Query psy678
Match_columns 60
No_of_seqs 97 out of 99
Neff 5.4
Searched_HMMs 29240
Date Fri Aug 16 18:12:22 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy678.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/678hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 2zmf_A CAMP and CAMP-inhibited 99.0 3.4E-10 1.2E-14 67.5 4.4 54 6-59 5-58 (189)
2 2e4s_A CAMP and CAMP-inhibited 98.5 8.5E-08 2.9E-12 57.3 4.4 55 5-59 4-58 (189)
3 3dba_A CONE CGMP-specific 3',5 98.4 9.8E-08 3.4E-12 59.0 2.3 48 11-58 4-51 (180)
4 3k2n_A Sigma-54-dependent tran 97.7 4.4E-05 1.5E-09 45.0 4.5 49 10-59 2-50 (177)
5 3cit_A Sensor histidine kinase 97.7 8.9E-05 3.1E-09 47.8 5.9 49 9-59 10-58 (160)
6 2lb5_A Sensor histidine kinase 97.7 1.7E-05 5.9E-10 48.9 2.4 51 8-59 10-60 (208)
7 1ykd_A Adenylate cyclase; GAF 97.6 0.00011 3.8E-09 49.2 5.8 53 7-59 192-244 (398)
8 1mc0_A 3',5'-cyclic nucleotide 97.6 0.00015 5.2E-09 47.7 6.2 51 7-57 174-224 (368)
9 3ibj_A CGMP-dependent 3',5'-cy 97.6 5.7E-05 2E-09 55.3 4.2 51 7-57 174-224 (691)
10 3p01_A Two-component response 97.6 0.00016 5.5E-09 43.7 5.5 51 6-57 22-72 (184)
11 3oov_A Methyl-accepting chemot 97.4 0.00014 4.7E-09 42.1 3.2 45 14-59 2-46 (169)
12 3bjc_A CGMP-specific 3',5'-cyc 97.3 3.2E-05 1.1E-09 58.5 0.0 53 6-58 326-378 (878)
13 3ibj_A CGMP-dependent 3',5'-cy 97.3 0.00012 4.2E-09 53.5 3.0 50 8-59 9-58 (691)
14 3trc_A Phosphoenolpyruvate-pro 97.3 0.00053 1.8E-08 39.7 4.9 47 12-59 6-52 (171)
15 3ci6_A Phosphoenolpyruvate-pro 97.3 0.0006 2.1E-08 38.8 5.0 48 10-58 6-53 (171)
16 1mc0_A 3',5'-cyclic nucleotide 97.2 0.00037 1.3E-08 45.8 3.8 46 12-59 12-57 (368)
17 3e0y_A Conserved domain protei 97.0 0.00023 7.8E-09 41.5 1.3 47 11-58 12-58 (181)
18 2k2n_A Sensor protein, SYB-CPH 96.9 0.00055 1.9E-08 41.1 2.5 30 30-59 1-30 (172)
19 3bjc_A CGMP-specific 3',5'-cyc 96.6 0.00032 1.1E-08 53.1 0.0 51 7-58 146-196 (878)
20 4glq_A Methyl-accepting chemot 96.6 0.0016 5.3E-08 40.4 3.1 38 21-59 4-41 (171)
21 2qyb_A Membrane protein, putat 96.6 0.0017 5.8E-08 38.3 3.1 45 13-58 2-46 (181)
22 3hcy_A Putative two-component 96.3 0.0024 8.2E-08 36.7 2.4 31 28-58 2-32 (151)
23 1ykd_A Adenylate cyclase; GAF 96.1 0.011 3.8E-07 39.3 5.2 44 14-59 9-56 (398)
24 3mmh_A FRMSR, methionine-R-sul 95.7 0.029 9.9E-07 35.1 5.5 45 15-59 17-61 (167)
25 2w3g_A DOSS, two component sen 95.5 0.009 3.1E-07 33.6 2.6 31 28-58 5-35 (153)
26 2vjw_A GAF-B, GAF family prote 95.4 0.0094 3.2E-07 35.7 2.4 30 29-58 1-30 (149)
27 3o5y_A Sensor protein; GAF dom 94.0 0.035 1.2E-06 34.1 2.6 30 29-58 5-34 (165)
28 2ool_A Sensor protein; bacteri 93.4 0.16 5.4E-06 35.4 5.3 46 13-59 146-191 (337)
29 1f5m_A GAF; CGMP binding, sign 93.3 0.24 8.2E-06 30.8 5.7 47 12-58 24-75 (180)
30 1vhm_A Protein YEBR; structura 92.9 0.15 5.3E-06 32.6 4.3 44 13-57 28-72 (195)
31 3s7o_A Bacteriophytochrome; bi 92.0 0.29 9.9E-06 34.5 5.2 45 14-59 152-196 (343)
32 4e04_A Bacteriophytochrome (li 91.9 0.27 9.2E-06 34.4 4.9 43 16-59 136-178 (327)
33 3nhq_A Bacteriophytochrome; ph 91.9 0.31 1.1E-05 35.7 5.4 45 14-59 125-169 (505)
34 3zq5_A Phytochrome-like protei 90.3 0.45 1.5E-05 35.0 5.0 43 16-59 140-182 (520)
35 3ksh_A Putative uncharacterize 88.4 0.6 2E-05 29.2 3.9 45 14-58 16-61 (160)
36 4eho_A Bacteriophytochrome, PA 88.0 0.36 1.2E-05 35.4 3.0 33 27-59 144-176 (635)
37 3rfb_A Putative uncharacterize 85.3 2.1 7.3E-05 27.0 5.2 45 14-58 17-62 (171)
38 3eea_A GAF domain/HD domain pr 58.4 8.3 0.00028 24.8 2.8 33 26-58 10-42 (162)
39 3nhq_A Bacteriophytochrome; ph 49.5 13 0.00044 27.1 3.0 47 9-56 315-361 (505)
40 3gdw_A Sigma-54 interaction do 42.7 50 0.0017 19.8 4.5 44 14-57 18-72 (139)
41 3lfh_A Manxa, phosphotransfera 37.2 67 0.0023 19.2 4.9 45 14-58 16-71 (144)
42 2q97_T Toxofilin, actin, alpha 22.8 73 0.0025 19.5 2.8 21 8-28 90-111 (129)
43 3gx1_A LIN1832 protein; APC633 21.3 1.3E+02 0.0046 17.5 4.3 43 14-57 18-70 (130)
44 2k3r_A Ribonuclease P protein 20.5 1.4E+02 0.0049 17.5 4.2 51 6-56 11-72 (123)
No 1
>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=99.01 E-value=3.4e-10 Score=67.51 Aligned_cols=54 Identities=24% Similarity=0.371 Sum_probs=48.1
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 6 SLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 6 ~~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
..-+.++|+.|+++++.++.+..++|.++..|+..+..+++|+||+||++|++.
T Consensus 5 ~~~~~e~~~~Ll~~~~~i~~~~~dld~ll~~i~~~~~~~l~ad~~~i~l~d~~~ 58 (189)
T 2zmf_A 5 SSGQTELNDFLLDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKN 58 (189)
T ss_dssp ---CHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHTEEEEEEEEEETTT
T ss_pred hHHHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHHHHHHhCCCEEEEEEEecCC
Confidence 345677899999999999999999999999999999999999999999999764
No 2
>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=98.55 E-value=8.5e-08 Score=57.30 Aligned_cols=55 Identities=24% Similarity=0.358 Sum_probs=48.0
Q ss_pred HhHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 5 QSLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 5 ~~~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
....+.++++.|+++++.+..+..+++.++..++..+..+++|++|+++++|++.
T Consensus 4 ~l~~~~~~~~~L~~~~~~l~~~~~d~~~~l~~i~~~~~~~~~a~~~~i~l~d~~~ 58 (189)
T 2e4s_A 4 GSSGQTELNDFLLDVSKTYFDNIVAIDSLLEHIMIYAKNLVNADRCALFQVDHKN 58 (189)
T ss_dssp ----CHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHTEEEEEEEEEETTT
T ss_pred chHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHhCCCeEEEEEEECCC
Confidence 3456789999999999999999878999999999999999999999999999753
No 3
>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=98.41 E-value=9.8e-08 Score=58.98 Aligned_cols=48 Identities=25% Similarity=0.469 Sum_probs=44.7
Q ss_pred HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 11 ENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 11 ~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
+.++.|+++++.|..++++++.++.+|+..+..+++|+||++||+|++
T Consensus 4 ~el~~L~eis~~l~~~~~dl~~ll~~il~~~~~~~~a~~~~i~L~d~~ 51 (180)
T 3dba_A 4 EECNILFELLTEIQDEAGSMEKIVHKTLQRLSQLLAADRCSMFICRSR 51 (180)
T ss_dssp HHHHHHHHHHTTSCSSSSHHHHHHHHHHHHHHHHHTEEEEEEEEEEEE
T ss_pred HHHHHHHHHHHHHHHhhhcHHHHHHHHHHHHHHHhCcceEEEEEEeCC
Confidence 467899999999999996799999999999999999999999999974
No 4
>3k2n_A Sigma-54-dependent transcriptional regulator; PSI-2, protein structure initiative, structural genomics; 2.50A {Chlorobium tepidum tls}
Probab=97.73 E-value=4.4e-05 Score=44.96 Aligned_cols=49 Identities=8% Similarity=0.129 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 10 CENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 10 ~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+...+.|.++++.|-...+ ++.++..++..+..+++|++|+++++|++.
T Consensus 2 n~~l~ll~~i~~~l~~~~d-~~~~l~~i~~~~~~~~~~~~~~i~l~d~~~ 50 (177)
T 3k2n_A 2 NAALKLMQYIGDAIGTIRD-PQELFRTVTDKLRLLFAFDSAVIITIDRER 50 (177)
T ss_dssp HHHHHHHHHHHHHHTTCCS-HHHHHHHHHHHHTTTCCCSEEEEEEEETTT
T ss_pred hHHHHHHHHHHHHHhcccC-HHHHHHHHHHHHHHhcCCCeEEEEEEcCCC
Confidence 3556789999999998766 999999999999999999999999999764
No 5
>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=97.70 E-value=8.9e-05 Score=47.79 Aligned_cols=49 Identities=14% Similarity=0.199 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 9 KCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 9 e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
...|-..|++..+.| .++. .+.++..|+..++.+++||||+||+.|.++
T Consensus 10 ra~rLrlL~e~~~~L-~~l~-~~~~l~~il~~a~~~~~~d~gsL~l~d~~~ 58 (160)
T 3cit_A 10 RAARLRLLVDTGQEL-IQLP-PEAMRKCVLQRACAFVAMDHGLLLEWGADN 58 (160)
T ss_dssp HHHHHHHHHHHHHHH-HHSC-HHHHHHHHHHHHHHHTTCSEEEEEECC--C
T ss_pred HHHHHHHHHHHHHHH-hcCC-HHHHHHHHHHHHHHHhccCeeEEEEEcCCC
Confidence 445778899999999 6666 599999999999999999999999999753
No 6
>2lb5_A Sensor histidine kinase; PCB, transferase, GAF domain, phosphoprotein; HET: CYC; NMR {Synechococcus SP} PDB: 2lb9_A*
Probab=97.70 E-value=1.7e-05 Score=48.93 Aligned_cols=51 Identities=12% Similarity=0.260 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 8 LKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 8 ~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
.+.++.+.|.++++.|-...+ ++.++..++..++.+++|+||+++++|++.
T Consensus 10 ~~~~~~~~L~~i~~~i~~~~d-l~~il~~~~~~l~~~l~~dr~~i~~~d~~~ 60 (208)
T 2lb5_A 10 ARPSRDALINRITHQIRQSLE-LDQILRATVEEVRAFLGTDRVKVYRFDPEG 60 (208)
T ss_dssp ----------------------CHHHHHHHHHHHHHHHCCSEEEEEECCTTS
T ss_pred hHHHHHHHHHHHHHHHHHcCC-HHHHHHHHHHHHHHHHCCCEEEEEEEcCCC
Confidence 345566789999998887665 999999999999999999999999999753
No 7
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP}
Probab=97.64 E-value=0.00011 Score=49.15 Aligned_cols=53 Identities=23% Similarity=0.419 Sum_probs=46.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 7 LLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 7 ~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
..+.++.+.|+++++.+.....+++.++..++..+..+++|++|+++++|+++
T Consensus 192 ~~~~~~l~~L~~~~~~l~~~~~dl~~~l~~i~~~~~~~~~~~~~~i~l~d~~~ 244 (398)
T 1ykd_A 192 TQKQRAAAAMMKAVKSLSQSSLDLEDTLKRVMDEAKELMNADRSTLWLIDRDR 244 (398)
T ss_dssp HHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHTTEEEEEEEEEETTT
T ss_pred HHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHhCcCeEEEEEEECCC
Confidence 34566778899999999995556999999999999999999999999999763
No 8
>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=97.62 E-value=0.00015 Score=47.66 Aligned_cols=51 Identities=24% Similarity=0.370 Sum_probs=45.9
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccC
Q psy678 7 LLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57 (60)
Q Consensus 7 ~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~ 57 (60)
+...++.+.|.++++.+.....+++.++..++..+..+++|++|+++++|+
T Consensus 174 ~~~~~~l~~l~~i~~~l~~~~~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~ 224 (368)
T 1mc0_A 174 QKLKCECQALLQVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQ 224 (368)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHTEEEEEEEEECS
T ss_pred HHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHhcccEEEEEEEeC
Confidence 344566789999999999987789999999999999999999999999986
No 9
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens}
Probab=97.59 E-value=5.7e-05 Score=55.29 Aligned_cols=51 Identities=24% Similarity=0.370 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccC
Q psy678 7 LLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57 (60)
Q Consensus 7 ~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~ 57 (60)
..+.++.+.|+++++.++++..+++.++..++..+..+++|++|+|+++|.
T Consensus 174 ~~~~~~l~~L~ei~~~l~~~~~dl~~ll~~i~~~~~~~l~ad~~~i~L~d~ 224 (691)
T 3ibj_A 174 QKLKCECQALLQVAKNLFTHLDDVSVLLQEIITEARNLSNAEICSVFLLDQ 224 (691)
T ss_dssp HHHHHHHHHHHHHHHHHTTCCSCTTTHHHHHHHHHHHHHTEEEEEEEEECS
T ss_pred HHHHHHHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHhCCCeEEEEEEeC
Confidence 345678899999999999988889999999999999999999999999986
No 10
>3p01_A Two-component response regulator; PSI-2, midwest center for structural genomics, protein struc initiative, MCSG, signali protein; 2.65A {Nostoc SP}
Probab=97.57 E-value=0.00016 Score=43.70 Aligned_cols=51 Identities=10% Similarity=0.082 Sum_probs=43.3
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccC
Q psy678 6 SLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57 (60)
Q Consensus 6 ~~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~ 57 (60)
...+.++.+.|.++++.+-... +++.++..++..+..+++|+||++++++.
T Consensus 22 l~~~~~~~~~L~~is~~l~~~~-dl~~il~~i~~~l~~~l~~d~~~i~l~~~ 72 (184)
T 3p01_A 22 LRRANAQMSLLTVLVQVTQASN-SLEAILTPIATAFAESFAVNACILQMLEG 72 (184)
T ss_dssp HHHHHHHHHHHHHHHHHHHHCS-SSHHHHHHHHHHHHHHHTCSEEEEEEEET
T ss_pred HHHHHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhCCCeEEEEEecC
Confidence 3455667788889998887765 59999999999999999999999999864
No 11
>3oov_A Methyl-accepting chemotaxis protein, putative; structural genomics, PSI-2, protein structure initiative; 2.20A {Geobacter sulfurreducens}
Probab=97.37 E-value=0.00014 Score=42.14 Aligned_cols=45 Identities=11% Similarity=0.259 Sum_probs=36.6
Q ss_pred HHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 14 AKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 14 q~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+.|.++++.+... .+++.++..++..+..+++|+||+++++|++.
T Consensus 2 ~~L~~i~~~l~~~-~~~~~~l~~~~~~~~~~~~~~~~~i~l~d~~~ 46 (169)
T 3oov_A 2 NAFHQISSRIQKS-IDVDEVLRLCAEGLHDVLGYERVNILMADTAR 46 (169)
T ss_dssp ----CHHHHHHHC-CCHHHHHHHHHHHHHHTTCCSEEEEEEECTTS
T ss_pred chHHHHHHHHhhh-cCHHHHHHHHHHHHHHhhCCceEEEEEEeCCC
Confidence 4577788888776 45999999999999999999999999999753
No 12
>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=97.32 E-value=3.2e-05 Score=58.52 Aligned_cols=53 Identities=30% Similarity=0.520 Sum_probs=0.0
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 6 SLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 6 ~~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
...+.++++.|+++++.|+.+..+++.++..|+..+..+++|++|+||++|++
T Consensus 326 ~~~~~~~~~~L~~ls~~L~~~s~dl~~ll~~I~~~a~~ll~a~~~~V~L~d~~ 378 (878)
T 3bjc_A 326 SLLENKRNQVLLDLASLIFEEQQSLEVILKKIAATIISFMQVQKCTIFIVDED 378 (878)
T ss_dssp -----------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHhhhccccHHHHHHHHHHHHHHHhCcceeEEEEEcCc
Confidence 45567788999999999999988899999999999999999999999999864
No 13
>3ibj_A CGMP-dependent 3',5'-cyclic phosphodiesterase; PDE2A, GAF-domains, allosteric regulation hydrolase, membrane; 3.02A {Homo sapiens}
Probab=97.32 E-value=0.00012 Score=53.54 Aligned_cols=50 Identities=18% Similarity=0.376 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 8 LKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 8 ~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
.+.+|...|+++++.|. ++ +++.++.+|+..+..+++|+||++|++|+++
T Consensus 9 ~~~e~~~~L~~i~~~ls-~l-dl~~ll~~il~~l~~~l~ad~~~i~L~d~~~ 58 (691)
T 3ibj_A 9 AYTDRDRKILQLCGELY-DL-DASSLQLKVLQYLQQETRASRCCLLLVSEDN 58 (691)
T ss_dssp -CTTHHHHHHHHHHHCC-CS-SHHHHHHHHHHHHHHHTTBSCEEEEEECTTS
T ss_pred ChHHHHHHHHHHHHHHH-hc-cHHHHHHHHHHHHHHHhCCCEEEEEEEECCC
Confidence 45577788999999999 44 5999999999999999999999999999764
No 14
>3trc_A Phosphoenolpyruvate-protein phosphotransferase; signal transduction; HET: MSE; 1.65A {Coxiella burnetii}
Probab=97.27 E-value=0.00053 Score=39.67 Aligned_cols=47 Identities=13% Similarity=0.241 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 12 NAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 12 rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
.-+.|.++++.+-...+ ++.++..++..+..+++|++|+++++|++.
T Consensus 6 ~L~~L~~i~~~l~~~~~-~~~~l~~~~~~~~~~~~~~~~~i~l~d~~~ 52 (171)
T 3trc_A 6 MLKILRQITQEVNAAPN-LEQALKLVVVRLCEALPADACSLFICDDVH 52 (171)
T ss_dssp HHHHHHHHHHHHHHCSS-HHHHHHHHHHHHHHHTTCSEEEEEEEETTT
T ss_pred HHHHHHHHHHHHhcccC-HHHHHHHHHHHHHHHhCCcEEEEEEEECCC
Confidence 34678889988887655 999999999999999999999999999754
No 15
>3ci6_A Phosphoenolpyruvate-protein phosphotransferase; PEP-phosphotransferase, GAF domain, structura genomics, PSI-2, protein structure initiative; HET: MSE P4G; 1.55A {Acinetobacter SP}
Probab=97.26 E-value=0.0006 Score=38.80 Aligned_cols=48 Identities=15% Similarity=0.282 Sum_probs=42.1
Q ss_pred HHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 10 CENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 10 ~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
.++.+.|.++++.+-... +++.++..++..+..+++|++|.++++|++
T Consensus 6 ~~~l~~l~~~~~~l~~~~-~~~~~l~~~~~~~~~~~~~~~~~i~l~~~~ 53 (171)
T 3ci6_A 6 NMQLDTLRRIVQEINSSV-SLHDSLDIMVNQVADAMKVDVCSIYLLDER 53 (171)
T ss_dssp CHHHHHHHHHHHHHHTCS-SHHHHHHHHHHHHHHHHTCSEEEEEEEETT
T ss_pred HHHHHHHHHHHHHHhcCC-CHHHHHHHHHHHHHHHhCCCeEEEEEEeCC
Confidence 456678889999888764 599999999999999999999999999975
No 16
>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=97.16 E-value=0.00037 Score=45.76 Aligned_cols=46 Identities=20% Similarity=0.353 Sum_probs=40.5
Q ss_pred HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 12 NAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 12 rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
....|+++++.+ .+ .+++.++..++..+..+++|++|++|++|.+.
T Consensus 12 ~~~~l~~l~~~l-~~-~dl~~~l~~i~~~~~~~~~~~~~~i~l~d~~~ 57 (368)
T 1mc0_A 12 HDRKILQLCGEL-FD-LDATSLQLKVLQYLQQETQATHCCLLLVSEDN 57 (368)
T ss_dssp HHHHHHHHHHTC-CC-SSHHHHHHHHHHHHHHHSCEEEEEEEEECSSS
T ss_pred chHHHHHHHHHH-hh-hhHHHHHHHHHHHHHHHhCCcEEEEEEEeCCC
Confidence 456799999999 54 46999999999999999999999999999754
No 17
>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=96.97 E-value=0.00023 Score=41.49 Aligned_cols=47 Identities=13% Similarity=0.169 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 11 ENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 11 ~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
++.+.|.++++.+.... +++.++..++..+..+++|++|+++++|++
T Consensus 12 ~~l~~l~~i~~~l~~~~-~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~ 58 (181)
T 3e0y_A 12 LEIISLEEISMLVSSDF-DLPEVLQHVTAKVATQLKVSVCNIYLREGD 58 (181)
T ss_dssp TTCCCHHHHHHHHSTTS-CHHHHHHHHHHHHHHHTTCSCEEEEEEETT
T ss_pred HHHHHHHHHHHHHhhcC-CHHHHHHHHHHHHHHHhCCCeEEEEEEcCC
Confidence 34467888888887765 599999999999999999999999999975
No 18
>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=96.89 E-value=0.00055 Score=41.11 Aligned_cols=30 Identities=13% Similarity=0.341 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 30 IEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 30 id~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
++.++..++..++.+++||||+++++|++.
T Consensus 1 l~~il~~~~~~~~~~l~~dr~~i~~~~~~~ 30 (172)
T 2k2n_A 1 LDQILRATVEEVRAFLGTDRVKVYRFDPEG 30 (172)
T ss_dssp CHHHHHHHHHHHHHHHCCSEEEEEECCTTS
T ss_pred CHHHHHHHHHHHHHHhCCCeEEEEEECCCC
Confidence 368899999999999999999999999763
No 19
>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=96.61 E-value=0.00032 Score=53.06 Aligned_cols=51 Identities=20% Similarity=0.357 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 7 LLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 7 ~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
..+.++...|+++++.|..... ++.++..|+..+..+++|+||+||++|.+
T Consensus 146 ~~~~~~l~~L~eis~~L~~~ld-l~~ll~~il~~l~~~l~ad~~~I~L~d~~ 196 (878)
T 3bjc_A 146 HDEGDQCSRLLELVKDISSHLD-VTALCHKIFLHIHGLISADRYSLFLVCED 196 (878)
T ss_dssp ----------------------------------------------------
T ss_pred hcchHHHHHHHHHHHHHhhcCC-HHHHHHHHHHHHHHHhCCCeEEEEEEeCC
Confidence 3455677889999999998765 99999999999999999999999999975
No 20
>4glq_A Methyl-accepting chemotaxis protein; chromophore, phytochrome, cyanobacteriochrome, phycoviolobil bilin, BILI-protein; HET: PVN; 1.77A {Thermosynechococcus elongatus} PDB: 4fof_A*
Probab=96.59 E-value=0.0016 Score=40.43 Aligned_cols=38 Identities=18% Similarity=0.383 Sum_probs=30.2
Q ss_pred HHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 21 HDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 21 ~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
..|=..+ ++++++..+...++.+++||||.+|.+|++.
T Consensus 4 ~~Ir~sl-dl~~il~~~v~~v~~~l~~DRv~Iy~f~~d~ 41 (171)
T 4glq_A 4 VQLSELR-DRQAIFETLVAKGRELLACDRVIVYAFDDNY 41 (171)
T ss_dssp ----CTT-HHHHHHHHHHHHHHHHHTCSEEEEEEECTTC
T ss_pred HHHhhcC-CHHHHHHHHHHHHHHHHCCCeEEEEEEeCCC
Confidence 3444444 4999999999999999999999999999764
No 21
>2qyb_A Membrane protein, putative; GAF domain, domain of putative membrane protein, PSI-2, MCSG structural genomics; 2.40A {Geobacter sulfurreducens pca}
Probab=96.58 E-value=0.0017 Score=38.35 Aligned_cols=45 Identities=16% Similarity=0.169 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 13 AAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 13 nq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
|..|.++++.+-...+ ++.++..++..+..++++++|+++++|..
T Consensus 2 ~~~L~~i~~~l~~~~~-~~~~l~~i~~~~~~~~~~~~~~i~l~~~~ 46 (181)
T 2qyb_A 2 NAVRLRASEIMNRTLD-LQIIMDDLLNLLLKEFKLDLAVIRLVDEK 46 (181)
T ss_dssp -------CHHHHHHHH-HHHHHHHHHHHHHHHSSCSEEEEEEECTT
T ss_pred chHHHHHHHHHHhccC-HHHHHHHHHHHHHHHhCCcEEEEEEECCC
Confidence 5678888888887665 99999999999999999999999999653
No 22
>3hcy_A Putative two-component sensor histidine kinase PR; two-component sensor histidine kinase protein, structural GE PSI, MCSG; 2.80A {Sinorhizobium meliloti}
Probab=96.28 E-value=0.0024 Score=36.75 Aligned_cols=31 Identities=35% Similarity=0.633 Sum_probs=28.6
Q ss_pred ccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 28 TSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 28 ~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
.+++.++..++..+..+++|++|+++++|++
T Consensus 2 ~~l~~~l~~~~~~~~~~~~~~~~~i~l~d~~ 32 (151)
T 3hcy_A 2 NAIEEVYEATLDAIQGALNCDRASILLFDEA 32 (151)
T ss_dssp CCCHHHHHHHHHHHHHHHCCSEEEEEEECTT
T ss_pred ccHHHHHHHHHHHHHHhhcCCEEEEEEEcCC
Confidence 3678999999999999999999999999975
No 23
>1ykd_A Adenylate cyclase; GAF domain, bound cyclic AMP ligand, lyase; HET: CMP; 1.90A {Anabaena SP}
Probab=96.07 E-value=0.011 Score=39.33 Aligned_cols=44 Identities=18% Similarity=0.381 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhhhhccHHHHHH----HHHHHHHhhhccchhheeeccCCC
Q psy678 14 AKLLEVVHDLFEEQTSIEQVVV----KIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 14 q~LL~la~~iFee~~sid~li~----~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+.|.++.+.+ .. .+++.++. .|+..+..+++|++|+||++|.+.
T Consensus 9 ~~l~~~~~~l-~~-~~l~~~l~~~l~~i~~~~~~~~~a~~~~i~l~d~~~ 56 (398)
T 1ykd_A 9 QIVHQTLSML-DS-HGFENILQEMLQSITLKTGELLGADRTTIFLLDEEK 56 (398)
T ss_dssp HHHHHHHHHH-TT-SCHHHHHHHHHHHHHHHHHHHHTEEEEEEEEEETTT
T ss_pred HHHHHHHHHH-Hh-ccHHHHHHHHHHHHHHHHHHHhCCceEEEEEEECCC
Confidence 4566666666 33 55666555 455559999999999999999753
No 24
>3mmh_A FRMSR, methionine-R-sulfoxide reductase; oxidoreductase; HET: SME MRD; 1.25A {Neisseria meningitidis} SCOP: d.110.2.0
Probab=95.66 E-value=0.029 Score=35.13 Aligned_cols=45 Identities=11% Similarity=0.132 Sum_probs=36.8
Q ss_pred HHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 15 KLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 15 ~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
.||.-.+.+.+.-.+++..+..+.......++++||++||+|+++
T Consensus 17 ~ll~~i~~ll~~~~dl~~~L~~v~~~l~~~l~~~~~~iyL~d~~~ 61 (167)
T 3mmh_A 17 EVLPQIESVVADETDWVANLANTAAVLKEAFGWFWVGFYLVDTRS 61 (167)
T ss_dssp HHHHHHHHHHHTCCCHHHHHHHHHHHHHHHHCCSEEEEEEEETTT
T ss_pred HHHHHHHHHHccCCCHHHHHHHHHHHHHHHcCCcEEEEEEEECCC
Confidence 345555555566678999999999999999999999999998653
No 25
>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=95.55 E-value=0.009 Score=33.61 Aligned_cols=31 Identities=23% Similarity=0.322 Sum_probs=28.2
Q ss_pred ccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 28 TSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 28 ~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
.+++.++..++..+..+++|++|+++++|++
T Consensus 5 ~~~~~~l~~i~~~~~~~~~~~~~~i~l~d~~ 35 (153)
T 2w3g_A 5 PDLEATLRAIVHSATSLVDARYGAMEVHDRQ 35 (153)
T ss_dssp HHHHHHHHHHHHHHHHHTTEEEEEEEEECTT
T ss_pred cCHHHHHHHHHHHHHHHhCCCEEEEEEECCC
Confidence 4689999999999999999999999999954
No 26
>2vjw_A GAF-B, GAF family protein; histidine kinase, hypoxia sensing, hydrolase; HET: MSE; 2.0A {Mycobacterium smegmatis} PDB: 2vks_A
Probab=95.35 E-value=0.0094 Score=35.74 Aligned_cols=30 Identities=13% Similarity=0.124 Sum_probs=26.5
Q ss_pred cHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 29 SIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 29 sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
+++.++..|+..+..+++|++|+|+++|+.
T Consensus 1 ~~~~~L~~i~~~a~~~~~ad~~~i~l~~~~ 30 (149)
T 2vjw_A 1 DPATVFRLVAAEALTLTGADGTLVAVPADP 30 (149)
T ss_dssp CTHHHHHHHHHHHHHHHCCSEEEEEEECC-
T ss_pred CHHHHHHHHHHHHHHHhCCCEEEEEEEcCC
Confidence 357889999999999999999999999864
No 27
>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=94.01 E-value=0.035 Score=34.08 Aligned_cols=30 Identities=13% Similarity=0.454 Sum_probs=27.8
Q ss_pred cHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 29 SIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 29 sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
|+|.++..++..++.++.|+++++++++..
T Consensus 5 sldevL~~v~~~l~~~~~~d~~~l~L~~~~ 34 (165)
T 3o5y_A 5 SLDDIINNMIDKLKLLVHFDRISFLLLANE 34 (165)
T ss_dssp CHHHHHHHHHHHHHHHSCCSEEEEEEEETT
T ss_pred CHHHHHHHHHHHHHHhcCcceEEEEEEECC
Confidence 599999999999999999999999999753
No 28
>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=93.39 E-value=0.16 Score=35.39 Aligned_cols=46 Identities=4% Similarity=-0.003 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 13 AAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 13 nq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
.+.+-.++..|=... +++.++..+...++.+++||||.+|=.|++.
T Consensus 146 ~~ll~~i~~~Ir~sl-~l~~il~~tv~evr~ll~~DRV~IYrF~~d~ 191 (337)
T 2ool_A 146 FRSVRVAIRRLQTAA-DLPTACWIAASEVRRITGFDRIKVYQFAADW 191 (337)
T ss_dssp HHHHHHHHHHHHTCC-SHHHHHHHHHHHHHHHHCCSEEEEEEECTTS
T ss_pred HHHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhCCCeeEEEEEcCCC
Confidence 334555566665544 4999999999999999999999999888764
No 29
>1f5m_A GAF; CGMP binding, signaling protein; 1.90A {Saccharomyces cerevisiae} SCOP: d.110.2.1 PDB: 3ko6_A*
Probab=93.34 E-value=0.24 Score=30.83 Aligned_cols=47 Identities=13% Similarity=-0.026 Sum_probs=39.0
Q ss_pred HHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhh-----ccchhheeeccCC
Q psy678 12 NAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLL-----KCENAAVLLIDES 58 (60)
Q Consensus 12 rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll-----~aeRcslflvD~~ 58 (60)
..+.++.-.+.+.....+++..+..+...+...+ .+++|++|++|..
T Consensus 24 ~~~~ll~~l~~ll~~~~dl~~~L~~v~~~l~~~l~~~~~~~~~~~~yl~d~~ 75 (180)
T 1f5m_A 24 ILEQLLLSYEGLSDGQVNWVCNLSNASSLIWHAYKSLAVDINWAGFYVTQAS 75 (180)
T ss_dssp HHHHHHHHHHHHHTTCCBHHHHHHHHHHHHHHHHHHTTCCEEEEEEEEECSS
T ss_pred HHHHHHHHHHHHHhcCccHHHHHHHHHHHHHHHHhhccCCccEEEEEEEecC
Confidence 3456666777777777889999999999999998 8999999999874
No 30
>1vhm_A Protein YEBR; structural genomics, unknown function; HET: MES; 2.10A {Escherichia coli} SCOP: d.110.2.1
Probab=92.87 E-value=0.15 Score=32.60 Aligned_cols=44 Identities=16% Similarity=0.102 Sum_probs=34.6
Q ss_pred HHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhh-ccchhheeeccC
Q psy678 13 AAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLL-KCENAAVLLIDE 57 (60)
Q Consensus 13 nq~LL~la~~iFee~~sid~li~~im~~a~~Ll-~aeRcslflvD~ 57 (60)
...|-++++ +.....+++..+..+...+...+ ++++|++|++|.
T Consensus 28 ~~ll~~l~~-ll~~~~dl~~~L~~v~~ll~~~l~~~~~~~iyL~d~ 72 (195)
T 1vhm_A 28 ADLNRDFNA-LMAGETSFLATLANTSALLYERLTDINWAGFYLLED 72 (195)
T ss_dssp HHHHHHHHH-HHTTCCCHHHHHHHHHHHHHHHSSSCSEEEEEEEET
T ss_pred HHHHHHHHH-HHhcCCcHHHHHHHHHHHHHHhCCCCCEEEEEEEEC
Confidence 344444444 44555679999999999999999 999999999985
No 31
>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=92.02 E-value=0.29 Score=34.50 Aligned_cols=45 Identities=9% Similarity=0.098 Sum_probs=36.0
Q ss_pred HHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 14 AKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 14 q~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+.+-.++..|=.. .+++.++..+...++.++++|||.+|=.|++.
T Consensus 152 ~ll~~i~~rIr~s-ldl~~ilq~tV~eVR~llg~DRVmIYrF~~d~ 196 (343)
T 3s7o_A 152 HALRNAMFALESA-PNLRALAEVATQTVRELTGFDRVMLYKFAPDA 196 (343)
T ss_dssp HHHHHHHHHHHHC-CSHHHHHHHHHHHHHHHHCCSEEEEEEECTTS
T ss_pred HHHHHHHHHHHhc-CCHHHHHHHHHHHHHHHhCCCeEEEEEEcCCC
Confidence 3444555556554 46999999999999999999999999888764
No 32
>4e04_A Bacteriophytochrome (light-regulated signal trans histidine kinase), PHYB1; bacteriophytochrome chromophore binding domain; HET: LBV; 1.79A {Rhodopseudomonas palustris}
Probab=91.94 E-value=0.27 Score=34.36 Aligned_cols=43 Identities=7% Similarity=0.151 Sum_probs=34.7
Q ss_pred HHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 16 LLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 16 LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+-.++..|=... +++.++..+...++.++++|||.+|=.|++.
T Consensus 136 l~~i~~rIr~sl-dl~~il~~av~evr~llg~DRVmIYrF~~d~ 178 (327)
T 4e04_A 136 VRSAIRRLQAAE-TLESACAAAAQEVREITGFDRVMIYRFASDF 178 (327)
T ss_dssp HHHHHHHHHHCC-SHHHHHHHHHHHHHHHHCCSEEEEEEECTTS
T ss_pred HHHHHHHHHhcC-CHHHHHHHHHHHHHHHHCCCeEEEEEEcCCC
Confidence 344555554444 6999999999999999999999999888764
No 33
>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=91.87 E-value=0.31 Score=35.70 Aligned_cols=45 Identities=0% Similarity=0.082 Sum_probs=36.7
Q ss_pred HHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 14 AKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 14 q~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+.+-.++..|=... +++.++..+...++.+++||||.+|=.|++.
T Consensus 125 ~ll~~i~~~Ir~sl-~l~~il~~~v~evr~ll~~DRV~IYrF~~d~ 169 (505)
T 3nhq_A 125 LNAQRIIAQVQLHN-DTASLLSNVTDELRRMTGYDRVMAYRFRHDD 169 (505)
T ss_dssp HHHHHHHHHHHHCC-CHHHHHHHHHHHHHHHHCCSEEEEEEECTTS
T ss_pred HHHHHHHHHHHhcC-CHHHHHHHHHHHHHHHhCCCeEEEEEecCCC
Confidence 34555666666654 5999999999999999999999999988764
No 34
>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=90.32 E-value=0.45 Score=35.01 Aligned_cols=43 Identities=9% Similarity=0.193 Sum_probs=35.2
Q ss_pred HHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 16 LLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 16 LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
+-.++..|=.. .+++.++..+...++.+++||||.+|-.|++.
T Consensus 140 l~~i~~~Ir~s-l~l~~il~~~v~evr~ll~~DRVmIYrF~~d~ 182 (520)
T 3zq5_A 140 ANAALNRLRQQ-ANLRDFYDVIVEEVRRMTGFDRVMLYRFDENN 182 (520)
T ss_dssp HHHHHHHHHHS-CCHHHHHHHHHHHHHHHHCCSEEEEEEECTTS
T ss_pred HHHHHHHHHhc-CCHHHHHHHHHHHHHHHhCCCEEEEEEEcCCC
Confidence 44455555554 56999999999999999999999999988764
No 35
>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=88.44 E-value=0.6 Score=29.18 Aligned_cols=45 Identities=11% Similarity=0.194 Sum_probs=37.8
Q ss_pred HHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhc-cchhheeeccCC
Q psy678 14 AKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLK-CENAAVLLIDES 58 (60)
Q Consensus 14 q~LL~la~~iFee~~sid~li~~im~~a~~Ll~-aeRcslflvD~~ 58 (60)
+.|+.-.+.+.++-.++...+..+.+.....+. +++|++|++|..
T Consensus 16 ~~ll~~l~~ll~~~~dl~~~L~~v~~ll~~~l~~~~~~gfYL~~~~ 61 (160)
T 3ksh_A 16 TLLKKQAASLIEDEHHMIAILSNMSALLNDNLDQINWVGFYLLEQN 61 (160)
T ss_dssp HHHHHHHHHTTTTCCCHHHHHHHHHHHHHHHCSSCSEEEEEEEETT
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHcccCCEEEEEEEECC
Confidence 446666777777788999999999999999997 999999999853
No 36
>4eho_A Bacteriophytochrome, PAS/PAC sensor; photoreceptor, bacteriopbhytochrome; HET: MSE BLA; 2.90A {Rhodopseudomonas palustris tie-1}
Probab=88.00 E-value=0.36 Score=35.37 Aligned_cols=33 Identities=15% Similarity=0.082 Sum_probs=30.1
Q ss_pred hccHHHHHHHHHHHHHhhhccchhheeeccCCC
Q psy678 27 QTSIEQVVVKIMQRAQSLLKCENAAVLLIDESS 59 (60)
Q Consensus 27 ~~sid~li~~im~~a~~Ll~aeRcslflvD~~~ 59 (60)
-.+++.++..+...++.++++||+.+|-.|++.
T Consensus 144 s~~l~~i~~~~v~evr~l~~~DRv~iy~F~~d~ 176 (635)
T 4eho_A 144 AGSLRALCDDTALLFQQCTGYDRVMVYRFDEQG 176 (635)
T ss_dssp CCSHHHHHHHHHHHHHHHSCCSEEEEEEECTTC
T ss_pred hCCHHHHHHHHHHHHHHHhCCCeEEEEEECCCC
Confidence 557999999999999999999999999998764
No 37
>3rfb_A Putative uncharacterized protein; FRMSR, GAF, oxidoreductase, SME; HET: SME; 2.30A {Streptococcus pneumoniae}
Probab=85.32 E-value=2.1 Score=26.95 Aligned_cols=45 Identities=20% Similarity=0.118 Sum_probs=36.8
Q ss_pred HHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhc-cchhheeeccCC
Q psy678 14 AKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLK-CENAAVLLIDES 58 (60)
Q Consensus 14 q~LL~la~~iFee~~sid~li~~im~~a~~Ll~-aeRcslflvD~~ 58 (60)
+.||.-.+.+.+.-.++...+..+.+.....+. +++|++|++|..
T Consensus 17 ~~ll~~l~~ll~~~~dl~~~L~nv~~lL~~~l~~~~~~gfYL~~~~ 62 (171)
T 3rfb_A 17 QMLNEELSFLLEGETNVLANLSNASALIKSRFPNTVFAGFYLFDGK 62 (171)
T ss_dssp HHHHHHHHHHHTTCCBHHHHHHHHHHHHHHHCTTEEEEEEEEECSS
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHccCCCEEEEEEEECC
Confidence 346666677777788899999999999988887 999999999853
No 38
>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=58.38 E-value=8.3 Score=24.77 Aligned_cols=33 Identities=21% Similarity=0.336 Sum_probs=28.7
Q ss_pred hhccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 26 EQTSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 26 e~~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
.+++.|+.+.+.-.--+++++|.|..||++|.+
T Consensus 10 ~l~~vd~~~~~l~rll~k~~~~~w~~vy~~dre 42 (162)
T 3eea_A 10 GLTDVDEVIKDLSRLLRKLVKTRWIAVYFFDRE 42 (162)
T ss_dssp GGCCHHHHHHHHHHHHHHHSCCSEEEEEEECC-
T ss_pred ccccHHHHHHHHHHHHHHHhCCceEEEEEeehh
Confidence 467889999988888899999999999999965
No 39
>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=49.54 E-value=13 Score=27.14 Aligned_cols=47 Identities=13% Similarity=0.175 Sum_probs=33.6
Q ss_pred HHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHhhhccchhheeecc
Q psy678 9 KCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQSLLKCENAAVLLID 56 (60)
Q Consensus 9 e~~rnq~LL~la~~iFee~~sid~li~~im~~a~~Ll~aeRcslflvD 56 (60)
+.++.+.+-.+...+-.+. ++...+.........|++|+++.|+.-+
T Consensus 315 ~~~~~~~~~~l~~~l~~~~-~~~~~l~~~~~~l~~ll~adg~al~~~~ 361 (505)
T 3nhq_A 315 LRVSTERRLALARRARDAD-DLFGALAHPDDGIAALIPCDGALVMLGG 361 (505)
T ss_dssp HHHHHHHHHHHHHHHHHHC-CHHHHHHCTTTSHHHHTTCSEEEEEETT
T ss_pred HHHHHHHHHHHHHHHhhcC-CHHHHHHHhhHHHHHHhCCCeEEEEECC
Confidence 3444445555666666554 4777777778888999999999998655
No 40
>3gdw_A Sigma-54 interaction domain protein; structural genomics, PSI-2, protein structure initiative, M center for structural genomics, MCSG; HET: MSE; 2.00A {Enterococcus faecalis}
Probab=42.67 E-value=50 Score=19.77 Aligned_cols=44 Identities=14% Similarity=0.277 Sum_probs=32.1
Q ss_pred HHHHHHHHHHhhh----------hccHHHHHHHHHHHHHhh-hccchhheeeccC
Q psy678 14 AKLLEVVHDLFEE----------QTSIEQVVVKIMQRAQSL-LKCENAAVLLIDE 57 (60)
Q Consensus 14 q~LL~la~~iFee----------~~sid~li~~im~~a~~L-l~aeRcslflvD~ 57 (60)
..+++.|+.++++ -.+.+.+..++...++.+ +....--++|+|.
T Consensus 18 ~~l~~~a~~i~G~~~~~aid~~~~~~~~~~~~~i~~~i~~~~~d~g~GVLiL~Dm 72 (139)
T 3gdw_A 18 SSMLKTAQELLGTSIGTAMNMPLTMEVQTMYEQLRNQVITQKESLNNGILLLTDM 72 (139)
T ss_dssp HHHHHHHHHHHTCCCCEEEEECTTSCHHHHHHHHHHHHHTSTGGGTTCEEEEECS
T ss_pred HHHHHHHHHHcCcccEEEEEccCCCCHHHHHHHHHHHHHhhcCCCCCCEEEEEeC
Confidence 4678889998885 345888888888877764 3334567899997
No 41
>3lfh_A Manxa, phosphotransferase system, mannose/fructose-speci component IIA; PTS; 1.80A {Thermoanaerobacter tengcongensis} SCOP: c.54.1.0
Probab=37.23 E-value=67 Score=19.22 Aligned_cols=45 Identities=18% Similarity=0.223 Sum_probs=33.4
Q ss_pred HHHHHHHHHHhhhh-----------ccHHHHHHHHHHHHHhhhccchhheeeccCC
Q psy678 14 AKLLEVVHDLFEEQ-----------TSIEQVVVKIMQRAQSLLKCENAAVLLIDES 58 (60)
Q Consensus 14 q~LL~la~~iFee~-----------~sid~li~~im~~a~~Ll~aeRcslflvD~~ 58 (60)
+.+++.++.|++++ .+.+.+..++...+..+...+.-.++|.|..
T Consensus 16 ~gl~~~~~~i~G~~~~v~av~~~~~~~~~~~~~~i~~~i~~~~~~~~gvliLtDl~ 71 (144)
T 3lfh_A 16 KGLLSGAEVIIGKQENVHTVGLNLGDNIEVVRKEVEKIIKEKLQEDKEIIIVVDLF 71 (144)
T ss_dssp HHHHHHHHHHHCCCSSEEEEEECTTCCHHHHHHHHHHHHHHHHTTTCEEEEEESSS
T ss_pred HHHHHHHHHHcCCCCcEEEEEccCCCCHHHHHHHHHHHHHHhhCCCCcEEEEEeCC
Confidence 56888999999886 4578888888888777634344678888874
No 42
>2q97_T Toxofilin, actin, alpha skeletal muscle; structural protein, structural protein-cell invasion complex; HET: HIC ATP; 2.50A {Toxoplasma gondii}
Probab=22.77 E-value=73 Score=19.46 Aligned_cols=21 Identities=24% Similarity=0.460 Sum_probs=14.5
Q ss_pred HHHHHH-HHHHHHHHHHhhhhc
Q psy678 8 LKCENA-AKLLEVVHDLFEEQT 28 (60)
Q Consensus 8 ~e~~rn-q~LL~la~~iFee~~ 28 (60)
.|++++ +.+++.|+++|.-..
T Consensus 90 Ien~~kEk~~~~~Ar~LF~rr~ 111 (129)
T 2q97_T 90 IENQRKEKTLLEKARKLFQRRH 111 (129)
T ss_dssp HHHHHHHHHHHHHHHHHHCC--
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 445544 679999999998654
No 43
>3gx1_A LIN1832 protein; APC63308.2, structural genomics, protein structure initiative, midwest center for structural genomics, MCSG; 2.30A {Listeria innocua CLIP11262}
Probab=21.30 E-value=1.3e+02 Score=17.51 Aligned_cols=43 Identities=19% Similarity=0.309 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhh----------hccHHHHHHHHHHHHHhhhccchhheeeccC
Q psy678 14 AKLLEVVHDLFEE----------QTSIEQVVVKIMQRAQSLLKCENAAVLLIDE 57 (60)
Q Consensus 14 q~LL~la~~iFee----------~~sid~li~~im~~a~~Ll~aeRcslflvD~ 57 (60)
..+++.|+.|+++ -.+.+.+..++...++.+=.. .--++|+|.
T Consensus 18 ~~l~~~a~~i~G~~~~~aid~~~~~~~~~~~~~i~~~i~~~d~~-~GVLiL~Dm 70 (130)
T 3gx1_A 18 TSMVETVQELLSIESGIALDMPLTVEVKAMYEKLKQTVVKLNPV-KGVLILSDM 70 (130)
T ss_dssp HHHHHHHHHHHTCCCCEEEEECTTSCHHHHHHHHHHHHHTSCCT-TCEEEEECS
T ss_pred HHHHHHHHHHcCccCEEEEEecCCCCHHHHHHHHHHHHHhhCCC-CCEEEEEeC
Confidence 4678889998873 245788888887777765443 467899997
No 44
>2k3r_A Ribonuclease P protein component 4; PFU RPP21, RNAse P, hydrolase, tRNA processing; NMR {Pyrococcus furiosus} PDB: 2ki7_B
Probab=20.47 E-value=1.4e+02 Score=17.54 Aligned_cols=51 Identities=14% Similarity=0.229 Sum_probs=31.1
Q ss_pred hHHHHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHH-----------hhhccchhheeecc
Q psy678 6 SLLKCENAAKLLEVVHDLFEEQTSIEQVVVKIMQRAQ-----------SLLKCENAAVLLID 56 (60)
Q Consensus 6 ~~~e~~rnq~LL~la~~iFee~~sid~li~~im~~a~-----------~Ll~aeRcslflvD 56 (60)
.....+|.++|.++|+..+.+-+++....-+.|..+. .=.=|.+|..+|+-
T Consensus 11 ~~ia~~Ri~~L~~~A~~~~~~~p~LSr~Y~~~~~~Is~K~~irlp~~~KR~~Ck~C~s~LIP 72 (123)
T 2k3r_A 11 KRIAKERIDILFSLAERVFPYSPELAKRYVELALLVQQKAKVKIPRKWKRRYCKKCHAFLVP 72 (123)
T ss_dssp ----CHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHTCCCSSTTTTSBCTTTCCBCCB
T ss_pred HHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHHHHhccCCCHHHHHHhccCCCCEeEC
Confidence 3445678899999999997776666665555444332 12347777665553
Done!