Query gi|254781125|ref|YP_003065538.1| hypothetical protein CLIBASIA_05135 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 59 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Wed Jun 1 00:59:11 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781125.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2o0j_A Terminase, DNA packagin 13.2 43 0.0018 15.5 0.5 12 4-15 132-143 (385) 2 1mg7_A Early switch protein XO 10.1 43 0.0018 15.5 -0.3 25 2-27 22-48 (417) 3 3cpe_A Terminase, DNA packagin 9.1 87 0.0037 13.8 1.0 11 4-14 132-142 (592) 4 1xrs_A D-lysine 5,6-aminomutas 8.6 26 0.0011 16.6 -1.9 20 19-38 256-277 (516) 5 1b34_B Protein (small nuclear 8.2 1.3E+02 0.0053 13.0 1.6 21 18-38 55-75 (118) 6 3kfu_G Glutamyl-tRNA(Gln) amid 7.1 1.2E+02 0.005 13.1 0.9 30 2-35 35-64 (92) 7 3kwr_A Putative RNA-binding pr 7.0 1.3E+02 0.0056 12.8 1.2 13 23-35 8-20 (97) 8 3kp1_A D-ornithine aminomutase 5.8 31 0.0013 16.3 -2.7 17 19-35 180-196 (763) 9 2yxy_A Hypothetical conserved 5.6 1.7E+02 0.0073 12.2 1.3 12 48-59 46-57 (115) 10 3eap_A RHO GTPase-activating p 5.2 81 0.0034 14.0 -0.8 10 33-42 82-91 (271) No 1 >2o0j_A Terminase, DNA packaging protein GP17; nucleotide-binding fold, hydrolase; HET: DNA ADP; 1.80A {Enterobacteria phage T4} PDB: 2o0h_A* 2o0k_A* Probab=13.20 E-value=43 Score=15.52 Aligned_cols=12 Identities=25% Similarity=0.556 Sum_probs=8.6 Q ss_pred HHHHHHHCCCCC Q ss_conf 899998507864 Q gi|254781125|r 4 ILEYIRCLNDPN 15 (59) Q Consensus 4 ileyirclndpn 15 (59) |.||++|.+||- T Consensus 132 ~~e~~kc~~dp~ 143 (385) T 2o0j_A 132 VEEWKKCRDDIV 143 (385) T ss_dssp HHHHHHHHHCHH T ss_pred HHHHHHHHCCHH T ss_conf 999999841989 No 2 >1mg7_A Early switch protein XOL-1 2.2K splice form; alpha-beta, gene regulation; 1.55A {Caenorhabditis elegans} SCOP: d.14.1.6 d.58.26.6 Probab=10.08 E-value=43 Score=15.50 Aligned_cols=25 Identities=44% Similarity=0.757 Sum_probs=16.7 Q ss_pred CHHHHHHHHCCCCCE--EEEECCCCCEE Q ss_conf 248999985078641--47302587503 Q gi|254781125|r 2 SPILEYIRCLNDPNR--YRLSAKDPHYN 27 (59) Q Consensus 2 spileyirclndpnr--yrlsakdphyn 27 (59) +|.+.|..|+||||- -|+.+ .||-- T Consensus 22 ~~~~t~~e~~~~~~~~~~~~~~-APHvV 48 (417) T 1mg7_A 22 SPVLTYMETEDDPNFRNSKLAA-APHTV 48 (417) T ss_dssp CHHHHTC----------CEEEE-EEEEE T ss_pred CCCEEEEEECCCCCCCCCCCCC-CCEEE T ss_conf 7622688731687766653467-87177 No 3 >3cpe_A Terminase, DNA packaging protein GP17; large terminase, alternative initiation, ATP-binding, DNA- binding, hydrolase, nuclease; HET: DNA; 2.80A {Bacteriophage T4} PDB: 3ezk_A* Probab=9.08 E-value=87 Score=13.81 Aligned_cols=11 Identities=27% Similarity=0.673 Sum_probs=6.8 Q ss_pred HHHHHHHCCCC Q ss_conf 89999850786 Q gi|254781125|r 4 ILEYIRCLNDP 14 (59) Q Consensus 4 ileyirclndp 14 (59) |.||.+|.+|| T Consensus 132 ~~e~~kc~~d~ 142 (592) T 3cpe_A 132 VEEWKKCRDDI 142 (592) T ss_dssp HHHHHHHHTCH T ss_pred HHHHHHHHCCH T ss_conf 99999874088 No 4 >1xrs_A D-lysine 5,6-aminomutase alpha subunit; TIM barrel, rossmann domain, PLP, cobalamin, 5'- deoxyadenosine, radical, adenosylcobalamin; HET: B12 PLP 5AD; 2.80A {Clostridium sticklandii} SCOP: c.1.19.4 Probab=8.57 E-value=26 Score=16.64 Aligned_cols=20 Identities=30% Similarity=0.557 Sum_probs=14.2 Q ss_pred EECCCCCEEEEEECCCH--HHH Q ss_conf 30258750378711143--778 Q gi|254781125|r 19 LSAKDPHYNVIFRDEVP--SFI 38 (59) Q Consensus 19 lsakdphynvifrdevp--sfi 38 (59) .--.||.||++|||--+ ||+ T Consensus 256 ~~lnD~~YgILfRdINm~Rtfv 277 (516) T 1xrs_A 256 VMLNDALYGILFRDINMQRTMI 277 (516) T ss_dssp EEECCSSHHHHHHCBCHHHHHH T ss_pred HHHCCHHHCHHCCCCCHHHHHH T ss_conf 2220223320003664355688 No 5 >1b34_B Protein (small nuclear ribonucleoprotein SM D2); snRNP, splicing, spliceosome, core snRNP domain, systemic lupus erythematosus, SLE; 2.50A {Homo sapiens} SCOP: b.38.1.1 PDB: 3cw1_C Probab=8.17 E-value=1.3e+02 Score=12.95 Aligned_cols=21 Identities=24% Similarity=0.408 Sum_probs=16.5 Q ss_pred EEECCCCCEEEEEECCCHHHH Q ss_conf 730258750378711143778 Q gi|254781125|r 18 RLSAKDPHYNVIFRDEVPSFI 38 (59) Q Consensus 18 rlsakdphynvifrdevpsfi 38 (59) .|.|-|.|.|.+..|-.-.+. T Consensus 55 ~L~afD~h~NlVL~d~~E~~~ 75 (118) T 1b34_B 55 RVKAFDRHCNMVLENVKEMWT 75 (118) T ss_dssp EEEEECTTCCEEEEEEEEC-- T ss_pred EEEEECCCCEEEEECEEEEEE T ss_conf 999862210666402068885 No 6 >3kfu_G Glutamyl-tRNA(Gln) amidotransferase subunit C; ASPRS, gatcab, ATP-binding, aminoacyl-tRNA synthetase, ligas nucleotide-binding, protein biosynthesis, ligase-RNA comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus} Probab=7.12 E-value=1.2e+02 Score=13.09 Aligned_cols=30 Identities=17% Similarity=0.396 Sum_probs=21.6 Q ss_pred CHHHHHHHHCCCCCEEEEECCCCCEEEEEECCCH Q ss_conf 2489999850786414730258750378711143 Q gi|254781125|r 2 SPILEYIRCLNDPNRYRLSAKDPHYNVIFRDEVP 35 (59) Q Consensus 2 spileyirclndpnryrlsakdphynvifrdevp 35 (59) +-||+|+..|+.-+ .+.-.|-+|+ +|+.++ T Consensus 35 ~~Il~~~~~L~~vd---t~~v~p~~~~-lReD~~ 64 (92) T 3kfu_G 35 KRILDFVDALPRVE---EGGAEEALGR-LREDEP 64 (92) T ss_dssp HHHHHHHHTCCCCC---CCCCCCCCCC-CBCSCC T ss_pred HHHHHHHHHHHCCC---CCCCCCCCCC-CCCCCC T ss_conf 99999999983246---5788744457-889968 No 7 >3kwr_A Putative RNA-binding protein; structural genomics, joint center for structural genomics, JCSG, protein structure initiative, PSI-2; HET: GOL; 1.45A {Lactobacillus plantarum} Probab=7.05 E-value=1.3e+02 Score=12.81 Aligned_cols=13 Identities=46% Similarity=0.751 Sum_probs=8.8 Q ss_pred CCCEEEEEECCCH Q ss_conf 8750378711143 Q gi|254781125|r 23 DPHYNVIFRDEVP 35 (59) Q Consensus 23 dphynvifrdevp 35 (59) .-.|-.|||||-. T Consensus 8 evkypaifrdegt 20 (97) T 3kwr_A 8 EVKYPAIFRDEGT 20 (97) T ss_dssp CCEEEEEEEECSS T ss_pred EEECCEEEECCCC T ss_conf 8754417814871 No 8 >3kp1_A D-ornithine aminomutase E component; 5 aminomutase (OAM), metal binding protein; HET: PLP B12 5AD; 2.01A {Clostridium sticklandii} PDB: 3kow_A* 3koy_A* 3koz_A* 3kp0_A* 3kox_A* Probab=5.77 E-value=31 Score=16.29 Aligned_cols=17 Identities=35% Similarity=0.655 Sum_probs=10.5 Q ss_pred EECCCCCEEEEEECCCH Q ss_conf 30258750378711143 Q gi|254781125|r 19 LSAKDPHYNVIFRDEVP 35 (59) Q Consensus 19 lsakdphynvifrdevp 35 (59) .--.||.||++|||--+ T Consensus 180 ~~~~d~~y~il~r~in~ 196 (763) T 3kp1_A 180 GAHQDPQYNVLYRNINM 196 (763) T ss_dssp EEECCHHHHHHHHCBCH T ss_pred HHHCCHHHCCEECCCCH T ss_conf 22202223301036642 No 9 >2yxy_A Hypothetical conserved protein, GK0453; alpha and beta proteins (A+B) class, structural genomics, unknown function, NPPSFA; 2.20A {Geobacillus kaustophilus HTA426} Probab=5.62 E-value=1.7e+02 Score=12.20 Aligned_cols=12 Identities=50% Similarity=0.963 Sum_probs=7.0 Q ss_pred HHHHHHHHHHHC Q ss_conf 346888887519 Q gi|254781125|r 48 KRKMAVIRSYML 59 (59) Q Consensus 48 krkmavirsyml 59 (59) .||+++-+||++ T Consensus 46 erK~~mA~sYLv 57 (115) T 2yxy_A 46 ERKIAMAKAYML 57 (115) T ss_dssp HHHHHHHHHTTS T ss_pred HHHHHHHHHHCC T ss_conf 999999999726 No 10 >3eap_A RHO GTPase-activating protein 11A; GAP, structural genomics consortium, GTPase activation, phosphoprotein, polymorphism hydrolase activator, SGC; 2.30A {Homo sapiens} Probab=5.20 E-value=81 Score=13.99 Aligned_cols=10 Identities=30% Similarity=0.793 Sum_probs=5.3 Q ss_pred CCHHHHHHHH Q ss_conf 1437789861 Q gi|254781125|r 33 EVPSFIYETL 42 (59) Q Consensus 33 evpsfiyetl 42 (59) .||.++.+.+ T Consensus 82 ~IP~iv~~~i 91 (271) T 3eap_A 82 HIPSFLVDAC 91 (271) T ss_dssp EEEHHHHHHH T ss_pred CCCHHHHHHH T ss_conf 8796999999 Done!