d~~G--eVvAEs~~----~~~~--s~LGl~~pasdiP~~ar 227 (343)
T 3s7o_A 156 NAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATG--EVIAEARR----EGLH--AFLGHRFPASHIPAQAR 227 (343)
T ss_dssp HHHHHHHHCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTCC--CCTTCEECGGGSCHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEEcCCCCE--EEEEEEec----CCcc--cccCCccccccCHHHHH
Confidence 3567788889999999999999999999999999999986544 56554321 2333 3333444432 11234
Q ss_pred eeeccCCeEeccCCCCCC
Q psy680 80 HVAVTGETVNLQKKKEKK 97 (122)
Q Consensus 80 ~Va~tg~pi~i~Dv~~d~ 97 (122)
.....+....|+|++..|
T Consensus 228 ~ly~~~~vr~I~Di~~~p 245 (343)
T 3s7o_A 228 ALYTRHLLRLTADTRAAA 245 (343)
T ss_dssp HHHHHSCEEEESCTTCCC
T ss_pred HHHHcCCEEEEeccCCCc
Confidence 455667777788877653
No 34
>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=97.49 E-value=0.00032 Score=53.28 Aligned_cols=87 Identities=9% Similarity=0.087 Sum_probs=59.7
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceeee
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILGH 80 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G~ 80 (122)
+...|.+++|+++++..++..+++++++||+.||-++++.+| ++++... .++++ +....++|... --+..
T Consensus 152 i~~~Ir~sl~l~~il~~tv~evr~ll~~DRV~IYrF~~d~~G--~VvaEs~----~~~~~--s~lGl~~p~~dip~~ar~ 223 (337)
T 2ool_A 152 AIRRLQTAADLPTACWIAASEVRRITGFDRIKVYQFAADWSG--QVIAEDR----DSGIP--SLLDFHFPSSDIPAQSRA 223 (337)
T ss_dssp HHHHHHTCCSHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEE----CTTCC--CCTTCEECGGGSCHHHHH
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHhCCCeeEEEEEcCCCCE--EEEEEEc----cCCCc--cccCCCCCccccHHHHHH
Confidence 567777889999999999999999999999999999986544 5555432 12333 33344444321 12334
Q ss_pred eeccCCeEeccCCCCCC
Q psy680 81 VAVTGETVNLQKKKEKK 97 (122)
Q Consensus 81 Va~tg~pi~i~Dv~~d~ 97 (122)
....+....|+|++..|
T Consensus 224 ly~~~~vr~I~Di~~~~ 240 (337)
T 2ool_A 224 LYTINPVRIIPDIGYRP 240 (337)
T ss_dssp HHHHSCEEEESCTTCCC
T ss_pred HHHhCCEEEEEccCCCc
Confidence 55667777788887653
No 35
>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=97.40 E-value=0.00049 Score=55.09 Aligned_cols=87 Identities=9% Similarity=0.085 Sum_probs=61.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILG 79 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G 79 (122)
.+...|.+++|+++++..+++.+++++++||+.||-++++.+| ++++.... ++++ +....++|... -.+.
T Consensus 142 ~i~~~Ir~sl~l~~il~~~v~evr~ll~~DRVmIYrF~~d~~G--~VvAEs~~----~~~~--s~LGl~~p~~diP~~ar 213 (520)
T 3zq5_A 142 AALNRLRQQANLRDFYDVIVEEVRRMTGFDRVMLYRFDENNHG--DVIAEDKR----DDME--PYLGLHYPESDIPQPAR 213 (520)
T ss_dssp HHHHHHHHSCCHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTEEECGGGSCHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCEEEEEEEcCCCcE--EEEEEEeC----CCch--hhcCCccChhhhhHHHH
Confidence 3567788889999999999999999999999999999987543 55544321 2333 34445555421 1234
Q ss_pred eeeccCCeEeccCCCCC
Q psy680 80 HVAVTGETVNLQKKKEK 96 (122)
Q Consensus 80 ~Va~tg~pi~i~Dv~~d 96 (122)
.....|....|+|+...
T Consensus 214 ~ly~~~~vr~I~Di~~~ 230 (520)
T 3zq5_A 214 RLFIHNPIRVIPDVYGV 230 (520)
T ss_dssp HHHHHCCEEEESCTTCC
T ss_pred HHHHcCCEEEEcCCCCC
Confidence 45677888888888765
No 36
>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=97.36 E-value=0.00051 Score=54.79 Aligned_cols=88 Identities=11% Similarity=0.063 Sum_probs=61.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCC--ceee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGV--GILG 79 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~--GI~G 79 (122)
.+...|.+++|+++++..+++.+++++++||+.||-++++.+| ++++.... ++++ +....++|... -.+.
T Consensus 129 ~i~~~Ir~sl~l~~il~~~v~evr~ll~~DRV~IYrF~~d~~G--~VvaEs~~----~~~~--s~LGl~~p~~diP~~ar 200 (505)
T 3nhq_A 129 RIIAQVQLHNDTASLLSNVTDELRRMTGYDRVMAYRFRHDDSG--EVVAESRR----EDLE--SYLGQRYPASDIPAQAR 200 (505)
T ss_dssp HHHHHHHHCCCHHHHHHHHHHHHHHHHCCSEEEEEEECTTSCE--EEEEEEEC----TTSC--CCTTCEECGGGSCHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHhCCCeEEEEEecCCCCE--EEEEEEeC----CCch--hhcCCccCcccCHHHHH
Confidence 3667788889999999999999999999999999999987544 55554321 2333 33344444321 1334
Q ss_pred eeeccCCeEeccCCCCCC
Q psy680 80 HVAVTGETVNLQKKKEKK 97 (122)
Q Consensus 80 ~Va~tg~pi~i~Dv~~d~ 97 (122)
.....|....|+|+...|
T Consensus 201 ~ly~~~~vr~I~Dv~~~~ 218 (505)
T 3nhq_A 201 RLYIQNPIRLIADVAYTP 218 (505)
T ss_dssp HHHHHCSEEEESCTTCCC
T ss_pred HHHHcCCEEEEcCCCCCc
Confidence 556677777888887654
No 37
>4eho_A Bacteriophytochrome, PAS/PAC sensor; photoreceptor, bacteriopbhytochrome; HET: MSE BLA; 2.90A {Rhodopseudomonas palustris tie-1}
Probab=96.81 E-value=0.004 Score=50.63 Aligned_cols=47 Identities=15% Similarity=0.142 Sum_probs=40.4
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEee
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSK 51 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~ 51 (122)
+...|.+++|+++++..++..+++++++||+.||-++++.+| ++++.
T Consensus 137 ~~~~i~~s~~l~~i~~~~v~evr~l~~~DRv~iy~F~~d~~G--~vvaE 183 (635)
T 4eho_A 137 ALERIRTAGSLRALCDDTALLFQQCTGYDRVMVYRFDEQGHG--EVFSE 183 (635)
T ss_dssp HHHHHHHCCSHHHHHHHHHHHHHHHSCCSEEEEEEECTTCCE--EEEEE
T ss_pred HHHHHHhhCCHHHHHHHHHHHHHHHhCCCeEEEEEECCCCCE--EEEEE
Confidence 456788899999999999999999999999999999987544 55554
No 38
>2o8m_C Protease; NS3, NS4A, viral protein; 2.00A {Hepatitis c virus} PDB: 2obq_B 3lon_B* 1n1l_C* 1rtl_C* 2a4g_B* 1a1r_C* 2a4q_B* 2f9u_B* 2f9v_B* 2fm2_B* 2gvf_B* 2obo_B* 2a4r_B* 2oc1_B* 2oc7_B* 2oc8_B* 2xcf_C* 2xcn_C* 2xni_C* 3eyd_B* ...
Probab=93.24 E-value=0.061 Score=25.40 Aligned_cols=18 Identities=28% Similarity=0.564 Sum_probs=16.5
Q ss_pred ceeeeeeccCCeEeccCC
Q psy680 76 GILGHVAVTGETVNLQKK 93 (122)
Q Consensus 76 GI~G~Va~tg~pi~i~Dv 93 (122)
-|+|++..+|+|.++||-
T Consensus 6 vIvGri~l~gkp~v~Pdr 23 (26)
T 2o8m_C 6 VIVGRIVLSGKPAIIPKK 23 (26)
T ss_dssp EEEEEEECSCCCEECCCC
T ss_pred EEEEEEEECCceEEcCCc
Confidence 489999999999999983
No 39
>3eea_A GAF domain/HD domain protein; structural genomics, PSI, MCSG, protein structure initiative, midwest center for structural genomics; HET: PG6; 1.80A {Geobacter sulfurreducens}
Probab=79.87 E-value=3.6 Score=27.48 Aligned_cols=36 Identities=17% Similarity=0.300 Sum_probs=30.8
Q ss_pred HHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccC
Q psy680 7 IARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRR 42 (122)
Q Consensus 7 l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~ 42 (122)
++.-.|.++++..+-..++...+|.+..+|++|+++
T Consensus 8 ~~~l~~vd~~~~~l~rll~k~~~~~w~~vy~~drer 43 (162)
T 3eea_A 8 LSGLTDVDEVIKDLSRLLRKLVKTRWIAVYFFDRER 43 (162)
T ss_dssp GGGGCCHHHHHHHHHHHHHHHSCCSEEEEEEECC--
T ss_pred HhccccHHHHHHHHHHHHHHHhCCceEEEEEeehhh
Confidence 444569999999999999999999999999999875
No 40
>4eu0_A PELD; C-DI-GMP, signaling protein; HET: C2E; 1.70A {Pseudomonas aeruginosa} PDB: 4euv_A* 4etz_A* 4etx_A 4dmz_A 4dn0_A*
Probab=79.60 E-value=1.1 Score=33.30 Aligned_cols=68 Identities=15% Similarity=0.150 Sum_probs=47.8
Q ss_pred HHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCeEeccC
Q psy680 13 LKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGETVNLQK 92 (122)
Q Consensus 13 l~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~pi~i~D 92 (122)
+..+...+++.+.++.+.+.++||.++....-..+-.+.. | ....+..+.++++++.++++++.|.+
T Consensus 24 l~~~a~~lL~llaq~~~l~~Aaly~~~~~~~~~~~p~A~i-----G--------~~~~l~~~DpLVr~alet~~l~~v~~ 90 (298)
T 4eu0_A 24 LDALAETVLALLAQYGSLRIAGLYRVRYDRTPEPQPLATL-----G--------EMPALDADDLLVRTCLERGELVSVRQ 90 (298)
T ss_dssp HHHTHHHHHHHHHHHHTCSEEEEEEBCTTSCBCSSCSEEE-----S--------SCCCCCSCCHHHHHHHHHTSCEECCC
T ss_pred ChHHHHHHHHHHHHhcCeeEEEEEEEECCcccCCceeeec-----C--------CCCCCCCCCHHHHHHHHhCCceeech
Confidence 5566888999999999999999999976420001111111 1 11245678899999999999999988
Q ss_pred C
Q psy680 93 K 93 (122)
Q Consensus 93 v 93 (122)
.
T Consensus 91 ~ 91 (298)
T 4eu0_A 91 E 91 (298)
T ss_dssp -
T ss_pred h
Confidence 5
No 41
>3e98_A GAF domain of unknown function; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: MSE; 2.43A {Pseudomonas aeruginosa}
Probab=67.90 E-value=11 Score=27.01 Aligned_cols=39 Identities=15% Similarity=0.203 Sum_probs=34.4
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
+...|.+..|+++++..+...+++.++.+.++|.|+++.
T Consensus 108 l~l~LL~a~sl~~l~~~L~~~l~~~F~l~~v~L~L~~~~ 146 (252)
T 3e98_A 108 LVLDLLDATSLEDVVSTVEDSLRHEFQVPYVSLILFSDS 146 (252)
T ss_dssp HHHHHHHCCSHHHHHHHHHHHHHHTSCCSEEEEEEECSS
T ss_pred HHHHHhcCCCHHHHHHHHHHHHHHHCCCCeEEEEEecCc
Confidence 455667778999999999999999999999999999864
No 42
>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=51.87 E-value=8.1 Score=30.66 Aligned_cols=38 Identities=24% Similarity=0.307 Sum_probs=31.4
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEec
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVER 40 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~ 40 (122)
+...|.+..|+.+.+......+.++++||++.||.-+.
T Consensus 325 l~~~l~~~~~~~~~l~~~~~~l~~ll~adg~al~~~~~ 362 (505)
T 3nhq_A 325 LARRARDADDLFGALAHPDDGIAALIPCDGALVMLGGR 362 (505)
T ss_dssp HHHHHHHHCCHHHHHHCTTTSHHHHTTCSEEEEEETTE
T ss_pred HHHHHhhcCCHHHHHHHhhHHHHHHhCCCeEEEEECCe
Confidence 45556667789999998899999999999999987654
No 43
>2o0y_A Transcriptional regulator; ICLR-family, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.00A {Rhodococcus SP}
Probab=47.91 E-value=35 Score=24.01 Aligned_cols=79 Identities=13% Similarity=0.066 Sum_probs=49.2
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-.+...+|..+.+.++. .+.+.+++... .++........ .+.-......++|+..+-+|.+
T Consensus 84 ~lg~~~~~~~~l~~~a~p~l~~L~~~~~e-tv~L~v~~~~~----~v~l~~~~~~~--~~~~~~~~G~r~pl~~tA~Gka 156 (260)
T 2o0y_A 84 RWVRLAGRTWAPPEEVVDIMRQLSADTGE-TVNLYIRQGLS----RVVVAQCESTA--TVRSVIPLGVPYPLWAGAAGKI 156 (260)
T ss_dssp HHHHHHHHHHCCCHHHHHHHHHHHHHHTS-EEEEEEEETTE----EEEEEEECCSC--SSCCCCCTTCCEESSSSHHHHH
T ss_pred HHHHHHHccCCHHHHHHHHHHHHHHhHCC-cEEEEEEECCE----EEEEEEEecCC--ccEEeCCCccccCCcCCHHHHH
Confidence 34555556678888999999999999885 77777777532 23322222111 1110123345778888888888
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
.....|
T Consensus 157 lLA~~~ 162 (260)
T 2o0y_A 157 LLLAAP 162 (260)
T ss_dssp HGGGCG
T ss_pred HHhCCH
Confidence 877665
No 44
>3r4k_A Transcriptional regulator, ICLR family; DNA/RNA-binding 3-helical bundle, profilin-like, structural joint center for structural genomics, JCSG; 2.46A {Ruegeria SP}
Probab=46.25 E-value=51 Score=23.15 Aligned_cols=80 Identities=8% Similarity=-0.035 Sum_probs=50.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-++...+|..+.+.++. .+.+.+++... .++....... ...+.-......++|+..+-+|.+
T Consensus 68 ~lg~~~~~~~~l~~~a~p~l~~L~~~~ge-tv~L~v~~g~~----~v~i~~~~~~-~~~~~~~~~vG~r~pl~~tA~Gka 141 (260)
T 3r4k_A 68 RLAALREASVPILSASRRVLRELSEDTGE-TTHLSLLQGEQ----LASLSHAYSS-RNATKVMMEDAEVLTFHGTASGLA 141 (260)
T ss_dssp HHHHHHHHHSCHHHHHHHHHHHHHHHHSS-EEEEEEEETTE----EEEEEEECCS-SCSEEECCCTTEEECTTTSHHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHhCC-eEEEEEEECCE----EEEEEEEecC-CCceEEEecCCceecCCCCHHHHH
Confidence 45566667789999999999999999985 77788887532 3333222210 111111123445778888888888
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
.....|
T Consensus 142 lLA~~~ 147 (260)
T 3r4k_A 142 VLAYSE 147 (260)
T ss_dssp HHTTSC
T ss_pred HHHCCC
Confidence 766554
No 45
>2ia2_A Putative transcriptional regulator; SAD, PSI-2, structural genomics, structure initiative, midwest center for structural genomic transcription; 2.10A {Rhodococcus SP}
Probab=45.78 E-value=41 Score=23.73 Aligned_cols=79 Identities=10% Similarity=0.131 Sum_probs=49.5
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-.+...+|..+.+.++. .+.+.+++.. ..++........ .+.-......++|+..+-+|.+
T Consensus 81 ~lg~~~~~~~~l~~~a~p~l~~L~~~~ge-tv~L~v~~g~----~~v~l~~~~~~~--~~~~~~~vG~r~pl~~tA~Gka 153 (265)
T 2ia2_A 81 ELGYSYLSSLSLPEVAQPHLEKLSHKVHE-SSSVSILDGA----DIVYVARVPVSR--IMTVGITIGTRLPAYATSMGRV 153 (265)
T ss_dssp GTTHHHHTTCCHHHHHHHHHHHHHHHHTS-EEEEEEEETT----EEEEEEEECCCC--SEECCCCTTCEEEGGGSHHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHCC-EEEEEEEECC----EEEEEEEEcCCC--ceeeecCCCCeeecccCHHHHH
Confidence 45566667789999999999999999985 7777777753 223322211111 1110123344678877888888
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
.....|
T Consensus 154 lLA~~~ 159 (265)
T 2ia2_A 154 LLAGLP 159 (265)
T ss_dssp HHHTSC
T ss_pred HHhcCC
Confidence 777655
No 46
>3szt_A QCSR, quorum-sensing control repressor; quorum sensing acyl-homoserine lactone, helix-turn-helix, transcription factor, 3-OXO-C12 HSL; HET: OHN; 2.55A {Pseudomonas aeruginosa}
Probab=42.45 E-value=57 Score=22.45 Aligned_cols=39 Identities=5% Similarity=-0.211 Sum_probs=30.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
++...+.+..+.+++...+ ..+...+|++.+.+++..+.
T Consensus 7 ~~~~~l~~a~~~~~l~~~l-~~~~~~lGf~~~~y~~~~~~ 45 (237)
T 3szt_A 7 GYLEILSRITTEEEFFSLV-LEICGNYGFEFFSFGARAPF 45 (237)
T ss_dssp SHHHHHHHCCSHHHHHHHH-HHHHHHTTCSEEEEEEECCC
T ss_pred HHHHHHHcCCCHHHHHHHH-HHHHHHcCCCeEEEEeecCC
Confidence 4667777777777777766 88888899999999888763
No 47
>1mkm_A ICLR transcriptional regulator; structural genomics, winged helix-turn-helix, PSI, protein structure initiative; 2.20A {Thermotoga maritima} SCOP: a.4.5.33 d.110.2.2
Probab=41.48 E-value=51 Score=22.92 Aligned_cols=78 Identities=5% Similarity=0.009 Sum_probs=47.8
Q ss_pred hHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeee
Q psy680 3 IVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVA 82 (122)
Q Consensus 3 i~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va 82 (122)
++.......++-++....|..+.+.++. .+.+.+++.. ..++........ .+.-......++|+..+-+|.+.
T Consensus 70 l~~~~~~~~~l~~~a~p~l~~L~~~~~e-tv~L~v~~~~----~~v~l~~~~~~~--~~~~~~~~G~~~pl~~tA~Gkal 142 (249)
T 1mkm_A 70 YGSFVLRRFNIRDIAHDHLVDIMKRTGE-TVHLILKDGF----EGVYIDKVEGEQ--SIPMVSRLGMKVDLYSTASGKSI 142 (249)
T ss_dssp HHHHHHHHCCHHHHHHHHHHHHHHTTCS-CEEEEEECSS----EEEEEEEECCTT--SCCCSCCSSCEEESSSSHHHHHH
T ss_pred HHHHHHhcCCHHHHHHHHHHHHHHHhCC-eEEEEEEECC----EEEEEEEEecCC--ceEEEcCCCCeecccccHHHHHH
Confidence 4555556678999999999999998885 6677777653 223322222111 11111233457788888888887
Q ss_pred ccCCe
Q psy680 83 VTGET 87 (122)
Q Consensus 83 ~tg~p 87 (122)
....|
T Consensus 143 LA~~~ 147 (249)
T 1mkm_A 143 LAFVP 147 (249)
T ss_dssp HHHSC
T ss_pred HhCCC
Confidence 66554
No 48
>1tf1_A Negative regulator of allantoin and glyoxylate utilization operons; midwest center for structural genomics, GLCR, ligand binding domain; 1.80A {Escherichia coli} SCOP: d.110.2.2
Probab=36.95 E-value=29 Score=23.29 Aligned_cols=74 Identities=8% Similarity=0.070 Sum_probs=45.0
Q ss_pred HHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCC
Q psy680 7 IARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGE 86 (122)
Q Consensus 7 l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~ 86 (122)
.....++-++....|+.+.+.++. -+.|.+++... .++........ .+.-......++|+..+-+|.+.....
T Consensus 19 ~~~~~~l~~~a~p~l~~La~~~ge-tv~L~v~~g~~----~v~l~~~~~~~--~~~~~~~vG~r~Pl~~tA~GkalLA~~ 91 (198)
T 1tf1_A 19 FQGHMDVLSVAGPFMRRLMLLSGE-TVNVAIRNGNE----AVLIGQLECKS--MVRMCAPLGSRLPLHASGAGKALLYPL 91 (198)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHCS-EEEEEEEETTE----EEEEEEECCSC--SEEECCCTTCEEETTTSHHHHHHHTTS
T ss_pred HHccCCHHHHHHHHHHHHHHHHCC-eEEEEEEECCE----EEEEEEEcCCC--ceeeecCCCCEeecccChHHHHHHhCC
Confidence 344557888888899999999885 77777777532 23322211111 111012334577888888888887765
Q ss_pred e
Q psy680 87 T 87 (122)
Q Consensus 87 p 87 (122)
|
T Consensus 92 ~ 92 (198)
T 1tf1_A 92 A 92 (198)
T ss_dssp C
T ss_pred C
Confidence 4
No 49
>3mq0_A Transcriptional repressor of the blcabc operon; helix-turn-helix, GAF fold, transcription repressor; 1.79A {Agrobacterium tumefaciens}
Probab=36.49 E-value=48 Score=23.61 Aligned_cols=79 Identities=11% Similarity=0.008 Sum_probs=48.6
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeee
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHV 81 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~V 81 (122)
+++.......++-++...+|..+.+.++. .+.+.+++.. ..++........ .+.-......++|+..+-+|.+
T Consensus 91 ~lg~~~~~~~~l~~~a~p~l~~L~~~~~e-tv~L~v~~g~----~~v~i~~~~~~~--~~~~~~~vG~r~Pl~~tA~Gka 163 (275)
T 3mq0_A 91 RWANGFLSHLDIVSTFNDHLAQRHDLDPY-TVTLTVREGG----EVVYIGCRNSAQ--PLGHTFRIGMRLPAPFTATGKI 163 (275)
T ss_dssp HHHHHHHHTCCHHHHHHHHHHTCGGGTTS-EEEEEEEETT----EEEEEEEEC--------CCCCTTCEEETTTSHHHHH
T ss_pred HHHHHHHhcCCHHHHHHHHHHHHHHHHCC-EEEEEEEECC----EEEEEEEEcCCC--ceeeecCCCceecCCCCHHHHH
Confidence 45566666778999999999999998875 6777777753 233322222111 1110123345778888888888
Q ss_pred eccCCe
Q psy680 82 AVTGET 87 (122)
Q Consensus 82 a~tg~p 87 (122)
.....|
T Consensus 164 lLA~~~ 169 (275)
T 3mq0_A 164 LLSDLG 169 (275)
T ss_dssp HHTTSC
T ss_pred HHhCCC
Confidence 777655
No 50
>3obf_A Putative transcriptional regulator, ICLR family; structural genomics, PSI-2, protein structure initiative; 2.16A {Arthrobacter aurescens}
Probab=32.65 E-value=71 Score=20.67 Aligned_cols=70 Identities=4% Similarity=-0.014 Sum_probs=43.2
Q ss_pred cCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCe
Q psy680 11 LDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 11 ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
.++-++..-.|+.+.+-++. .+.|.+++... .++........ .+.-......++|+..+-+|.+.....|
T Consensus 3 ~~l~~~a~p~l~~L~~~~~~-tv~L~v~~g~~----~v~i~~~~~~~--~~~~~~~vG~r~Pl~~tA~GkalLA~~~ 72 (176)
T 3obf_A 3 AEERRVAYPVLRELTERTGE-TSALMVWNGNE----SMCVEQIPSRH--QVKHLAPLGARYNEALSSSVQVFLASEN 72 (176)
T ss_dssp HHHHHHHHHHHHHHHHHHSS-CEEEEEECSSC----EEEEEEECCTT--CSSCCSCTTCEECBTTSHHHHHHHHTBC
T ss_pred CcHHHHHHHHHHHHHHHHCC-cEEEEEEECCE----EEEEEEecCCC--ceEEEcCCCceeecccCHHHHHHHhCCC
Confidence 46777888899999999986 66777777532 23332222111 1111133455778888888888776654
No 51
>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=32.31 E-value=45 Score=26.49 Aligned_cols=36 Identities=19% Similarity=0.247 Sum_probs=28.7
Q ss_pred HHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEe
Q psy680 4 VRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVE 39 (122)
Q Consensus 4 ~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d 39 (122)
...|....|+...+......+.++++|+++.||+-+
T Consensus 339 ~~~~~~~~~~~~~l~~~~~~ll~l~~adG~al~~~~ 374 (520)
T 3zq5_A 339 LDKMTTAADFVEGLTNHPDRLLGLTGSQGAAICFGE 374 (520)
T ss_dssp HHHHHHSSSHHHHHHTCHHHHHHTTTCSEEEEEETT
T ss_pred HHHHHcCcChhHHHHhccHHHHhhhcCCeEEEEECC
Confidence 344555668888888889999999999999988543
No 52
>3bjn_A Transcriptional regulator, putative; putative transcriptional regulator ICLR, ST genomics, PSI-2; HET: MSE; 1.65A {Vibrio cholerae o1 biovar eltor str}
Probab=28.10 E-value=1.2e+02 Score=19.41 Aligned_cols=73 Identities=10% Similarity=-0.028 Sum_probs=44.6
Q ss_pred HhccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCe
Q psy680 8 ARDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 8 ~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
....++-++...+|+.+.+.++. -+.+.+++.. ..++........ .+.-......++|+..+-+|.+.....|
T Consensus 6 ~~~~~l~~~a~p~l~~L~~~~~e-tv~L~v~~g~----~~v~l~~~~~~~--~~~~~~~~G~r~pl~~tA~GkalLA~~~ 78 (165)
T 3bjn_A 6 ETSQHNLDAVEAVLSRLQKQTGE-MAAYMVPVGY----RALCVSQRESMQ--ALRCSFVQGQSQPLLRGASSKVMLAYMP 78 (165)
T ss_dssp TTTSTTHHHHHHHHHHHHHHHSS-EEEEEEEETT----EEEEEEECCCSS--CCCCSCCTTCEEETTSHHHHHHHHHHSC
T ss_pred hcCCCHHHHHHHHHHHHHHHHCC-cEEEEEEECC----EEEEEEEeecCC--cceEEeCCCcEecCCCChHHHHHHhCCC
Confidence 34568888999999999999886 6777777753 223322222111 1111123345778888888887766544
No 53
>3qp6_A CVIR transcriptional regulator; quorum sensing, agonist, antagonist, LUXR, acylated homoseri lactone, transcription factor; HET: HL6; 2.00A {Chromobacterium violaceum} PDB: 3qp5_A*
Probab=27.79 E-value=55 Score=23.08 Aligned_cols=39 Identities=13% Similarity=0.009 Sum_probs=28.9
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
++...+.+..+.+++. .++..+...+|++.+.+.+..+.
T Consensus 26 ~~l~~l~~a~~~~~l~-~~l~~~~~~lGf~~~~y~~~~~~ 64 (265)
T 3qp6_A 26 EWIHMAGHIETEGELK-AFLDNILSQAPSDRIILVLGRLN 64 (265)
T ss_dssp HHHHHHTTCCSHHHHH-HHHHHHTCSSTTCEEEEEEEEEC
T ss_pred HHHHHHhcCCCHHHHH-HHHHHHHHHcCCCEEEEEeecCC
Confidence 3455566666766666 77888999999999998777553
No 54
>3ix3_A Transcriptional activator protein LASR; quorum sensing receptor, triphenyl mimics, DNA- binding, quorum sensing; HET: OHN; 1.40A {Pseudomonas aeruginosa} PDB: 3ix4_A* 3ix8_A* 3jpu_A* 2uv0_E*
Probab=27.34 E-value=81 Score=20.27 Aligned_cols=39 Identities=8% Similarity=0.005 Sum_probs=25.8
Q ss_pred hhHHHHHhccCHHHHHHHHHHHHHHHhcCCeEEEEEEecc
Q psy680 2 AIVRDIARDLDLKSLSKKTVDNVSVLLDADGASLFFVERR 41 (122)
Q Consensus 2 ei~~~l~~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~ 41 (122)
++...|.+..+.+++. .++..+...+|.+++++.+....
T Consensus 5 ~~~~~l~~a~s~~~l~-~~l~~~~~~~Gf~~~~y~~~~~~ 43 (173)
T 3ix3_A 5 DGFLELERSSGKLEWS-AILQKMASDLGFSKILFGLLPKD 43 (173)
T ss_dssp --CHHHHHCCHHHHHH-HHHHHHHHHTTCSEEEEEEECTT
T ss_pred HHHHHHHcCCCHHHHH-HHHHHHHHHCCCCeEEEEeecCC
Confidence 4556666665665555 45566667789999998887653
No 55
>1ysq_A HTH-type transcriptional regulator YIAJ; YAIJ, ICLR, structural genomics, protein structure initiative, midwest center for structural genomics; 1.75A {Escherichia coli}
Probab=25.97 E-value=1.1e+02 Score=20.14 Aligned_cols=73 Identities=8% Similarity=0.111 Sum_probs=43.4
Q ss_pred hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCe
Q psy680 9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
+..++-++....|..+.+.++. -+.|.+++.. ..++......... .+.-......++|+..+-+|.+.....|
T Consensus 6 ~~~~l~~~a~p~l~~L~~~t~e-tv~L~v~~g~----~~v~l~~~~~~~~-~~~~~~~vG~r~Pl~~tA~GkalLA~~~ 78 (193)
T 1ysq_A 6 SSLNIIHIAAPHLEALNIATGE-TINFSSREDD----HAILIYKLEPTTG-MLRTRAYIGQHMPLYCSAMGKIYMAFGH 78 (193)
T ss_dssp -CHHHHHHHHHHHHHHHHHHCS-EEEEEEEETT----EEEEEEEECCSSC-CCCCSCCTTCEEEGGGCHHHHHHHHTSC
T ss_pred ccCCHHHHHHHHHHHHHHHHCC-eEEEEEEECC----EEEEEEEEcCCCC-eeEEecCCcccccccccHHHHHHHhCCC
Confidence 4457888888899999999886 7777777753 2333322221111 0111123345778877888888776554
No 56
>2xrn_A HTH-type transcriptional regulator TTGV; DNA-binding protein, tetramer gene regulator, cooperative DN binding, multidrug binding protein; 2.90A {Pseudomonas putida} PDB: 2xro_A
Probab=24.75 E-value=1.2e+02 Score=20.92 Aligned_cols=72 Identities=21% Similarity=0.145 Sum_probs=42.6
Q ss_pred hccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCe
Q psy680 9 RDLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 9 ~~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
...++-.+...+|..+.+.++. .+.+.+++.. ..++........ .+.-......++|+..+-+|.+...-.|
T Consensus 73 ~~~~l~~~a~p~l~~L~~~tge-tv~L~v~~g~----~~v~i~~~~~~~--~~~~~~~vG~r~Pl~~tA~GkalLA~~~ 144 (241)
T 2xrn_A 73 AQTDILSLVKPYLRSLAEELDE-SVSLASLAGD----KIYVLDRIVSER--ELRVVFPIGINVPAAATAAGKVLLAALP 144 (241)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTS-EEEEEEEETT----EEEEEEEECCCS--SSCCCCCTTCEEEGGGSHHHHHHHHHSC
T ss_pred cccCHHHHHHHHHHHHHHHHCC-eEEEEEEECC----EEEEEEEecCCC--cceEecCCCccccCcccHHHHHHHhcCC
Confidence 4457778888889999998885 7777887753 233332222111 1110123344677777777877765444
No 57
>2g7u_A Transcriptional regulator; ICLR family, structural genomics, PSI, protein structure initiative, midwest center for struc genomics; 2.30A {Rhodococcus SP}
Probab=21.53 E-value=42 Score=23.48 Aligned_cols=71 Identities=11% Similarity=0.039 Sum_probs=42.0
Q ss_pred ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCe
Q psy680 10 DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 10 ~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
..++-++....|..+.+.++. .+.+.+++... .++........ .+.-......++|+..+-+|.+.....|
T Consensus 82 ~~~l~~~a~p~l~~L~~~~~e-tv~L~v~~g~~----~v~i~~~~~~~--~~~~~~~~G~r~pl~~tA~GkalLA~~~ 152 (257)
T 2g7u_A 82 SHALIEAAMPRLLEVAEKTQE-SASLGVLDGAD----VVYAARVPVRR--IMSINVSVGTRVPAYATSMGRALLAWAP 152 (257)
T ss_dssp HHHHHHHHHHHHHHHHHHHSS-CEEEEEEETTE----EEEEEEECCCC--SEEECCCTTCEEEGGGSHHHHHHHTTSC
T ss_pred cCcHHHHHHHHHHHHHHHHCC-EEEEEEEECCE----EEEEEEEccCC--ceeEecCCCceeecccChHHHHHHhCCC
Confidence 346777888889999998885 67777777532 23322211111 1110122344677777888888777655
No 58
>3d3o_A Putative transcriptional regulator, ICIR family; alpha-beta structure, effector domain, structural genomics, protein structure initiative; HET: MSE; 2.46A {Acinetobacter SP}
Probab=20.98 E-value=80 Score=20.54 Aligned_cols=71 Identities=6% Similarity=0.013 Sum_probs=39.7
Q ss_pred ccCHHHHHHHHHHHHHHHhcCCeEEEEEEeccCCCceeEEeeeeccccCCCcccCCCceeeeeCCCceeeeeeccCCe
Q psy680 10 DLDLKSLSKKTVDNVSVLLDADGASLFFVERRRGGKKCLVSKVFDLHSGAGLVYSTADEVEVPWGVGILGHVAVTGET 87 (122)
Q Consensus 10 ~ldl~~ll~~il~~~~~~l~~er~si~l~d~~~~~~~~l~~~~f~~~~~~~~~~~~~~~i~~~~g~GI~G~Va~tg~p 87 (122)
.+|..++...+|..+.+-++. -+.|.+++.. ..++........ .+.-......++|+..+-.|.+.....|
T Consensus 3 ~~~~~~~a~p~l~~La~~tge-tv~L~v~~g~----~~v~v~~~~~~~--~~~~~~~vG~r~Pl~~tA~GkalLA~~~ 73 (178)
T 3d3o_A 3 ALFSSRDILEVLQDIHMETGE-TVAIATKNDI----YLQYIQIIESVH--ALRFHVDENAIRPLTMSSNGWMLMSTMN 73 (178)
T ss_dssp HHHHHHHHHHHHHHHHHHHCS-EEEEEEEETT----EEEEEEEECCCS--SSEECCCTTCCCBGGGSHHHHHHHTTSC
T ss_pred ccchhHHHHHHHHHHHHHHCC-EEEEEEEECC----EEEEEEEeccCC--ceeEEcCCCCEeeccccHHHHHHHcCCC
Confidence 356777888899999999886 6777777753 233322211111 1100022233556666667777655443
Done!