Query gi|254780519|ref|YP_003064932.1| flagellar biosynthesis protein FliQ [Candidatus Liberibacter asiaticus str. psy62] Match_columns 88 No_of_seqs 112 out of 591 Neff 4.8 Searched_HMMs 23785 Date Tue May 31 21:22:50 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780519.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3dhw_A D-methionine transport 14.6 50 0.0021 13.5 1.2 37 5-41 4-40 (217) 2 1v54_M VIIIB, IX, cytochrome C 6.7 1.2E+02 0.0051 11.7 3.3 25 55-79 19-43 (46) 3 3kpe_B Fusion glycoprotein F0; 6.3 1.3E+02 0.0054 11.5 2.2 15 41-55 11-28 (39) 4 1g2c_B Fusion protein (F); mem 5.8 1.4E+02 0.0058 11.4 2.2 15 41-55 16-33 (43) 5 1vf5_E Protein PET L; photosyn 5.8 1.4E+02 0.0058 11.4 1.1 21 24-44 9-29 (32) 6 1brv_A Protein G, BRSV-G regio 5.1 73 0.0031 12.7 -1.1 10 45-54 7-16 (32) 7 2dam_A ETEA protein; KIAA0887, 4.5 1.7E+02 0.0072 10.9 0.5 16 35-50 22-37 (67) 8 2nqb_D Histone H2B; nucleosome 4.5 1.7E+02 0.0073 10.9 2.7 17 70-86 57-73 (123) 9 2wj9_A ARDB, intergenic-region 4.4 1.7E+02 0.0073 10.9 1.3 32 45-76 53-88 (181) 10 3fjv_A Uncharacterized novel p 3.5 2.1E+02 0.0088 10.5 0.5 5 43-47 54-58 (194) No 1 >3dhw_A D-methionine transport system permease protein METI; ABC-transporter, methionine uptake transporter, membrane protein, amino-acid transport; 3.70A {Escherichia coli K12} SCOP: f.58.1.1 Probab=14.56 E-value=50 Score=13.54 Aligned_cols=37 Identities=14% Similarity=0.287 Sum_probs=29.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999999999999 Q gi|254780519|r 5 DVLEIARAAMWTILSSSAPVLFSAMFLGILIAFLQAL 41 (88) Q Consensus 5 ~vi~l~~~al~~~l~ls~P~Ll~alvvGl~Isi~QA~ 41 (88) ...++..+++|..+.++.-....+.+.|+.+|++=+. T Consensus 4 ~~~~l~l~~~~~Tl~~a~~~~~~~~~ig~~lg~~~~~ 40 (217) T 3dhw_A 4 PMMWLLVRGVWETLAMTFVSGFFGFVIGLPVGVLLYV 40 (217) T ss_dssp --CHHHHHHHHHHHHHHHHHHHHHHHTTGGGGGGGGG T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 8999999999999999999999999999999999999 No 2 >1v54_M VIIIB, IX, cytochrome C oxidase polypeptide VIII-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: f.23.7.1 PDB: 1oco_M* 1occ_M* 1ocz_M* 1ocr_M* 1v55_M* 2dyr_M* 2dys_M* 2eij_M* 2eik_M* 2eil_M* 2eim_M* 2ein_M* 2occ_M* 2zxw_M* 3abk_M* 3abl_M* 3abm_M* 3ag1_M* 3ag2_M* 3ag3_M* ... Probab=6.73 E-value=1.2e+02 Score=11.66 Aligned_cols=25 Identities=8% Similarity=0.352 Sum_probs=20.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999 Q gi|254780519|r 55 IIAVFITLIISAPFIGGQISSFVTL 79 (88) Q Consensus 55 liav~~~l~~~~pwm~~~l~~f~~~ 79 (88) +-..+++++.-.+|.++.+-+|-++ T Consensus 19 lt~~f~~fL~PaGWVLshLe~YKk~ 43 (46) T 1v54_M 19 LSVTFLSFLLPAGWVLYHLDNYKKS 43 (46) T ss_dssp HHHHHHHHHHHHHHHHHTHHHHHTC T ss_pred HHHHHHHHHCCHHHHHHHHHHHHHC T ss_conf 9999999980099999869987214 No 3 >3kpe_B Fusion glycoprotein F0; peptide/small-molecule complex, alpha helix, coiled-coil, envelope protein, fusion protein; HET: TM3 PG4; 1.47A {Human respiratory syncytial virus A2} Probab=6.25 E-value=1.3e+02 Score=11.52 Aligned_cols=15 Identities=33% Similarity=0.658 Sum_probs=9.3 Q ss_pred HHHHHH---HHHHHHHHH Q ss_conf 988465---369889999 Q gi|254780519|r 41 LTQIQE---VTLTFVPKI 55 (88) Q Consensus 41 ~TQIQE---qTLsFvPKl 55 (88) ..|++| |.|.|+-|- T Consensus 11 isqvnekinqslafirks 28 (39) T 3kpe_B 11 ISQVNEKINQSLAFIRKS 28 (39) T ss_dssp HHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 999999997889999843 No 4 >1g2c_B Fusion protein (F); membrane fusion, pneumovirus, HRSV, viral protein; 2.30A {Human respiratory syncytial virusstrain rss-2} SCOP: h.3.2.1 Probab=5.82 E-value=1.4e+02 Score=11.39 Aligned_cols=15 Identities=33% Similarity=0.658 Sum_probs=9.4 Q ss_pred HHHHHH---HHHHHHHHH Q ss_conf 988465---369889999 Q gi|254780519|r 41 LTQIQE---VTLTFVPKI 55 (88) Q Consensus 41 ~TQIQE---qTLsFvPKl 55 (88) ..|++| |+|.|+-|- T Consensus 16 isqvnekinqslafirks 33 (43) T 1g2c_B 16 ISQVNEKINQSLAFIRKS 33 (43) T ss_dssp HHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHH T ss_conf 999999997889999843 No 5 >1vf5_E Protein PET L; photosynthesis, membrane protein complex, electron transfer complex; HET: HEM TDS PL9 OPC CLA BCR; 3.00A {Mastigocladus laminosus} SCOP: f.23.24.1 PDB: 2d2c_E* 2e74_E* 2e75_E* 2e76_E* Probab=5.82 E-value=1.4e+02 Score=11.39 Aligned_cols=21 Identities=33% Similarity=0.762 Sum_probs=13.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999884 Q gi|254780519|r 24 VLFSAMFLGILIAFLQALTQI 44 (88) Q Consensus 24 ~Ll~alvvGl~Isi~QA~TQI 44 (88) +...|+.-|..+++.-|..+| T Consensus 9 ivfialffgiavgiifaiksi 29 (32) T 1vf5_E 9 IVFIALFFGIAVGIIFAIKSI 29 (32) T ss_dssp HHHHHHHHHHHHHHHTTTTTS T ss_pred HHHHHHHHHHHHHHEEEEEEE T ss_conf 999999997886321457877 No 6 >1brv_A Protein G, BRSV-G region; attachment protein G of bovine respiratory syncytial virus, immunoglobulin-binding protein; NMR {Bovine respiratory syncytial virus} SCOP: j.33.1.1 Probab=5.13 E-value=73 Score=12.73 Aligned_cols=10 Identities=40% Similarity=0.507 Sum_probs=6.5 Q ss_pred HHHHHHHHHH Q ss_conf 6536988999 Q gi|254780519|r 45 QEVTLTFVPK 54 (88) Q Consensus 45 QEqTLsFvPK 54 (88) +-|||+++|- T Consensus 7 n~qtlpyvpc 16 (32) T 1brv_A 7 NFQTLPYVPC 16 (32) T ss_pred CCCCCCCCCC T ss_conf 5430465454 No 7 >2dam_A ETEA protein; KIAA0887, UBA-like domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=4.52 E-value=1.7e+02 Score=10.93 Aligned_cols=16 Identities=25% Similarity=0.300 Sum_probs=11.8 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 9999999884653698 Q gi|254780519|r 35 IAFLQALTQIQEVTLT 50 (88) Q Consensus 35 Isi~QA~TQIQEqTLs 50 (88) +.-||.+|-|.++.+. T Consensus 22 llqFQdiTGied~~~C 37 (67) T 2dam_A 22 LLQFQDLTGIESMDQC 37 (67) T ss_dssp HHHHHHHHCCSCHHHH T ss_pred HHHHHHHHCCCCHHHH T ss_conf 9999871076759999 No 8 >2nqb_D Histone H2B; nucleosome, NCP, chromatin, structural protein/DNA complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_D* Probab=4.45 E-value=1.7e+02 Score=10.91 Aligned_cols=17 Identities=29% Similarity=0.440 Sum_probs=12.3 Q ss_pred HHHHHHHHHHHHHHHHH Q ss_conf 99999999999999344 Q gi|254780519|r 70 GGQISSFVTLVLSRIQS 86 (88) Q Consensus 70 ~~~l~~f~~~if~~ip~ 86 (88) .+.|.+|..++|++|.. T Consensus 57 m~imnSfv~diferIa~ 73 (123) T 2nqb_D 57 MSIMNSFVNDIFERIAA 73 (123) T ss_dssp HHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHH T ss_conf 99999999999999999 No 9 >2wj9_A ARDB, intergenic-region protein; antirestriction, hydrolase inhibitor; 1.62A {Escherichia coli} Probab=4.40 E-value=1.7e+02 Score=10.88 Aligned_cols=32 Identities=9% Similarity=0.168 Sum_probs=16.8 Q ss_pred HHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHH Q ss_conf 65369889999999----999999999999999999 Q gi|254780519|r 45 QEVTLTFVPKIIAV----FITLIISAPFIGGQISSF 76 (88) Q Consensus 45 QEqTLsFvPKliav----~~~l~~~~pwm~~~l~~f 76 (88) .||-++|.||.... ...=-....||-+...+| T Consensus 53 d~~Rl~FlP~~FG~~~~~~~~E~~Vy~~m~rlc~dY 88 (181) T 2wj9_A 53 DEQRISFWPQHFGLIPQWVTLEPRVFGWMDRLCENY 88 (181) T ss_dssp HHHHTTHHHHHHTTSTTGGGHHHHHHHHHHHHC--- T ss_pred HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHCCCC T ss_conf 778876589885757888988999999999764367 No 10 >3fjv_A Uncharacterized novel protein; YP_111841.1, novel protein of unknown function, structural genomics; HET: MSE; 1.90A {Burkholderia pseudomallei K96243} Probab=3.54 E-value=2.1e+02 Score=10.50 Aligned_cols=5 Identities=60% Similarity=0.873 Sum_probs=0.0 Q ss_pred HHHHH Q ss_conf 84653 Q gi|254780519|r 43 QIQEV 47 (88) Q Consensus 43 QIQEq 47 (88) ||||| T Consensus 54 QIqEM 58 (194) T 3fjv_A 54 QIHEM 58 (194) T ss_dssp HHHHH T ss_pred HHHHH T ss_conf 99999 Done!