Query gi|254781164|ref|YP_003065577.1| hypothetical protein CLIBASIA_05355 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 56 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 22:24:08 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781164.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >3ixz_A Potassium-transporting 31.3 28 0.00083 17.4 2.0 30 15-44 31-60 (140) 2 >1msw_D DNA-directed RNA polym 30.1 21 0.00064 18.0 1.2 21 18-38 6-26 (98) 3 >2dzd_A Pyruvate carboxylase; 19.5 20 0.00058 18.2 -0.7 16 6-26 84-99 (110) 4 >3glk_A Acetyl-COA carboxylase 17.5 23 0.00068 17.8 -0.7 16 6-26 128-143 (159) 5 >3hbl_A Pyruvate carboxylase; 15.8 22 0.00064 18.0 -1.2 6 8-13 84-89 (107) 6 >1am7_A Lysozyme; glycosidase, 12.2 1.2E+02 0.0035 14.1 1.8 19 18-36 23-41 (100) 7 >3c2g_A SYS-1 protein; beta-ca 10.3 1.2E+02 0.0036 14.1 1.3 10 32-41 54-63 (200) 8 >2ytv_A Cold shock domain-cont 9.7 56 0.0017 15.8 -0.6 24 5-28 16-39 (79) 9 >1yvu_A Hypothetical protein A 8.1 1E+02 0.003 14.5 0.2 11 39-49 86-96 (102) 10 >2v6e_A Protelemorase; hairpin 6.9 2.1E+02 0.0063 12.8 1.6 16 33-48 10-25 (125) No 1 >>3ixz_A Potassium-transporting ATPase alpha; ION pump, H+, K+-ATPase, P-type ATPase, membrane protein, hydrolase, aluminium fluoride, ATP-binding; 6.50A {Sus scrofa} PDB: 1iwc_A 1iwf_A (A:344-380,A:764-866) Probab=31.32 E-value=28 Score=17.36 Aligned_cols=30 Identities=27% Similarity=0.568 Sum_probs=26.0 Q ss_pred EECCCCCCHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 604676346667533799999986541640 Q gi|254781164|r 15 RESDGRADFSDISEGIALLNIIYNTMKKPV 44 (56) Q Consensus 15 resdgradfsdisegiallniiyntmkkpv 44 (56) -|.=|.+||+.|-+.|..=.-+|+.+||-+ T Consensus 31 vetlG~vnFssIv~aI~eGR~i~~Nikk~i 60 (140) T 3ixz_A 31 VETLGSTNFASIVTGVEQGRLIFDNLKKSI 60 (140) T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 988615888899999999999999999999 No 2 >>1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP elongation complex, transcription/DNA/RNA complex; 2.10A {Enterobacteria phage T7} (D:1-66,D:248-279) Probab=30.08 E-value=21 Score=17.98 Aligned_cols=21 Identities=29% Similarity=0.377 Sum_probs=15.2 Q ss_pred CCCCCHHHHHHHHHHHHHHHH Q ss_conf 676346667533799999986 Q gi|254781164|r 18 DGRADFSDISEGIALLNIIYN 38 (56) Q Consensus 18 dgradfsdisegiallniiyn 38 (56) -.+.|||||+-.+--.|+.-+ T Consensus 6 ~~k~dFSdi~~a~~pfn~Lad 26 (98) T 1msw_D 6 IAKNDFSDIELAAIPFNTLAD 26 (98) T ss_dssp CCCCCCGGGSCCHHHHHHHTT T ss_pred CCCCHHHHHHHHCCCCHHHHH T ss_conf 132402566663178035666 No 3 >>2dzd_A Pyruvate carboxylase; biotin carboxylase, ligase; 2.40A {Geobacillus thermodenitrificans} (A:1-110) Probab=19.51 E-value=20 Score=18.19 Aligned_cols=16 Identities=44% Similarity=0.742 Sum_probs=9.1 Q ss_pred EEEEEEEEEEECCCCCCHHHH Q ss_conf 720024577604676346667 Q gi|254781164|r 6 LEGYGFLSLRESDGRADFSDI 26 (56) Q Consensus 6 legygflslresdgradfsdi 26 (56) .-||||||- .++|... T Consensus 84 hPGyGflSE-----n~~fa~~ 99 (110) T 2dzd_A 84 HPGYGFLSE-----NIQFAKR 99 (110) T ss_dssp ECCSSSSTT-----CHHHHHH T ss_pred EECHHHHHH-----CHHHHHH T ss_conf 708767544-----7776663 No 4 >>3glk_A Acetyl-COA carboxylase 2; ATP binding, alternative splicing, ATP-binding, biotin, fatty acid biosynthesis, ligase, lipid synthesis, manganese; 2.10A {Homo sapiens} PDB: 3gid_A 2hjw_A (A:1-159) Probab=17.54 E-value=23 Score=17.82 Aligned_cols=16 Identities=19% Similarity=0.495 Sum_probs=9.3 Q ss_pred EEEEEEEEEEECCCCCCHHHH Q ss_conf 720024577604676346667 Q gi|254781164|r 6 LEGYGFLSLRESDGRADFSDI 26 (56) Q Consensus 6 legygflslresdgradfsdi 26 (56) .-||||||- .++|.+. T Consensus 128 hPGyGFLSE-----n~~Fa~~ 143 (159) T 3glk_A 128 WAGWGHASE-----NPKLPEL 143 (159) T ss_dssp ECCSSGGGG-----CTHHHHH T ss_pred ECCCCCCCC-----CHHHHHH T ss_conf 708645364-----9999999 No 5 >>3hbl_A Pyruvate carboxylase; TIM barrel, ligase; HET: BTI ADP; 2.71A {Staphylococcus aureus subsp} PDB: 3bg5_A* 3ho8_A* 3hb9_A* (A:1-107) Probab=15.85 E-value=22 Score=17.96 Aligned_cols=6 Identities=100% Similarity=1.896 Sum_probs=0.0 Q ss_pred EEEEEE Q ss_conf 002457 Q gi|254781164|r 8 GYGFLS 13 (56) Q Consensus 8 gygfls 13 (56) |||||| T Consensus 84 GyGflS 89 (107) T 3hbl_A 84 GYGFLS 89 (107) T ss_dssp TTTTST T ss_pred CCCCCC T ss_conf 844032 No 6 >>1am7_A Lysozyme; glycosidase, transglycosylase, evolution; HET: TRN; 2.30A {Bacteriophage lambda} (A:1-26,A:85-158) Probab=12.20 E-value=1.2e+02 Score=14.14 Aligned_cols=19 Identities=42% Similarity=0.585 Sum_probs=0.0 Q ss_pred CCCCCHHHHHHHHHHHHHH Q ss_conf 6763466675337999999 Q gi|254781164|r 18 DGRADFSDISEGIALLNII 36 (56) Q Consensus 18 dgradfsdisegiallnii 36 (56) .||.|||-.|.-.+-+-+| T Consensus 23 ~~~~DFsP~sQD~~Al~LI 41 (100) T 1am7_A 23 NGRQDFSPKSQDAVALQQI 41 (100) T ss_dssp SSSSCCCHHHHHHHHHHHH T ss_pred CCCCCCCHHHHHHHHHHHH T ss_conf 5566998688999999999 No 7 >>3c2g_A SYS-1 protein; beta-catenin, phylogeny, SYS-1, developmental protein, DNA-binding, nucleus; 2.50A {Caenorhabditis elegans} PDB: 3c2h_A* (A:1-200) Probab=10.28 E-value=1.2e+02 Score=14.06 Aligned_cols=10 Identities=60% Similarity=1.115 Sum_probs=0.0 Q ss_pred HHHHHHHHHH Q ss_conf 9999986541 Q gi|254781164|r 32 LLNIIYNTMK 41 (56) Q Consensus 32 llniiyntmk 41 (56) +|||||..|| T Consensus 54 ~l~ii~dg~k 63 (200) T 3c2g_A 54 ILNIIYDGLK 63 (200) T ss_dssp HHHHHHHHHS T ss_pred HHHHHHCCCC T ss_conf 9999863788 No 8 >>2ytv_A Cold shock domain-containing protein E1; cell-free protein synthesis, beta-barrel, translational regulation, RNA chaperone, RNA/DNA binding; NMR {Homo sapiens} (A:) Probab=9.68 E-value=56 Score=15.80 Aligned_cols=24 Identities=21% Similarity=0.498 Sum_probs=0.0 Q ss_pred EEEEEEEEEEEECCCCCCHHHHHH Q ss_conf 872002457760467634666753 Q gi|254781164|r 5 FLEGYGFLSLRESDGRADFSDISE 28 (56) Q Consensus 5 flegygflslresdgradfsdise 28 (56) |-.||||++.-...|.--|-.+|+ T Consensus 16 fdkGfGFI~~~d~~g~dvF~H~s~ 39 (79) T 2ytv_A 16 VKDQFGFINYEVGDSKKLFFHVKE 39 (79) T ss_dssp CCSSEEEESCCCSSSSSEEEETTT T ss_pred ECCCCEEEEECCCCCCEEEEEHHH T ss_conf 338820888148998378889567 No 9 >>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein, gene regulation; 2.90A {Aquifex aeolicus VF5} (A:168-269) Probab=8.09 E-value=1e+02 Score=14.49 Aligned_cols=11 Identities=64% Similarity=1.062 Sum_probs=0.0 Q ss_pred HHHCCCEECCC Q ss_conf 54164000246 Q gi|254781164|r 39 TMKKPVLSFEN 49 (56) Q Consensus 39 tmkkpvlsfen 49 (56) |.-||||.+|| T Consensus 86 tilkpvltyen 96 (102) T 1yvu_A 86 TILKPVLTYEN 96 (102) T ss_dssp GGEEECCCCC- T ss_pred HHHCHHHCCCC T ss_conf 54011200469 No 10 >>2v6e_A Protelemorase; hairpin telomere, hydrolase, resolvase, protelomerase, DNA distortion; 3.20A {Klebsiella phage PHIKO2} (A:250-297,A:383-459) Probab=6.93 E-value=2.1e+02 Score=12.79 Aligned_cols=16 Identities=38% Similarity=0.978 Sum_probs=0.0 Q ss_pred HHHHHHHHHCCCEECC Q ss_conf 9999865416400024 Q gi|254781164|r 33 LNIIYNTMKKPVLSFE 48 (56) Q Consensus 33 lniiyntmkkpvlsfe 48 (56) ...||....||+.||. T Consensus 10 ~~~~~~~~~~~~~~~~ 25 (125) T 2v6e_A 10 MQAIYDIINKPIVSFD 25 (125) T ss_dssp HHHHHHHHHSCGGGSC T ss_pred HHHHHHHHHHHHHHHH T ss_conf 9999999961222320 Done!