Query gi|254780894|ref|YP_003065307.1| hypothetical protein CLIBASIA_03955 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 103 No_of_seqs 46 out of 48 Neff 3.9 Searched_HMMs 33803 Date Wed Jun 1 18:21:10 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780894.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3i1g_A General control protei 54.4 14 0.00041 17.7 3.4 31 21-51 1-31 (33) 2 >2cly_A ATP synthase B chain, 38.5 28 0.00083 15.8 5.4 54 44-97 53-112 (214) 3 >2wq1_A General control protei 33.1 34 0.001 15.2 4.3 32 21-52 1-32 (33) 4 >3c3f_A Alpha/beta peptide wit 28.1 41 0.0012 14.7 4.3 31 21-51 2-32 (34) 5 >1czq_A IQN17, fusion protein 24.5 48 0.0014 14.3 3.4 29 21-49 2-30 (46) 6 >2jo8_A Serine/threonine-prote 22.5 42 0.0012 14.7 1.5 21 10-30 7-27 (51) 7 >2bni_A General control protei 21.3 55 0.0016 13.9 3.8 31 21-51 2-32 (34) 8 >1ykh_A RNA polymerase II medi 21.3 56 0.0016 13.9 5.3 33 3-35 73-105 (108) 9 >1ihq_A Chimeric peptide glytm 19.7 60 0.0018 13.7 4.9 32 21-52 6-37 (38) 10 >2o0a_A S.cerevisiae chromosom 18.7 39 0.0011 14.9 0.7 16 69-84 10-25 (298) No 1 >>3i1g_A General control protein GCN4; leucine zipper, peptide, synthetic peptide, helix, double helix, activator, amino-acid biosynthesis, DNA- binding; 1.60A {Synthetic} PDB: 2ahp_A* 2o7h_A (A:) Probab=54.41 E-value=14 Score=17.73 Aligned_cols=31 Identities=29% Similarity=0.369 Sum_probs=24.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999971 Q gi|254780894|r 21 QLQQLRATILEFRRIVADLEKQIAIEERQVG 51 (103) Q Consensus 21 ~laql~~m~~ef~~~~~~LE~qI~~Ee~~ag 51 (103) ++.||+..+.++.-...+||.+++-=.+-.| T Consensus 1 rm~qlEdkveElL~kn~~lEnEvarlk~lig 31 (33) T 3i1g_A 1 RMAQLEAKVEELLSKNWNLENEVARLKKLVG 31 (33) T ss_dssp -CCHHHHHHHHHHHHHHHHHHHHHHHHHHTT T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 9467899999999988768889999999856 No 2 >>2cly_A ATP synthase B chain, mitochondrial; mitochondrion, ION transport, CF(0), stator, transport, acetylation, hydrogen ION transport; 2.8A {Bos taurus} (A:) Probab=38.51 E-value=28 Score=15.79 Aligned_cols=54 Identities=6% Similarity=-0.118 Sum_probs=35.9 Q ss_pred HHHHHHHHCCC------CCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999971577------0014318999999999999999999999999999999999999 Q gi|254780894|r 44 AIEERQVGIYD------KDHFAYPILAKSARQRIDNLLLSIRDLLLRQESLESHLESESN 97 (103) Q Consensus 44 ~~Ee~~agi~d------~~hFaY~tfAraa~~RRdnL~~Si~~l~~Q~e~a~~~L~~a~~ 97 (103) ..|+-+..++. ..+|.||.+....-.|++++..++.+.+...+++...+.+.-. T Consensus 53 ~n~e~~~~i~F~i~~~l~~k~~~~~i~~~ld~R~~~I~~~l~~a~~~~~ea~~~~~e~~~ 112 (214) T 2cly_A 53 ITPETFSAISTIGFLVYIVKKYGASVGEFADKLNEQKIAQLEEVKQASIKQIQDAIDMEK 112 (214) T ss_dssp --------------------------CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred ECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 880799999999999999999899999999998999999999999999999999999999 No 3 >>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 1zii_A 1zij_A 1ij2_A 1ij3_A 1zil_A 1zim_A 1zik_A ... (A:) Probab=33.13 E-value=34 Score=15.25 Aligned_cols=32 Identities=25% Similarity=0.270 Sum_probs=26.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999999999715 Q gi|254780894|r 21 QLQQLRATILEFRRIVADLEKQIAIEERQVGI 52 (103) Q Consensus 21 ~laql~~m~~ef~~~~~~LE~qI~~Ee~~agi 52 (103) ++.||+..+.++.-.+-.+|.+|+--.+..|. T Consensus 1 rmkqledkiee~lskiyh~eneiar~kklige 32 (33) T 2wq1_A 1 RMKQLEDKIEENTSKIYHNTNEIARNTKLVGE 32 (33) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 92688999999999999868999999988547 No 4 >>3c3f_A Alpha/beta peptide with the GCN4-PLI SIDE chain sequence on AN (alpha-alpha-alpha-beta)...; helix bundle, foldamer, coiled coil, unknown function; HET: B3K B3D B3E BIL B3L BAL; 2.00A {Synthetic} (A:) Probab=28.08 E-value=41 Score=14.71 Aligned_cols=31 Identities=10% Similarity=0.165 Sum_probs=25.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999971 Q gi|254780894|r 21 QLQQLRATILEFRRIVADLEKQIAIEERQVG 51 (103) Q Consensus 21 ~laql~~m~~ef~~~~~~LE~qI~~Ee~~ag 51 (103) ++.|++..+.++.-..-.||.+|+-=.+..| T Consensus 2 rmkq~edkiee~lsk~yhleneiar~kklig 32 (34) T 3c3f_A 2 RMXQIEXKLEXILSXLYHXENEXARIXKLLX 32 (34) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 1879999999999999870008999999985 No 5 >>1czq_A IQN17, fusion protein between the hydrophobic pocket of HIV GP41 and GCN4-PIQI; envelope glycoprotein, coiled coil, viral protein/viral protein inhibitor complex; HET: DAR DHI DTR; 1.50A {Saccharomyces cerevisiae} (A:) Probab=24.53 E-value=48 Score=14.31 Aligned_cols=29 Identities=21% Similarity=0.306 Sum_probs=22.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999999999999999 Q gi|254780894|r 21 QLQQLRATILEFRRIVADLEKQIAIEERQ 49 (103) Q Consensus 21 ~laql~~m~~ef~~~~~~LE~qI~~Ee~~ 49 (103) ++.|++..+.|+.-..-.+|.+|+-=.+. T Consensus 2 RMKQiEDkiEEilSK~yhiENEiARiKKL 30 (46) T 1czq_A 2 RMKQIEDKIEEIESKQKKIENEIARIKKL 30 (46) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 16688899999999888888899999999 No 6 >>2jo8_A Serine/threonine-protein kinase 4; C-terminal domain, human mammalian sterIle 20-like kinase 1, dimer, transferase; NMR {Homo sapiens} (A:) Probab=22.51 E-value=42 Score=14.69 Aligned_cols=21 Identities=24% Similarity=0.420 Sum_probs=16.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999889999999999999999 Q gi|254780894|r 10 LKEFRLNDERRQLQQLRATIL 30 (103) Q Consensus 10 Lk~fqVdEkRR~laql~~m~~ 30 (103) ||.+-++|.+++|+-|+.++. T Consensus 7 Lk~ls~eeL~~rl~sLD~~ME 27 (51) T 2jo8_A 7 LKSWTVEDLQKRLLALDPMME 27 (51) T ss_dssp GGGSCHHHHHHHHHHHHHHHH T ss_pred HHHCCHHHHHHHHHHCCHHHH T ss_conf 986689999999986678899 No 7 >>2bni_A General control protein GCN4; four helix bundle, antiparallel four helix bundle acyl transferase; HET: TYZ; 1.5A {Saccharomyces cerevisiae} (A:) Probab=21.35 E-value=55 Score=13.91 Aligned_cols=31 Identities=13% Similarity=0.228 Sum_probs=24.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999971 Q gi|254780894|r 21 QLQQLRATILEFRRIVADLEKQIAIEERQVG 51 (103) Q Consensus 21 ~laql~~m~~ef~~~~~~LE~qI~~Ee~~ag 51 (103) ++.||+..+.++.-.+-.+|.+|+-=.+..| T Consensus 2 rmkqiEDkiEEiLSK~yHieNE~ARikklig 32 (34) T 2bni_A 2 RMKQIEDKLEEILSKGHHICNELARIKKLLG 32 (34) T ss_dssp -CHHHHHHHHHHHHHHHHHHHHHHHHHHHC- T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 1778989999999999988889999999866 No 8 >>1ykh_A RNA polymerase II mediator complex protein MED7; gene regulation; 3.00A {Saccharomyces cerevisiae} (A:) Probab=21.30 E-value=56 Score=13.91 Aligned_cols=33 Identities=15% Similarity=0.167 Sum_probs=24.6 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 678889999988999999999999999999999 Q gi|254780894|r 3 LQEQRTRLKEFRLNDERRQLQQLRATILEFRRI 35 (103) Q Consensus 3 sretLIRLk~fqVdEkRR~laql~~m~~ef~~~ 35 (103) +|+|||-+=+-|+++++-.+.++....++.... T Consensus 73 AResLi~~le~Qi~~k~~~i~~~~~~~~~~~~~ 105 (108) T 1ykh_A 73 SRESLIMLLEEQLEYKRGEIREIEQVCKQVHDK 105 (108) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999999999999998 No 9 >>1ihq_A Chimeric peptide glytm1BZIP: tropomyosin alpha chain, brain-3 and general control...; tropomyosin,EXON 1B,actin-binding; NMR {Rattus norvegicus} (A:) Probab=19.72 E-value=60 Score=13.70 Aligned_cols=32 Identities=25% Similarity=0.332 Sum_probs=25.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC Q ss_conf 99999999999999999999999999999715 Q gi|254780894|r 21 QLQQLRATILEFRRIVADLEKQIAIEERQVGI 52 (103) Q Consensus 21 ~laql~~m~~ef~~~~~~LE~qI~~Ee~~agi 52 (103) .+.|++..+.++.-..-.||.+|+-=.+..|. T Consensus 6 ~mkq~edKieellsknYHlENevARlkkLvGE 37 (38) T 1ihq_A 6 SLEAVRRKIRSLQEQNYHLENEVARLKKLVGE 37 (38) T ss_dssp SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC T ss_conf 69999999998998745689899999998457 No 10 >>2o0a_A S.cerevisiae chromosome XVI reading frame ORF YPL253C; VIK1, motor homology domain, kinesin, motor domain, microtubule-binding; 1.60A {Saccharomyces cerevisiae} (A:) Probab=18.73 E-value=39 Score=14.89 Aligned_cols=16 Identities=25% Similarity=-0.045 Sum_probs=12.5 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 9999999999999999 Q gi|254780894|r 69 QRIDNLLLSIRDLLLR 84 (103) Q Consensus 69 ~RRdnL~~Si~~l~~Q 84 (103) -||.+|.+||.|+++. T Consensus 10 ~rRRkLeNSIdElkG~ 25 (298) T 2o0a_A 10 LRSRRLENSIIEQKGT 25 (298) T ss_dssp HHHHHHHHHHHHHHTC T ss_pred HHHHHHHHHHHHHHCE T ss_conf 9998887559986251 Done!