Query gi|254781214|ref|YP_003065627.1| hypothetical protein CLIBASIA_05605 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 110 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Wed Jun 1 02:20:23 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781214.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 1vk5_A Expressed protein; stru 43.8 3.5 0.00015 21.0 -0.3 26 73-99 35-60 (157) 2 2zfd_B Putative uncharacterize 12.6 53 0.0022 14.7 0.9 15 13-27 13-27 (123) 3 3iyl_U Core protein VP6; non-e 8.0 37 0.0016 15.5 -1.3 31 35-65 216-246 (412) 4 2blf_A SORA, sulfite\:cytochro 7.6 58 0.0025 14.5 -0.4 25 72-96 172-196 (373) 5 2ehb_D CBL-interacting serine/ 7.4 1.1E+02 0.0046 13.1 0.9 13 13-25 14-26 (143) 6 1v66_A Protein inhibitor of ac 6.3 1.5E+02 0.0064 12.3 1.1 25 42-67 16-40 (65) 7 2c7n_A Rabex-5, GEF 1, RAB gua 5.5 1.2E+02 0.0052 12.8 0.3 12 49-60 23-34 (74) 8 2kjf_A Carnocyclin-A; circular 4.8 1.1E+02 0.0047 13.0 -0.3 29 8-36 12-40 (60) 9 2vak_A Sigma A; double-strande 4.7 86 0.0036 13.6 -1.0 29 36-64 227-255 (423) 10 1xdy_A Bacterial sulfite oxida 4.5 1.5E+02 0.0063 12.3 0.1 27 70-96 162-188 (298) No 1 >1vk5_A Expressed protein; structural genomics, unknown function, protein structure initiative, center for eukaryotic structural genomics, CESG; HET: CPS; 1.60A {Arabidopsis thaliana} SCOP: a.220.1.1 PDB: 2q3t_A* 3gan_A* Probab=43.75 E-value=3.5 Score=20.98 Aligned_cols=26 Identities=38% Similarity=0.648 Sum_probs=18.5 Q ss_pred HHHHHHHHHHHHHHHCCCCCCCHHHHC Q ss_conf 799988664233433025766133304 Q gi|254781214|r 73 ELAEVRRQESLRAYEMNRIPIPARRFT 99 (110) Q Consensus 73 elaevrrqeslrayemnripiparrft 99 (110) |-+-.||.|-...| |..||||+.|-. T Consensus 35 e~~lirrAEmYQ~y-MkqiPIP~~~~s 60 (157) T 1vk5_A 35 EGSLLRRAEMYQDY-MKQVPIPTNRGS 60 (157) T ss_dssp -CTTHHHHHHHHHH-HHTSCCCSSCCS T ss_pred CHHHHHHHHHHHHH-HHHCCCCCCCCC T ss_conf 07899999999999-873898856686 No 2 >2zfd_B Putative uncharacterized protein T20L15_90; calcium binding protein, protein-protein complex, ATP- binding, kinase, nucleotide-binding; 1.20A {Arabidopsis thaliana} Probab=12.63 E-value=53 Score=14.72 Aligned_cols=15 Identities=47% Similarity=0.787 Sum_probs=12.3 Q ss_pred HHHCCCCHHHHHHHH Q ss_conf 220011112344346 Q gi|254781214|r 13 SLSSGFKLGSIFGPV 27 (110) Q Consensus 13 slssgfklgsifgpv 27 (110) |+|+||.|..+|..- T Consensus 13 S~S~GfDLSgLFe~~ 27 (123) T 2zfd_B 13 SGSPGFNLSGLFGDA 27 (123) T ss_dssp HTSTTSSSGGGGGGG T ss_pred HHCCCCCHHHHCCCC T ss_conf 867687816751865 No 3 >3iyl_U Core protein VP6; non-enveloped virus, membrane penetration protein, autocleav myristol group, icosahedral virus; HET: MYR; 3.30A {Grass carp reovirus} PDB: 3k1q_D Probab=7.96 E-value=37 Score=15.54 Aligned_cols=31 Identities=19% Similarity=0.312 Sum_probs=22.7 Q ss_pred HHHHHHHHHHHHHHHHHHCCCHHHCHHHHHC Q ss_conf 3123221223444444421521212247748 Q gi|254781214|r 35 MGGAAGLYSEWDTIGGFFGSSQKEGKKEEEG 65 (110) Q Consensus 35 mggaaglysewdtiggffgssqkegkkeeeg 65 (110) .+--.|.-..=.||.|||=++.|+|+.+|.- T Consensus 216 ~lS~tGvvhqn~T~~GFyF~~k~rg~s~d~~ 246 (412) T 3iyl_U 216 FGSLTGRLNRSRTCNGFYFEFAKPALNPDQA 246 (412) T ss_dssp HHHTTSSSSSSSBSSSCCEECCCTTSCCCCC T ss_pred HHHHEEEECCCCEEEEEEEECCCCCCCCCCE T ss_conf 9976115537864633787547787784111 No 4 >2blf_A SORA, sulfite\:cytochrome C oxidoreductase subunit A; sulfite oxidase, molybdopterin, C-type cytochrome, heme, electron transport; HET: MSS HEC; 1.8A {Starkeya novella} PDB: 2bpb_A* 2c9x_A* 2ca3_A* 2ca4_A* Probab=7.60 E-value=58 Score=14.51 Aligned_cols=25 Identities=24% Similarity=0.288 Sum_probs=19.9 Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCHH Q ss_conf 2799988664233433025766133 Q gi|254781214|r 72 DELAEVRRQESLRAYEMNRIPIPAR 96 (110) Q Consensus 72 delaevrrqeslrayemnripipar 96 (110) -.|.++...+.|-||+||--|+|.. T Consensus 172 lpl~~a~~~~~lLAy~mNGepL~~~ 196 (373) T 2blf_A 172 LSIDHATDGEVMLAYSMNGADLPWL 196 (373) T ss_dssp EEHHHHTSSCSEEEEEETTEECCGG T ss_pred CCHHHHHCCCCEEEEEECCEECCCC T ss_conf 5599962868289961599599701 No 5 >2ehb_D CBL-interacting serine/threonine-protein kinase 24; protein complex, Ca(II) IONS bound to SOS3 (EF-hands 1 and 4), SOS2 FISL motif; 2.10A {Arabidopsis thaliana} Probab=7.42 E-value=1.1e+02 Score=13.07 Aligned_cols=13 Identities=38% Similarity=0.838 Sum_probs=11.3 Q ss_pred HHHCCCCHHHHHH Q ss_conf 2200111123443 Q gi|254781214|r 13 SLSSGFKLGSIFG 25 (110) Q Consensus 13 slssgfklgsifg 25 (110) |+|+||.|..+|. T Consensus 14 s~S~g~dLSgLFe 26 (143) T 2ehb_D 14 TLSQGLNLSALFD 26 (143) T ss_dssp TTCTTTCGGGGGC T ss_pred HHCCCCCCHHHHC T ss_conf 8776889367607 No 6 >1v66_A Protein inhibitor of activated STAT protein 1; four helix bundle, riken structural genomics/proteomics initiative, RSGI, structural genomics; NMR {Homo sapiens} SCOP: a.140.2.1 Probab=6.29 E-value=1.5e+02 Score=12.30 Aligned_cols=25 Identities=32% Similarity=0.476 Sum_probs=17.7 Q ss_pred HHHHHHHHHHHCCCHHHCHHHHHCCC Q ss_conf 22344444442152121224774878 Q gi|254781214|r 42 YSEWDTIGGFFGSSQKEGKKEEEGVR 67 (110) Q Consensus 42 ysewdtiggffgssqkegkkeeegvr 67 (110) -||-.++=||+|.+ |-|+|.|---| T Consensus 16 VsELQ~LLg~~gr~-KsGrK~eL~~R 40 (65) T 1v66_A 16 VSELQVLLGYAGRN-KHGRKHELLTK 40 (65) T ss_dssp HHHHHHHHHTTCCC-CCSCHHHHHHH T ss_pred HHHHHHHHHHCCCC-CCCCHHHHHHH T ss_conf 89999999983998-76757999999 No 7 >2c7n_A Rabex-5, GEF 1, RAB guanine nucleotide exchange factor 1; protein-binding, ubiquitin binding domain, endocytosis, nuclear protein, polyprotein; 2.1A {Homo sapiens} SCOP: g.39.1.15 PDB: 2c7m_A 2fif_B 2fid_B Probab=5.54 E-value=1.2e+02 Score=12.78 Aligned_cols=12 Identities=25% Similarity=0.667 Sum_probs=9.0 Q ss_pred HHHHCCCHHHCH Q ss_conf 444215212122 Q gi|254781214|r 49 GGFFGSSQKEGK 60 (110) Q Consensus 49 ggffgssqkegk 60 (110) -||||+...+|- T Consensus 23 CGf~G~~~~~~~ 34 (74) T 2c7n_A 23 CGYYGNPAWQGF 34 (74) T ss_dssp SSSCCCGGGTTC T ss_pred CCCCCCCCCCCC T ss_conf 888788110772 No 8 >2kjf_A Carnocyclin-A; circular bacteriocin, antimicrobial peptide, solution helical, saposin-fold, antibiotic, antimicrobial, bacteriocin; NMR {Carnobacterium maltaromaticum} Probab=4.78 E-value=1.1e+02 Score=12.99 Aligned_cols=29 Identities=41% Similarity=0.637 Sum_probs=21.0 Q ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHHHH Q ss_conf 11001220011112344346788877631 Q gi|254781214|r 8 VKFGSSLSSGFKLGSIFGPVGGVIGGLMG 36 (110) Q Consensus 8 vkfgsslssgfklgsifgpvggvigglmg 36 (110) -|.-|-...|...|||..-.|||.-||-| T Consensus 12 ekvvslinagltvgsiisilggvtvglsg 40 (60) T 2kjf_A 12 EKVVSLINAGLTVGSIISILGGVTVGLSG 40 (60) T ss_dssp HHHHHHHTTTCCHHHHHHHHCSSCTTTHH T ss_pred HHHHHHHHCCCHHHHHHHHHCCCEECHHH T ss_conf 99999997364166788765472550035 No 9 >2vak_A Sigma A; double-stranded RNA binding, RNA, viral protein; 2.34A {Avian orthoreovirus} Probab=4.68 E-value=86 Score=13.63 Aligned_cols=29 Identities=28% Similarity=0.417 Sum_probs=20.7 Q ss_pred HHHHHHHHHHHHHHHHHCCCHHHCHHHHH Q ss_conf 12322122344444442152121224774 Q gi|254781214|r 36 GGAAGLYSEWDTIGGFFGSSQKEGKKEEE 64 (110) Q Consensus 36 ggaaglysewdtiggffgssqkegkkeee 64 (110) +--.|.-..=.||.|||=++.|+|+.+|. T Consensus 227 lS~tGvvhqnrT~~GFyF~~k~rg~s~d~ 255 (423) T 2vak_A 227 LSYIGVVNQTNTISGFYFSSKTRGQALDS 255 (423) T ss_dssp HHHTTSSBTTEEBTTEEEECSSSSSTTCC T ss_pred HHHEEEECCCCEEEEEEEECCCCCCCCCC T ss_conf 97601543786564378634777778513 No 10 >1xdy_A Bacterial sulfite oxidase; bioinformatics, sequence analysis, electron transfer, oxidoreductase, molybdoenzymes, molybdopterin; HET: MTE; 2.20A {Escherichia coli} SCOP: d.176.1.1 PDB: 1xdq_A* Probab=4.45 E-value=1.5e+02 Score=12.34 Aligned_cols=27 Identities=22% Similarity=0.273 Sum_probs=21.9 Q ss_pred CCHHHHHHHHHHHHHHHHCCCCCCCHH Q ss_conf 612799988664233433025766133 Q gi|254781214|r 70 EGDELAEVRRQESLRAYEMNRIPIPAR 96 (110) Q Consensus 70 egdelaevrrqeslrayemnripipar 96 (110) ++-.+.+....+.|-||+||--|+|.. T Consensus 162 ~sLple~Am~~~~lLA~~mnGepLp~~ 188 (298) T 1xdy_A 162 EGLRLDEAMHPLTLMTVGVYGKALPPQ 188 (298) T ss_dssp EEEEHHHHHSTTCEEEEEETTEECCGG T ss_pred CCCCHHHHHCCCCEEEEEECCEECCHH T ss_conf 112289951765187611288678665 Done!