Query psy17613
Match_columns 287
No_of_seqs 204 out of 1078
Neff 7.1
Searched_HMMs 29240
Date Fri Aug 16 18:34:08 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17613.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/17613hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1uo4_A General control protein 68.5 9.5 0.00032 22.8 4.2 28 2-29 6-33 (34)
2 2r2v_A GCN4 leucine zipper; co 65.2 10 0.00034 22.7 3.8 27 2-28 6-32 (34)
3 3c3f_A Alpha/beta peptide with 64.0 12 0.0004 22.4 4.0 27 2-28 6-32 (34)
4 3c3g_A Alpha/beta peptide with 56.3 19 0.00066 21.3 4.0 27 2-28 5-31 (33)
5 2oqt_A Hypothetical protein SP 50.8 15 0.00051 29.2 4.0 34 19-52 116-149 (162)
6 3m48_A General control protein 50.4 31 0.0011 20.5 4.2 27 2-28 5-31 (33)
7 3bjv_A RMPA; alpha/beta three 50.4 14 0.00049 29.2 3.9 34 19-52 115-148 (161)
8 2lnm_A Protein TIC 40, chlorop 50.4 6.4 0.00022 26.7 1.5 19 23-41 14-32 (62)
9 2a0j_A PTS system, nitrogen re 49.0 16 0.00055 28.4 3.9 34 18-51 115-148 (149)
10 2oxj_A Hybrid alpha/beta pepti 48.9 32 0.0011 20.5 4.1 27 2-28 6-32 (34)
11 2bni_A General control protein 48.5 30 0.001 20.7 3.9 27 2-28 6-32 (34)
12 3oxp_A Phosphotransferase enzy 47.7 13 0.00044 29.1 3.2 34 18-51 116-149 (150)
13 2oq3_A Mannitol-specific crypt 47.1 15 0.00052 28.6 3.5 34 18-51 116-149 (150)
14 1kd8_B GABH BLL, GCN4 acid bas 46.2 32 0.0011 20.8 3.8 26 2-27 6-31 (36)
15 3urr_A PTS IIA-like nitrogen-r 44.8 23 0.00078 27.7 4.2 33 19-51 118-150 (153)
16 2llw_A Heat shock protein STI1 44.5 17 0.00059 25.4 3.0 29 22-50 21-50 (71)
17 1a3a_A Mannitol-specific EII; 41.8 14 0.00047 28.8 2.4 33 19-51 114-146 (148)
18 2wq1_A General control protein 39.8 47 0.0016 19.6 3.8 27 2-28 5-31 (33)
19 1a6j_A Nitrogen regulatory IIA 36.3 26 0.0009 27.6 3.3 33 19-51 123-155 (163)
20 2hy6_A General control protein 35.3 61 0.0021 19.3 3.8 26 2-27 6-31 (34)
21 3t43_A HIV epitope-scaffold 4E 34.8 35 0.0012 27.4 3.8 32 20-51 102-133 (162)
22 3lf6_A Putative phosphotransfe 33.4 36 0.0012 27.0 3.7 33 19-51 126-158 (161)
23 3lpx_A GYRA, DNA gyrase, A sub 31.2 61 0.0021 31.1 5.4 45 5-54 440-484 (500)
24 1kd8_A GABH AIV, GCN4 acid bas 30.9 77 0.0026 19.1 3.8 26 2-27 6-31 (36)
25 1c94_A Retro-GCN4 leucine zipp 29.3 51 0.0018 19.4 2.8 33 6-40 4-36 (38)
26 2inr_A DNA topoisomerase 4 sub 28.6 69 0.0024 30.9 5.3 47 4-55 454-500 (514)
27 3aai_A Copper homeostasis oper 27.0 1.2E+02 0.0042 22.1 5.4 37 4-40 11-52 (94)
28 2pnv_A Small conductance calci 25.1 66 0.0022 20.2 3.0 28 1-28 13-40 (43)
29 4abx_A DNA repair protein RECN 24.6 1.6E+02 0.0054 23.6 6.2 48 7-57 97-145 (175)
30 2nov_A DNA topoisomerase 4 sub 24.0 79 0.0027 30.4 4.8 47 4-55 430-476 (496)
31 2hl7_A Cytochrome C-type bioge 23.3 48 0.0016 24.0 2.4 28 30-57 50-77 (84)
32 2kw0_A CCMH protein; oxidoredu 23.2 48 0.0016 24.3 2.4 28 30-57 47-74 (90)
33 2ex3_B Protein GP3, DNA termin 20.4 1.6E+02 0.0053 24.3 5.2 61 4-64 53-118 (230)
34 1zvu_A Topoisomerase IV subuni 20.3 1.2E+02 0.0041 30.5 5.4 46 5-55 403-448 (716)
No 1
>1uo4_A General control protein GCN4; four helix bundle, cavity, iodobenzene; 1.70A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 1uo3_A 1unt_A 1uo5_A 1unu_A 1unv_A 1uo1_A 2ccf_A 2cce_A 1unx_A 1unw_A 1w5j_A* 1w5k_A* 1u9f_A* 3f86_A* 3f87_A* 3hez_A* 3c3f_A*
Probab=68.51 E-value=9.5 Score=22.82 Aligned_cols=28 Identities=11% Similarity=0.370 Sum_probs=24.4
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcCC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLSN 29 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~~ 29 (287)
+++|=++.+++..+|++|+..+-+++..
T Consensus 6 LEdKVEeLl~~n~~Le~EV~RLk~LL~~ 33 (34)
T 1uo4_A 6 IEDKGEEILSKLYHIENELARIKKLLGE 33 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHcc
Confidence 5788899999999999999999888753
No 2
>2r2v_A GCN4 leucine zipper; coiled coils, anti-parallel tetramer, protein design, de novo protein; HET: CIT; 1.90A {Saccharomyces cerevisiae} SCOP: h.1.3.1
Probab=65.24 E-value=10 Score=22.73 Aligned_cols=27 Identities=19% Similarity=0.238 Sum_probs=23.2
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=+|++++...|++|+..+-+++.
T Consensus 6 ledKvEel~~~~~~l~nEv~Rl~~lLg 32 (34)
T 2r2v_A 6 VADKLEEVASKLYHNANELARVAKLLG 32 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhc
Confidence 567888999999999999999888763
No 3
>3c3f_A Alpha/beta peptide with the GCN4-PLI SIDE chain S AN (alpha-alpha-alpha-beta) backbone...; helix bundle, foldamer, unknown function, de novo protein; HET: B3K B3D B3E BIL B3L BAL; 2.00A {Synthetic} SCOP: h.1.3.1
Probab=64.00 E-value=12 Score=22.38 Aligned_cols=27 Identities=11% Similarity=0.288 Sum_probs=23.2
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=++.+.+.++|++|++.+-+++.
T Consensus 6 LEdKVEeLl~~~~~Le~EV~RLk~ll~ 32 (34)
T 3c3f_A 6 IEXKLEXILSXLYHXENEXARIXKLLX 32 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHh
Confidence 567888999999999999999888774
No 4
>3c3g_A Alpha/beta peptide with the GCN4-PLI SIDE chain S AN (alpha-alpha-beta) backbone; helix bundle, foldamer, unknown function protein; HET: HMR B3Q B3D B3E B3L BIL B3K BAL GOL; 1.80A {Synthetic} PDB: 3heu_A* 3het_A* 3hev_A* 3hew_A* 3hey_A* 3hex_A* 3c3h_A*
Probab=56.28 E-value=19 Score=21.31 Aligned_cols=27 Identities=7% Similarity=0.254 Sum_probs=23.1
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=++.+.+-++|++|++.+-+++.
T Consensus 5 LEdKvEeLl~~~~~Le~EV~RLk~lL~ 31 (33)
T 3c3g_A 5 IEXKLXEIXSKXYHXENXLARIKXLLX 31 (33)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHHc
Confidence 567888999999999999999888774
No 5
>2oqt_A Hypothetical protein SPY0176; APC29699, putative PTS IIA domain, streptococcus pyogenes M1 GAS, structural genomics, PSI-2; 2.41A {Streptococcus pyogenes serotype M1}
Probab=50.76 E-value=15 Score=29.22 Aligned_cols=34 Identities=9% Similarity=0.299 Sum_probs=29.5
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKE 52 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~ 52 (287)
-.+.+.++++|++.+++|.+.+|.....+.|++.
T Consensus 116 ~l~~l~~~l~d~~~~~~L~~~~~~~ei~~~l~~~ 149 (162)
T 2oqt_A 116 AIPQIVALFELDNAIERLVACQSPKEVLEMVEES 149 (162)
T ss_dssp HHHHHHHHHTSTTHHHHHHTCCSHHHHHHHHHHH
T ss_pred HHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHHhC
Confidence 4556788999999999999999999999999764
No 6
>3m48_A General control protein GCN4; leucine zipper, synthetic peptide, alpha helix, activa amino-acid biosynthesis, DNA-binding, nucleus; 1.45A {Synthetic} PDB: 3i1g_A 2ahp_A* 2o7h_A
Probab=50.41 E-value=31 Score=20.48 Aligned_cols=27 Identities=15% Similarity=0.245 Sum_probs=23.4
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=++.+++-.+|++|++.+-+++.
T Consensus 5 LE~kVEeLl~~n~~Le~EV~RLk~Ll~ 31 (33)
T 3m48_A 5 LEAKVEELLSKNWNLENEVARLKKLVG 31 (33)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence 567888999999999999999988875
No 7
>3bjv_A RMPA; alpha/beta three layer sandwich, transferase; 2.40A {Streptococcus mutans}
Probab=50.39 E-value=14 Score=29.24 Aligned_cols=34 Identities=6% Similarity=0.285 Sum_probs=29.8
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKE 52 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~ 52 (287)
-.+.+.++++|++.+++|.+.+|.....+.|++.
T Consensus 115 ~l~~l~~~l~d~~~~~~L~~~~~~~ei~~~l~~~ 148 (161)
T 3bjv_A 115 AIPQIIALFELDHSIERLVNCKTPEEVLAMVEES 148 (161)
T ss_dssp HHHHHHHHHTSTTHHHHHHTCCSHHHHHHHHHHG
T ss_pred HHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHHhc
Confidence 4556888999999999999999999999999874
No 8
>2lnm_A Protein TIC 40, chloroplastic; translocon, import, TIC40-NP, protein transport; NMR {Arabidopsis thaliana}
Probab=50.38 E-value=6.4 Score=26.70 Aligned_cols=19 Identities=16% Similarity=0.156 Sum_probs=15.2
Q ss_pred HHHhcCCHHHHHHhhchhh
Q psy17613 23 VLNLLSNDAVMKQMESVRD 41 (287)
Q Consensus 23 i~~~l~~~~v~~~l~~~rd 41 (287)
+..+|+||++++.+++.+.
T Consensus 14 ~~~~m~dP~~~~~lq~i~~ 32 (62)
T 2lnm_A 14 VAMAFQNPRVQAALMECSE 32 (62)
T ss_dssp HHHHTTSHHHHHHHHHHTT
T ss_pred HHHHcCCHHHHHHHHHHHH
Confidence 6778889998888887664
No 9
>2a0j_A PTS system, nitrogen regulatory IIA protein; nitrogen regulation, structural genomics, OPPF, oxford prote production facility; 2.50A {Neisseria meningitidis}
Probab=49.03 E-value=16 Score=28.35 Aligned_cols=34 Identities=12% Similarity=0.225 Sum_probs=28.6
Q ss_pred HhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 18 TSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 18 ~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
+-.+.+.++++|++.+++|.+.+|.....+.|++
T Consensus 115 ~~l~~l~~~l~~~~~~~~L~~~~~~~ei~~~l~~ 148 (149)
T 2a0j_A 115 EVLSKLAGKFSQKSIRESLMTVSSAEEVRAILTE 148 (149)
T ss_dssp HHHHHHHHHHTCHHHHHHHHHCCSHHHHHHHHC-
T ss_pred HHHHHHHHHHCCHHHHHHHHhCCCHHHHHHHHhh
Confidence 3456688899999999999999999999998865
No 10
>2oxj_A Hybrid alpha/beta peptide based on the GCN4-P1 Se heptad positions B and F substituted...; helix bundle, foldamer, unknown function; HET: B3K B3D B3E B3S B3Y B3X B3A BAL; 2.00A {Synthetic} PDB: 2oxk_A*
Probab=48.92 E-value=32 Score=20.49 Aligned_cols=27 Identities=15% Similarity=0.125 Sum_probs=21.9
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=++.+.+-++|+++++.+-+++.
T Consensus 6 LE~kVEeLl~~n~~Le~eV~rLk~ll~ 32 (34)
T 2oxj_A 6 LEXKVXELLXKNXHLEXEVXRLKXLVX 32 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence 467778888888899999888887774
No 11
>2bni_A General control protein GCN4; four helix bundle, antiparallel four helix bundle acyl transferase; HET: TYZ; 1.5A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 2ccn_A 1w5k_A* 2ccf_A 2cce_A 1w5j_A* 1uo2_A 1gcl_A 1uo1_A 1unv_A 1uo0_A 1unt_A 1uo5_A 1unz_A 1unx_A 1unu_A 1unw_A 1uo4_A 1uo3_A 1uny_A 1u9f_A* ...
Probab=48.52 E-value=30 Score=20.67 Aligned_cols=27 Identities=7% Similarity=0.257 Sum_probs=22.4
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=++.+.+-++|++|++.+-+++.
T Consensus 6 LEdKvEeLl~~~~~L~~EV~RLk~lL~ 32 (34)
T 2bni_A 6 IEDKLEEILSKGHHICNELARIKKLLG 32 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHC-
T ss_pred HHHHHHHHHHccHHHHHHHHHHHHHhc
Confidence 567888899999999999999888774
No 12
>3oxp_A Phosphotransferase enzyme II, A component; structural genomics, center for structural genomics of infec diseases, csgid, pestis CO92; HET: GOL; 1.20A {Yersinia pestis}
Probab=47.65 E-value=13 Score=29.12 Aligned_cols=34 Identities=3% Similarity=0.257 Sum_probs=30.2
Q ss_pred HhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 18 TSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 18 ~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
+--+.+.++++|++.+++|.+.++.....+.|++
T Consensus 116 ~~l~~l~~~l~~~~~~~~L~~~~~~~ei~~~l~~ 149 (150)
T 3oxp_A 116 EAISQLAQLFDTASDVQALLNAKTPQDILSVIAR 149 (150)
T ss_dssp HHHHHHHHHHTCHHHHHHHHTCCSHHHHHHHHTT
T ss_pred HHHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHHh
Confidence 3567899999999999999999999999998874
No 13
>2oq3_A Mannitol-specific cryptic phosphotransferase enzyme IIA component; solution structure; NMR {Escherichia coli}
Probab=47.10 E-value=15 Score=28.62 Aligned_cols=34 Identities=15% Similarity=0.422 Sum_probs=29.8
Q ss_pred HhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 18 TSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 18 ~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
+-.+.+.++++|++.+++|.+.+|.....+.|++
T Consensus 116 ~~l~~l~~~l~~~~~~~~L~~~~~~~ei~~~l~~ 149 (150)
T 2oq3_A 116 GAIQALSELLCEEEILEQLLTASSEKQLADIISR 149 (150)
T ss_dssp HHHHHHHHHHTCHHHHHHHHTCCSHHHHHHHHHT
T ss_pred HHHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHhc
Confidence 3467899999999999999999999999998863
No 14
>1kd8_B GABH BLL, GCN4 acid base heterodimer base-D12LA16L; coiled coil heterodimer, de novo protein; 1.90A {Synthetic} SCOP: h.1.3.1 PDB: 1kd9_B 1kdd_B
Probab=46.21 E-value=32 Score=20.79 Aligned_cols=26 Identities=19% Similarity=0.171 Sum_probs=21.0
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhc
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLL 27 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l 27 (287)
+++|=++.+.+..+|+++++.+-+++
T Consensus 6 LE~KVEeLl~~~~~Le~eV~RLk~ll 31 (36)
T 1kd8_B 6 LKAKVEELKSKLWHLKNKVARLKKKN 31 (36)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHHHh
Confidence 56777888888889999888887765
No 15
>3urr_A PTS IIA-like nitrogen-regulatory protein PTSN; structural genomics, seattle structural genomics center for infectious disease, ssgcid; 1.40A {Burkholderia thailandensis} SCOP: d.112.1.0
Probab=44.80 E-value=23 Score=27.69 Aligned_cols=33 Identities=21% Similarity=0.345 Sum_probs=29.1
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-.+.+.++++|++.+++|.+.++....++.|++
T Consensus 118 ~l~~l~~~l~~~~~~~~L~~~~~~~ei~~~l~~ 150 (153)
T 3urr_A 118 ILSEIAQLLSDRDTRERLHTEPDRDELHRLLTQ 150 (153)
T ss_dssp HHHHHHHHHTCHHHHHHHHHCCCHHHHHHHHHS
T ss_pred HHHHHHHHHcCHHHHHHHHhCcCHHHHHHHHHh
Confidence 356788899999999999999999999999876
No 16
>2llw_A Heat shock protein STI1; DP domain, alpha helix, chaperone; NMR {Saccharomyces cerevisiae}
Probab=44.46 E-value=17 Score=25.43 Aligned_cols=29 Identities=7% Similarity=0.196 Sum_probs=21.1
Q ss_pred HHHHhcCCHHHHHHhhchh-hHHHHHHHHH
Q psy17613 22 VVLNLLSNDAVMKQMESVR-DQKTLCTYLT 50 (287)
Q Consensus 22 ~i~~~l~~~~v~~~l~~~r-d~~~~~~~L~ 50 (287)
.|..+|+||+|+..++++. +.....+|+.
T Consensus 21 Ei~~im~DP~~~~~lq~~~~NP~~~~k~~~ 50 (71)
T 2llw_A 21 EVAAIMQDPVMQSILQQAQQNPAALQEHMK 50 (71)
T ss_dssp HHHHHHTCTHHHHHHHHHHHCHHHHHHHHH
T ss_pred HHHHHhCCHHHHHHHHHHHHCHHHHHHHHh
Confidence 3667899999999988776 4445556664
No 17
>1a3a_A Mannitol-specific EII; phosphoenolpyruvate dependent phosphotransferase system, IIA histidine phosphorylation, phosphotransferase; 1.80A {Escherichia coli} SCOP: d.112.1.1 PDB: 1j6t_A 2few_A*
Probab=41.81 E-value=14 Score=28.77 Aligned_cols=33 Identities=15% Similarity=0.318 Sum_probs=29.0
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-.+.+.++++|++.+++|.+.+|.....++|++
T Consensus 114 ~l~~l~~~l~~~~~~~~L~~~~~~~ei~~~l~~ 146 (148)
T 1a3a_A 114 VITSLTNALDDESVIERLAHTTSVDEVLELLAG 146 (148)
T ss_dssp HHHHHHHHTCSHHHHHHHHHCCCHHHHHHHTTT
T ss_pred HHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHhh
Confidence 457788999999999999999999999998864
No 18
>2wq1_A General control protein GCN4; TAA, nucleus, coiled coil, DNA-binding, protein export, ION coordination, polar core residues; 1.08A {Saccharomyces cerevisiae} PDB: 2wq0_A 2wq2_A 2wq3_A 2wpz_A 2wpy_A 1ij0_A 1ij1_A 1gcm_A 1rb5_A 1rb6_A 1rb1_A 1rb4_A 1swi_A 3k7z_A 1zii_A 1zij_A 1ij2_A 1ij3_A 1zil_A 1zim_A ...
Probab=39.83 E-value=47 Score=19.63 Aligned_cols=27 Identities=7% Similarity=0.126 Sum_probs=21.7
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
+++|=++.+.+-.+|++|++.+.+++.
T Consensus 5 LEdKVEell~~~~~le~EV~Rl~~ll~ 31 (33)
T 2wq1_A 5 LEDKIEENTSKIYHNTNEIARNTKLVG 31 (33)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHhc
Confidence 567778888888899999888877764
No 19
>1a6j_A Nitrogen regulatory IIA protein; phosphotransferase system, nitrogen regulation; 2.35A {Escherichia coli} SCOP: d.112.1.1
Probab=36.26 E-value=26 Score=27.65 Aligned_cols=33 Identities=12% Similarity=0.397 Sum_probs=29.2
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-.+.+.++++|++.+++|.+.++.....++|++
T Consensus 123 ~l~~l~~~l~d~~~~~~L~~~~~~~ei~~~l~~ 155 (163)
T 1a6j_A 123 TLSLVAKRLADKTICRRLRAAQSDEELYQIITD 155 (163)
T ss_dssp HHHHHHHHHTCHHHHHHHHHCCSHHHHHHHHHT
T ss_pred HHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHHh
Confidence 456788999999999999999999999999875
No 20
>2hy6_A General control protein GCN4; protein design, parallel heptamer, protein structure, biosyn protein; 1.25A {Saccharomyces cerevisiae} SCOP: h.1.3.1 PDB: 2nrn_A 3crp_A 2b1f_A 3crp_B 2ipz_A 3ck4_A 3ck4_B 2b22_A 1ce9_A
Probab=35.29 E-value=61 Score=19.29 Aligned_cols=26 Identities=15% Similarity=0.162 Sum_probs=20.7
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhc
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLL 27 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l 27 (287)
+++|=+|.+.+-.+|+++++.+-+++
T Consensus 6 LEdkVEeLl~~~~~Le~eV~RL~~ll 31 (34)
T 2hy6_A 6 LADAVEELASANYHLANAVARLAKAV 31 (34)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence 46777888888888888888887765
No 21
>3t43_A HIV epitope-scaffold 4E10_1XIZA_S0_006_C; putative phosphotransferase system, transferase; 1.95A {Artificial gene}
Probab=34.81 E-value=35 Score=27.38 Aligned_cols=32 Identities=13% Similarity=0.309 Sum_probs=26.5
Q ss_pred HHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 20 VTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 20 ~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-+.+.++++|++.+++|.+.++.....+.+++
T Consensus 102 L~~L~~ll~d~~~~~~L~~a~~~e~~~~li~~ 133 (162)
T 3t43_A 102 LWWIMDVIQDADFMQQLLVMNDDEIYQSIYTR 133 (162)
T ss_dssp HHHHHHHTTCHHHHHHHTTSCHHHHHHHHHHH
T ss_pred HHHHHHHHCCHHHHHHHHhCcCHHHHHHHHHH
Confidence 45677899999999999999987777776654
No 22
>3lf6_A Putative phosphotransferase system; epitope-scaffold, immune system; 1.90A {Artificial gene} SCOP: d.112.1.1 PDB: 1xiz_A
Probab=33.42 E-value=36 Score=27.04 Aligned_cols=33 Identities=12% Similarity=0.320 Sum_probs=26.9
Q ss_pred hHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHh
Q psy17613 19 SVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTK 51 (287)
Q Consensus 19 ~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~ 51 (287)
-.+.+.++++|++.+++|.+.+++....+.|++
T Consensus 126 ~L~~l~~ll~d~~~~~~L~~a~~~e~~~~il~~ 158 (161)
T 3lf6_A 126 VLWWIMDVIQDEDFMQQLLVMNDDEIYQSIYTR 158 (161)
T ss_dssp HHHHHHHHHTCHHHHHHTTTCCHHHHHHHHHHH
T ss_pred HHHHHHHHHcCHHHHHHHHhCCCHHHHHHHHHH
Confidence 346788999999999999999887777666654
No 23
>3lpx_A GYRA, DNA gyrase, A subunit; topoisomraseii, ATP-binding, isomerase, nucleo binding; HET: DNA; 2.60A {Colwellia psychrerythraea} SCOP: e.11.1.1 PDB: 2wl2_A* 2y3p_A* 3nuh_A* 1ab4_A
Probab=31.25 E-value=61 Score=31.14 Aligned_cols=45 Identities=11% Similarity=0.234 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcC
Q psy17613 5 RRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFD 54 (287)
Q Consensus 5 kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~ 54 (287)
-|.++.+++++|+++.+.+.++|+|++.+.++=. .-+.-++++||
T Consensus 440 e~~ki~~E~~~l~~~i~~l~~iL~~~~~~~~~i~-----~el~~i~~~~g 484 (500)
T 3lpx_A 440 EHDKILSEYKALLDLIAELMHILATPARLMEVIC-----EELVAIRDEFG 484 (500)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH-----HHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH-----HHHHHHHHHhC
Confidence 4678999999999999999999999987766544 25666777776
No 24
>1kd8_A GABH AIV, GCN4 acid base heterodimer acid-D12IA16V; coiled coil heterodimer, de novo protein; 1.90A {Synthetic} SCOP: h.1.3.1 PDB: 1kdd_A 1kd9_A
Probab=30.91 E-value=77 Score=19.07 Aligned_cols=26 Identities=12% Similarity=0.092 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHHHHHhHhHHHHHHhc
Q psy17613 2 LKQRRVQVVTALQELNTSVTVVLNLL 27 (287)
Q Consensus 2 ~~~kr~~V~~~l~~l~~~~~~i~~~l 27 (287)
+++|=++.+.+-..|++++..+-+++
T Consensus 6 LE~kVEeLl~~~~~Le~EV~RL~~ll 31 (36)
T 1kd8_A 6 LEAEVEEIESEVWHLENEVARLEKEN 31 (36)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence 46677788888888888888887765
No 25
>1c94_A Retro-GCN4 leucine zipper; retro-coiled coil, 4-alpha-helix-bundle, peptide synthesis, gene regulation; 2.08A {Synthetic} SCOP: k.11.1.1
Probab=29.27 E-value=51 Score=19.43 Aligned_cols=33 Identities=21% Similarity=0.389 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchh
Q psy17613 6 RVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVR 40 (287)
Q Consensus 6 r~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~r 40 (287)
|+-|+.+|...+.|.----.++ +||...|+.||
T Consensus 4 regvlkklravenelhynksll--eevkdelqkmr 36 (38)
T 1c94_A 4 REGVLKKLRAVENELHYNKSLL--EEVKDELQKMR 36 (38)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHH--HHHHHHHTTSS
T ss_pred hHHHHHHHHHHHHHHHhhHHHH--HHHHHHHHHHh
Confidence 4567777777777765555555 35556666555
No 26
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA; 2.80A {Staphylococcus aureus}
Probab=28.61 E-value=69 Score=30.90 Aligned_cols=47 Identities=15% Similarity=0.213 Sum_probs=35.9
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcCC
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFDT 55 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~ 55 (287)
..++++.+++++|+++.+.+.++|+||+....+=. .-++-++++||-
T Consensus 454 ~e~~kl~~E~~~l~~ei~~l~~iL~~~~~~~~~i~-----~el~~i~~~yg~ 500 (514)
T 2inr_A 454 TDIVALEGEHKELEALIKQLRHILDNHDALLNVIK-----EELNEIKKKFKS 500 (514)
T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH-----HHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH-----HHHHHHHHHcCC
Confidence 46789999999999999999999999986554433 245556677763
No 27
>3aai_A Copper homeostasis operon regulatory protein; all alpha proteins, 4-helix bundle, transcription; 2.10A {Thermus thermophilus}
Probab=26.96 E-value=1.2e+02 Score=22.09 Aligned_cols=37 Identities=22% Similarity=0.366 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcCCHH-----HHHHhhchh
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLSNDA-----VMKQMESVR 40 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~~~~-----v~~~l~~~r 40 (287)
+.+++++.+|+..+-++.-|.+++|++. |..|+...|
T Consensus 11 ~~k~~~l~RLkRieGQv~gI~rMiEe~~~~C~dIl~QlaAvr 52 (94)
T 3aai_A 11 KVREEARRRLLSAKGHLEGILRMLEDEKVYCVDVLKQLKAVE 52 (94)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTSSEECHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHcCcccHHHHHHHHHHHH
Confidence 4477899999999999999999998765 677766655
No 28
>2pnv_A Small conductance calcium-activated potassium channel protein 2; leucine zipper, SKCA channel, membrane protein; 2.10A {Rattus norvegicus}
Probab=25.14 E-value=66 Score=20.25 Aligned_cols=28 Identities=14% Similarity=0.283 Sum_probs=20.0
Q ss_pred ChhHHHHHHHHHHHHHhHhHHHHHHhcC
Q psy17613 1 TLKQRRVQVVTALQELNTSVTVVLNLLS 28 (287)
Q Consensus 1 e~~~kr~~V~~~l~~l~~~~~~i~~~l~ 28 (287)
|+..|.+++-+++..|+.+.+.+.+.|+
T Consensus 13 el~~r~e~LE~Ri~~LE~KLd~L~~~l~ 40 (43)
T 2pnv_A 13 DLNERSEDFEKRIVTLETKLETLIGSIH 40 (43)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 3567777788888888887777765553
No 29
>4abx_A DNA repair protein RECN; DNA binding protein, ATP binding protein, double break repair, coiled-coil; HET: DNA; 2.04A {Deinococcus radiodurans}
Probab=24.63 E-value=1.6e+02 Score=23.63 Aligned_cols=48 Identities=10% Similarity=0.203 Sum_probs=31.6
Q ss_pred HHHHHHHHHHhHhHHHHHHhcC-CHHHHHHhhchhhHHHHHHHHHhhcCCCc
Q psy17613 7 VQVVTALQELNTSVTVVLNLLS-NDAVMKQMESVRDQKTLCTYLTKEFDTQL 57 (287)
Q Consensus 7 ~~V~~~l~~l~~~~~~i~~~l~-~~~v~~~l~~~rd~~~~~~~L~~~~~~~~ 57 (287)
.++..++++...+.....+-++ ||+-...++. .-..+.-|+++||.++
T Consensus 97 ~~a~~~l~d~~~~L~~y~~~le~DP~rL~~ie~---RL~~l~~L~RKyg~~~ 145 (175)
T 4abx_A 97 RAALESVQAIAGELRDVAEGSAADPEALDRVEA---RLSALSKLKNKYGPTL 145 (175)
T ss_dssp HHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHH---HHHHHHHHHHHHCSSH
T ss_pred HHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH---HHHHHHHHHHHcCCCH
Confidence 3444455555555555555554 7876666665 5568889999999887
No 30
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV, GRAM-positive bacteria, quinolone target, DNA binding, DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae} PDB: 3foe_A* 3fof_A* 3k9f_A* 3ksa_A* 3ksb_A* 3ltn_A* 3rad_A* 3rae_A* 3raf_A*
Probab=24.02 E-value=79 Score=30.36 Aligned_cols=47 Identities=15% Similarity=0.234 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcCC
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFDT 55 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~ 55 (287)
..++++.+++++|+++.+.+.++|+||+...++=. .-++-++++||-
T Consensus 430 ~e~~kl~~E~~~l~~~i~~l~~iL~~~~~~~~~i~-----~el~~i~~~y~~ 476 (496)
T 2nov_A 430 TDVVVLQEEEAELREKIAMLAAIIGDERTMYNLMK-----KELREVKKKFAT 476 (496)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHCTTHHHHHHH-----HHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH-----HHHHHHHHHhCC
Confidence 46789999999999999999999999875444322 234555666653
No 31
>2hl7_A Cytochrome C-type biogenesis protein CCMH; three-helices bundle, oxidoreductase; HET: PG4; 1.70A {Pseudomonas aeruginosa}
Probab=23.34 E-value=48 Score=23.97 Aligned_cols=28 Identities=7% Similarity=0.322 Sum_probs=22.7
Q ss_pred HHHHHHhhchhhHHHHHHHHHhhcCCCc
Q psy17613 30 DAVMKQMESVRDQKTLCTYLTKEFDTQL 57 (287)
Q Consensus 30 ~~v~~~l~~~rd~~~~~~~L~~~~~~~~ 57 (287)
.+|.++|++.+...+.++||.+.||=.+
T Consensus 50 ~~V~~~l~~G~sd~eI~~~~v~RYG~fV 77 (84)
T 2hl7_A 50 KQIYGQLQQGKSDGEIVDYMVARYGDFV 77 (84)
T ss_dssp HHHHHHHHHTCCHHHHHHHHHHHHTTTC
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhcCCee
Confidence 4677788888888999999999998443
No 32
>2kw0_A CCMH protein; oxidoreductase, cytochrome C maturation; NMR {Escherichia coli}
Probab=23.20 E-value=48 Score=24.33 Aligned_cols=28 Identities=14% Similarity=0.386 Sum_probs=22.7
Q ss_pred HHHHHHhhchhhHHHHHHHHHhhcCCCc
Q psy17613 30 DAVMKQMESVRDQKTLCTYLTKEFDTQL 57 (287)
Q Consensus 30 ~~v~~~l~~~rd~~~~~~~L~~~~~~~~ 57 (287)
.+|.++|++.+...+.++|+.+.||=.+
T Consensus 47 ~~Vre~l~~G~Sd~eI~~~mv~RYGdfV 74 (90)
T 2kw0_A 47 QKVYELMQEGKSKKEIVDYMVARYGNFV 74 (90)
T ss_dssp HHHHHHHHHTCCHHHHHHHHHHHHTTTC
T ss_pred HHHHHHHHcCCCHHHHHHHHHHhcCCeE
Confidence 4677788888888999999999998443
No 33
>2ex3_B Protein GP3, DNA terminal protein; DNA polymerase: protein primer complex, transferase-replicat complex; HET: DNA; 3.00A {Bacillus phage PHI29} SCOP: a.263.1.1
Probab=20.37 E-value=1.6e+02 Score=24.30 Aligned_cols=61 Identities=3% Similarity=-0.013 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhc--CCCc---ccccccc
Q psy17613 4 QRRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEF--DTQL---SNCAVYG 64 (287)
Q Consensus 4 ~kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~--~~~~---y~~~~f~ 64 (287)
.+=.||.+.-++-|.-++++++-++|.|+..-=++.-.-.|+.+.|.-.| ||.. ++|-+..
T Consensus 53 aki~EI~~nTKeaQrvvde~~~~~~Dke~isGGk~qGTvgqr~~~lsp~~vtGi~Rp~DFdF~kVr 118 (230)
T 2ex3_B 53 AKIAEIERNTKEVQRLVDEKIKAMKDKEYYAGGKPQGTIEQRIAMTSPAHVTGINRPHDFDFSKVR 118 (230)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHTTHHHHC--------------------CCCCCCCCCCGGGCC
T ss_pred HHHHHHHhccHHHHHHHHHHHHHhcCCcceeCCCCCCcHHhhHhhcChhhcCCCCChhcCChHHHH
Confidence 45678999999999999999999999999988777555558888887555 5554 6666544
No 34
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling, decatenation, DNA bindi topology; 3.00A {Escherichia coli}
Probab=20.31 E-value=1.2e+02 Score=30.48 Aligned_cols=46 Identities=9% Similarity=0.150 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHhHhHHHHHHhcCCHHHHHHhhchhhHHHHHHHHHhhcCC
Q psy17613 5 RRVQVVTALQELNTSVTVVLNLLSNDAVMKQMESVRDQKTLCTYLTKEFDT 55 (287)
Q Consensus 5 kr~~V~~~l~~l~~~~~~i~~~l~~~~v~~~l~~~rd~~~~~~~L~~~~~~ 55 (287)
.+.++.+++++|+++.+.+.++|+|++.+.++=. .-+.-++++||-
T Consensus 403 e~~kl~~E~~eL~~~i~~l~~iL~~~~~l~~~i~-----~EL~~i~~kygd 448 (716)
T 1zvu_A 403 EEMKIRGEQSELEKERDQLQGILASERKMNNLLK-----KELQADAQAYGD 448 (716)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHH-----HHHHHHHHHHCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH-----HHHHHHHHHhCC
Confidence 4788999999999999999999999986655433 245566777774
Done!