Query 028482
Match_columns 208
No_of_seqs 119 out of 134
Neff 4.4
Searched_HMMs 29240
Date Mon Mar 25 20:18:08 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028482.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028482hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 1m3w_A H10H24; four-helix bund 45.7 21 0.00071 21.6 3.0 23 180-202 3-25 (32)
2 1dzf_A DNA-directed RNA polyme 34.6 23 0.00079 30.1 2.8 37 1-39 1-40 (215)
3 1d1d_A Protein (capsid protein 20.1 46 0.0016 29.0 2.0 14 187-200 186-199 (262)
4 2jyl_A Capsid protein P24 (Ca) 20.0 51 0.0017 24.8 2.0 16 187-202 35-50 (105)
5 1d0c_A Bovine endothelial nitr 19.0 48 0.0017 31.1 2.0 22 181-202 85-106 (444)
6 1eoq_A GAG polyprotein capsid 17.6 59 0.002 24.5 1.9 16 187-202 11-26 (96)
7 1baj_A GAG polyprotein; capsid 17.3 65 0.0022 23.8 2.1 16 187-202 17-32 (101)
8 3c5t_B Exendin-4, exenatide; l 15.8 73 0.0025 19.4 1.6 12 183-194 7-18 (31)
9 3e7m_A Nitric oxide synthase, 15.6 38 0.0013 31.7 0.5 21 181-201 66-86 (433)
10 3n5w_A Nitric oxide synthase; 15.5 66 0.0023 30.0 2.0 21 181-201 56-76 (422)
No 1
>1m3w_A H10H24; four-helix bundle, heme binding, maquette, heme binding protein, electron transport, de novo protein; 2.80A {Synthetic} SCOP: k.8.1.1
Probab=45.69 E-value=21 Score=21.63 Aligned_cols=23 Identities=39% Similarity=0.499 Sum_probs=19.2
Q ss_pred chhhhHHHHHHHHHHHHHHhhhh
Q 028482 180 SGYVDKAAEEFIQKFYKELKNQK 202 (208)
Q Consensus 180 ~~~vD~~Ae~FI~~Fy~qlr~q~ 202 (208)
.++|=+--|||+++|-+-|++..
T Consensus 3 ggeiwklheeflkkfeellklhe 25 (32)
T 1m3w_A 3 GGEIWKLHEEFLKKFEELLKLHE 25 (32)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred cchHHHHHHHHHHHHHHHHHHHH
Confidence 45788889999999999988764
No 2
>1dzf_A DNA-directed RNA polymerases I, II, and III 27 KD polypeptide; RNA polymerase subunit; 1.9A {Saccharomyces cerevisiae} SCOP: c.52.3.1 d.78.1.1 PDB: 1i3q_E 1i50_E 1i6h_E 1k83_E* 1nik_E 1nt9_E 1pqv_E 1r5u_E 1r9s_E* 1r9t_E* 1sfo_E* 1twa_E* 1twc_E* 1twf_E* 1twg_E* 1twh_E* 1wcm_E 1y1v_E 1y1w_E 1y1y_E ...
Probab=34.62 E-value=23 Score=30.11 Aligned_cols=37 Identities=22% Similarity=0.452 Sum_probs=24.4
Q ss_pred CCccCCchhHHHHHHHHHHHHHHHHHh-c--cCcchhhhchH
Q 028482 1 MERSQNVQVIGKRIWSVVRVVFFMLRK-G--LCKRKLLVDLN 39 (208)
Q Consensus 1 meme~~~pvvaKRlW~vvR~v~fMlRK-G--isKrKLmmDl~ 39 (208)
|+||... -..|||.+-|.++-|+|- | ++..-+-+.+.
T Consensus 1 ~~m~~~~--e~~rl~r~rrTv~eMl~DRGY~v~~~e~~~sl~ 40 (215)
T 1dzf_A 1 MDQENER--NISRLWRAFRTVKEMVKDRGYFITQEEVELPLE 40 (215)
T ss_dssp ----CCH--HHHHHHHHHHHHHHHHHHTTBCCCHHHHTCCHH
T ss_pred CCcchHH--HHHHHHHHHHHHHHHHhcCCCccCHhHhcCCHH
Confidence 6777643 356999999999999994 6 56665555553
No 3
>1d1d_A Protein (capsid protein); two independent domains helical bundles, virus/viral protein; NMR {Rous sarcoma virus} SCOP: a.28.3.1 a.73.1.1
Probab=20.08 E-value=46 Score=29.02 Aligned_cols=14 Identities=14% Similarity=0.382 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhh
Q 028482 187 AEEFIQKFYKELKN 200 (208)
Q Consensus 187 Ae~FI~~Fy~qlr~ 200 (208)
-++|++||||.||.
T Consensus 186 f~dfVdRl~kalra 199 (262)
T 1d1d_A 186 FVDFANRLIKAVEG 199 (262)
T ss_dssp HHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHh
Confidence 57899999999997
No 4
>2jyl_A Capsid protein P24 (Ca); HIV-1, carboxy-terminal, dimerization domain, CTD, 3D- NMR, capsid protein (Ca), double mutant; NMR {Human immunodeficiency virus 1} PDB: 2k1c_A* 2l6e_A*
Probab=19.96 E-value=51 Score=24.83 Aligned_cols=16 Identities=25% Similarity=0.835 Sum_probs=13.5
Q ss_pred HHHHHHHHHHHHhhhh
Q 028482 187 AEEFIQKFYKELKNQK 202 (208)
Q Consensus 187 Ae~FI~~Fy~qlr~q~ 202 (208)
-++|+.||++.||..+
T Consensus 35 f~dyVdR~~k~l~ae~ 50 (105)
T 2jyl_A 35 FRDYVDRFYKTLRAEQ 50 (105)
T ss_dssp HHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHhh
Confidence 5679999999999754
No 5
>1d0c_A Bovine endothelial nitric oxide synthase heme DOM; alpha-beta fold, oxidoreductase; HET: HEM INE; 1.65A {Bos taurus} SCOP: d.174.1.1 PDB: 1d0o_A* 1d1v_A* 1d1w_A* 1d1x_A* 1d1y_A* 1dm6_A* 1dm7_A* 1dm8_A* 1dmi_A* 1dmj_A* 1dmk_A* 1ed4_A* 1ed5_A* 1ed6_A* 1foi_A* 1foj_A* 1fol_A* 1foo_A* 1fop_A* 1nse_A* ...
Probab=19.03 E-value=48 Score=31.10 Aligned_cols=22 Identities=23% Similarity=0.493 Sum_probs=18.8
Q ss_pred hhhhHHHHHHHHHHHHHHhhhh
Q 028482 181 GYVDKAAEEFIQKFYKELKNQK 202 (208)
Q Consensus 181 ~~vD~~Ae~FI~~Fy~qlr~q~ 202 (208)
+++-.+|++||..||..++.+.
T Consensus 85 ~~l~~eA~~Fi~~~y~e~~~~~ 106 (444)
T 1d0c_A 85 EQLLSQARDFINQYYSSIKRSG 106 (444)
T ss_dssp HHHHHHHHHHHHHHHHHTTCTT
T ss_pred HHHHHHHHHHHHHHHHhccccc
Confidence 5788999999999999987653
No 6
>1eoq_A GAG polyprotein capsid protein P27; virus/viral protein; NMR {Rous sarcoma virus - prague C} SCOP: a.28.3.1
Probab=17.56 E-value=59 Score=24.54 Aligned_cols=16 Identities=13% Similarity=0.349 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHhhhh
Q 028482 187 AEEFIQKFYKELKNQK 202 (208)
Q Consensus 187 Ae~FI~~Fy~qlr~q~ 202 (208)
.++|..|||+.||..+
T Consensus 11 FrDyVdRf~kalraeq 26 (96)
T 1eoq_A 11 FVDFANRLIKAVEGSD 26 (96)
T ss_dssp HHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHhh
Confidence 5789999999999854
No 7
>1baj_A GAG polyprotein; capsid, HIV-1 assembly protein, viral protein; 2.60A {Human immunodeficiency virus 1} SCOP: a.28.3.1
Probab=17.33 E-value=65 Score=23.79 Aligned_cols=16 Identities=25% Similarity=0.835 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHhhhh
Q 028482 187 AEEFIQKFYKELKNQK 202 (208)
Q Consensus 187 Ae~FI~~Fy~qlr~q~ 202 (208)
-++|+.||++.||..+
T Consensus 17 f~d~v~R~~k~l~~e~ 32 (101)
T 1baj_A 17 FRDYVDRFYKTLRAEQ 32 (101)
T ss_dssp HHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHHHHHhh
Confidence 5789999999998654
No 8
>3c5t_B Exendin-4, exenatide; ligand-bound G protein-coupled receptor extracellular domain protein coupled receptor, glycoprotein, membrane; HET: 10M; 2.10A {Homo sapiens} SCOP: j.6.1.1 PDB: 3c59_B*
Probab=15.78 E-value=73 Score=19.41 Aligned_cols=12 Identities=25% Similarity=0.371 Sum_probs=9.9
Q ss_pred hhHHHHHHHHHH
Q 028482 183 VDKAAEEFIQKF 194 (208)
Q Consensus 183 vD~~Ae~FI~~F 194 (208)
-+++|.+||++.
T Consensus 7 e~~aakdFv~WL 18 (31)
T 3c5t_B 7 EEEAVRLFIEWL 18 (31)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH
Confidence 368899999984
No 9
>3e7m_A Nitric oxide synthase, inducible; NOS, heme, tetrahydrobiopterin, oxido calmodulin-binding, FAD, FMN, iron, metal-binding, NADP, oxidoreductase; HET: HEM H4B AT2; 2.00A {Mus musculus} SCOP: d.174.1.1 PDB: 2y37_A* 1r35_A* 3e67_A* 3e68_A* 3e6l_A* 3e6n_A* 3e6o_A* 3e6t_A* 3e7i_A* 3e65_A* 3e7t_A* 3eai_A* 3ebd_A* 3ebf_A* 3nqs_A* 1m8d_A* 1m8e_A* 1m8h_A* 1m8i_A* 1m9t_A* ...
Probab=15.56 E-value=38 Score=31.69 Aligned_cols=21 Identities=29% Similarity=0.434 Sum_probs=18.1
Q ss_pred hhhhHHHHHHHHHHHHHHhhh
Q 028482 181 GYVDKAAEEFIQKFYKELKNQ 201 (208)
Q Consensus 181 ~~vD~~Ae~FI~~Fy~qlr~q 201 (208)
+++-.+|++||..||..++.+
T Consensus 66 e~l~~eA~~Fi~q~y~e~~~~ 86 (433)
T 3e7m_A 66 EELLPHAIEFINQYYGSFKEA 86 (433)
T ss_dssp HHHHHHHHHHHHHHHTTCSSC
T ss_pred HHHHHHHHHHHHHHHHhcCCC
Confidence 578999999999999887654
No 10
>3n5w_A Nitric oxide synthase; heme enzyme, substrate inhibitor, Zn oxidoreductase, oxidoreductase-oxidoreductase inhibitor COM; HET: HEM XFJ; 1.73A {Rattus norvegicus} SCOP: d.174.1.1 PDB: 2hx3_A* 2hx4_A* 3b3m_A* 3b3n_A* 3b3o_A* 3b3p_A* 3hsn_A* 3hso_A* 3hsp_A* 3jt3_A* 3jt4_A* 3jt5_A* 3jt6_A* 3jt7_A* 3jt8_A* 3jt9_A* 3jta_A* 3n2r_A* 3n5v_A* 1om4_A* ...
Probab=15.47 E-value=66 Score=30.00 Aligned_cols=21 Identities=24% Similarity=0.480 Sum_probs=18.7
Q ss_pred hhhhHHHHHHHHHHHHHHhhh
Q 028482 181 GYVDKAAEEFIQKFYKELKNQ 201 (208)
Q Consensus 181 ~~vD~~Ae~FI~~Fy~qlr~q 201 (208)
+++-.+|++||..+|..++.+
T Consensus 56 e~ll~eA~~Fi~q~y~e~~~~ 76 (422)
T 3n5w_A 56 DQLFPLAKEFLDQYYSSIKRF 76 (422)
T ss_dssp HHHHHHHHHHHHHHHHHTTCT
T ss_pred HHHHHHHHHHHHHHHHhcccc
Confidence 579999999999999999765
Done!