Query gi|254780356|ref|YP_003064769.1| hypothetical protein CLIBASIA_01205 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 120 No_of_seqs 107 out of 144 Neff 5.5 Searched_HMMs 23785 Date Mon May 30 09:52:15 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780356.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2kw3_A DNA-binding protein RFX 11.8 67 0.0028 12.4 1.5 45 2-54 8-52 (68) 2 2ks1_B Epidermal growth factor 10.4 76 0.0032 12.1 2.5 13 35-47 24-36 (44) 3 1uhu_A Product of riken cDNA 3 8.0 69 0.0029 12.3 0.1 37 12-56 60-98 (105) 4 2jok_A Putative G-nucleotide e 6.6 67 0.0028 12.4 -0.5 29 1-29 9-37 (186) 5 1mn8_A Core protein P15; helic 6.5 83 0.0035 11.9 -0.1 37 12-56 60-98 (100) 6 2w0c_T Protein P6, protein VI; 6.0 1.2E+02 0.0052 11.0 2.1 18 30-50 8-25 (127) 7 1t3l_A Dihydropyridine-sensiti 4.5 1.6E+02 0.0066 10.5 1.1 52 5-56 272-332 (337) 8 3k6t_A Female germline-specifi 4.0 1.5E+02 0.0063 10.6 -0.1 30 4-33 17-46 (60) 9 3bz1_D Photosystem II reaction 4.0 1.7E+02 0.0072 10.3 1.7 20 30-49 138-157 (352) 10 2hfr_A Fowlicidin-3, cathelici 3.8 59 0.0025 12.7 -2.3 20 30-49 3-25 (27) No 1 >2kw3_A DNA-binding protein RFX5; mhcii, RFX5, rfxap, enhanceosome, DNA binding protein; NMR {Homo sapiens} Probab=11.83 E-value=67 Score=12.39 Aligned_cols=45 Identities=7% Similarity=-0.040 Sum_probs=31.5 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHCCCCCH Q ss_conf 14564007999999999999989855982779999999999999620145787 Q gi|254780356|r 2 LQKKISNPLCNIIQHVKYLIQLEQEYGGFFLFIPVFLAFGAIFWFVYSPEIPI 54 (120) Q Consensus 2 ~~~~~~~~~~~i~~~i~~~l~~E~~~G~lflW~PV~lg~GI~~YF~L~~EP~~ 54 (120) |++||+|.++.-+|.--.+|-+|.|+=.-. --.-+|..||..|+- T Consensus 8 L~qklk~~I~K~Vq~kvd~ilQdVqkfsD~--------dKLYLYLqLPSGPs~ 52 (68) T 2kw3_A 8 LLQRLRGTISKAVQNKVEGILQDVQKFSDN--------DKLYLYLQLPSGPTT 52 (68) T ss_dssp HHHHHHHSCCHHHHHHHHHHHHHHHTSCHH--------HHHHHHHTCCCCTTH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCCH--------HHHEEEEECCCCCCC T ss_conf 999998788899876888999999970122--------352034566889997 No 2 >2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens} Probab=10.36 E-value=76 Score=12.11 Aligned_cols=13 Identities=15% Similarity=0.317 Sum_probs=6.1 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999962 Q gi|254780356|r 35 PVFLAFGAIFWFV 47 (120) Q Consensus 35 PV~lg~GI~~YF~ 47 (120) -|..+.||++|+- T Consensus 24 lvvv~LgiGlf~R 36 (44) T 2ks1_B 24 LLVVALGIGLFMR 36 (44) T ss_dssp HHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHH T ss_conf 5677656665443 No 3 >1uhu_A Product of riken cDNA 3110009E22; structural genomics, riken structural genomics/proteomics initiative, RSGI, unknown function; NMR {Mus musculus} SCOP: a.61.1.6 Probab=8.05 E-value=69 Score=12.31 Aligned_cols=37 Identities=16% Similarity=0.230 Sum_probs=22.1 Q ss_pred HHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHHHHCCCCCHHH Q ss_conf 999999999998985598--277999999999999962014578799 Q gi|254780356|r 12 NIIQHVKYLIQLEQEYGG--FFLFIPVFLAFGAIFWFVYSPEIPIWG 56 (120) Q Consensus 12 ~i~~~i~~~l~~E~~~G~--lflW~PV~lg~GI~~YF~L~~EP~~~~ 56 (120) .+|+++..-+..|--.|| =++. |..|++|..+|+.|+ T Consensus 60 ~~I~~v~~~i~~~Gp~gHpDQvPY--------I~tw~~La~~PPpwv 98 (105) T 1uhu_A 60 TVIFEVKAIVFQDGPGSHPDQQPY--------ITVWQDLVQNSPPWI 98 (105) T ss_dssp HHHHHHHHHHTCSSTTSCTTTHHH--------HHHHHHHHHTCCTTT T ss_pred HHHHHHHHHEECCCCCCCCCCCCH--------HHHHHHHHHCCCCCC T ss_conf 899987655016788899775721--------899999977789301 No 4 >2jok_A Putative G-nucleotide exchange factor; guanine nucleotide exchange factor, type III secretion, SOPE, SOPE2, cell invasion; NMR {Burkholderia pseudomallei} SCOP: a.168.1.1 PDB: 2jol_A Probab=6.57 E-value=67 Score=12.37 Aligned_cols=29 Identities=10% Similarity=0.243 Sum_probs=17.2 Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 91456400799999999999998985598 Q gi|254780356|r 1 MLQKKISNPLCNIIQHVKYLIQLEQEYGG 29 (120) Q Consensus 1 ~~~~~~~~~~~~i~~~i~~~l~~E~~~G~ 29 (120) ||||++.+..-++...-+-.|++..+++| T Consensus 9 ~ir~~~d~~~~~~a~~~~~~~~kDp~y~R 37 (186) T 2jok_A 9 AIRHFVDEAVKQVAHARTPEIRQDAEFGR 37 (186) T ss_dssp HHHHHHHHHHHHHHHHTHHHHHHCSSHHH T ss_pred HHHHHHHHHHHHHHHCCCCCCCCCHHHHH T ss_conf 99999999999874227831123879999 No 5 >1mn8_A Core protein P15; helical bundle, viral protein; 1.00A {Moloney murine leukemia virus} SCOP: a.61.1.6 Probab=6.47 E-value=83 Score=11.92 Aligned_cols=37 Identities=19% Similarity=0.339 Sum_probs=20.8 Q ss_pred HHHHHHHHHHHHHHHCCC--CHHHHHHHHHHHHHHHHHHCCCCCHHH Q ss_conf 999999999998985598--277999999999999962014578799 Q gi|254780356|r 12 NIIQHVKYLIQLEQEYGG--FFLFIPVFLAFGAIFWFVYSPEIPIWG 56 (120) Q Consensus 12 ~i~~~i~~~l~~E~~~G~--lflW~PV~lg~GI~~YF~L~~EP~~~~ 56 (120) .+|+++..-+..|-..|| =++. |-.|++|..+|+.|+ T Consensus 60 ~~I~~v~~~v~~~G~~gHpDQvPY--------I~tw~~La~~PPpwv 98 (100) T 1mn8_A 60 DLITQVKIKVFSPGPHGHPDQVPY--------IVTWEALAFDPPPWV 98 (100) T ss_dssp HHHHHHHHHHTSCTTSSCGGGHHH--------HHHHHHHHHSCCTTC T ss_pred HHHHHHHHHEECCCCCCCCCCCCH--------HHHHHHHHHCCCCCC T ss_conf 889975433225799999775624--------999999977769878 No 6 >2w0c_T Protein P6, protein VI; virus, member of PRD1-adeno viral lineage, membrane-containing bacteriophage, virus virion, membrane; 7.00A {Pseudoalteromonas phage PM2} Probab=5.95 E-value=1.2e+02 Score=11.03 Aligned_cols=18 Identities=39% Similarity=0.713 Sum_probs=12.7 Q ss_pred CHHHHHHHHHHHHHHHHHHCC Q ss_conf 277999999999999962014 Q gi|254780356|r 30 FFLFIPVFLAFGAIFWFVYSP 50 (120) Q Consensus 30 lflW~PV~lg~GI~~YF~L~~ 50 (120) -|.|+ +++|++.||--.. T Consensus 8 nfvwi---laagvgvwfyqka 25 (127) T 2w0c_T 8 NFVWI---LAAGVGVWFYQKA 25 (127) T ss_dssp HHHHH---HHHHHHHHHHHHH T ss_pred HHHEE---EECCCEEEEEEEC T ss_conf 00202---2315278875314 No 7 >1t3l_A Dihydropyridine-sensitive L-type, calcium channel beta-2 subunit; protein-peptide complex, SH3 domain, guanylate kinase domain; 2.20A {Oryctolagus cuniculus} SCOP: b.34.2.1 c.37.1.1 PDB: 1t3s_A 1vyv_A 1vyu_A 1vyt_A Probab=4.48 E-value=1.6e+02 Score=10.49 Aligned_cols=52 Identities=12% Similarity=-0.168 Sum_probs=27.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCHHHHHH------H---HHHHHHHHHHHCCCCCHHH Q ss_conf 64007999999999999989855982779999------9---9999999962014578799 Q gi|254780356|r 5 KISNPLCNIIQHVKYLIQLEQEYGGFFLFIPV------F---LAFGAIFWFVYSPEIPIWG 56 (120) Q Consensus 5 ~~~~~~~~i~~~i~~~l~~E~~~G~lflW~PV------~---lg~GI~~YF~L~~EP~~~~ 56 (120) |-+..--.+-..+..+-+.|+++|+.|=-+=| + +.-=+-.|+-..++|+|+. T Consensus 272 r~~~tee~l~~rl~~A~k~e~~~~~~FD~vIvNd~le~A~~~L~~~le~~~~~~h~p~~~~ 332 (337) T 1t3l_A 272 RGKSQAKHLNVQMVAADKLAQCPPELFDVILDENQLEDACEHLADYLEAYWKATHPPSSNL 332 (337) T ss_dssp TCHHHHHTHHHHHHHHHHHHHSCGGGCSEEECCSSHHHHHHHHHHHHHHHHHHHSCTTC-- T ss_pred CCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCCHHHHHHHHHHHHHHHHHHHCCCCCCC T ss_conf 5898899999999999999986142370899897899999999999999998607998788 No 8 >3k6t_A Female germline-specific tumor suppressor GLD-1; QUA1 homodimerization domain, helix-turn-helix motif, hydrophobic homodimer interface; 2.04A {Caenorhabditis elegans} PDB: 3kbl_A Probab=4.05 E-value=1.5e+02 Score=10.57 Aligned_cols=30 Identities=23% Similarity=0.173 Sum_probs=22.4 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCHHH Q ss_conf 564007999999999999989855982779 Q gi|254780356|r 4 KKISNPLCNIIQHVKYLIQLEQEYGGFFLF 33 (120) Q Consensus 4 ~~~~~~~~~i~~~i~~~l~~E~~~G~lflW 33 (120) +|--+..+++-.|+...+.+|..+=|--++ T Consensus 17 kk~l~~~PniF~H~ERLLdEEI~rVR~~LF 46 (60) T 3k6t_A 17 KKHLTLFPHMFSNVERLLDDEIGRVRVALF 46 (60) T ss_dssp HHHHTTSTTTCHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHCCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 899986744999999998999999999997 No 9 >3bz1_D Photosystem II reaction center D2 protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 1izl_D* 1s5l_D* 1w5c_D* 2axt_D* 3bz2_D* 3kzi_D* 3a0b_D* 3a0h_D* Probab=3.99 E-value=1.7e+02 Score=10.28 Aligned_cols=20 Identities=0% Similarity=-0.089 Sum_probs=14.5 Q ss_pred CHHHHHHHHHHHHHHHHHHC Q ss_conf 27799999999999996201 Q gi|254780356|r 30 FFLFIPVFLAFGAIFWFVYS 49 (120) Q Consensus 30 lflW~PV~lg~GI~~YF~L~ 49 (120) .=+|+|++|+.-|..|.++- T Consensus 138 mg~~i~~AFsa~I~~~~~l~ 157 (352) T 3bz1_D 138 VRPYNAIAFSAPIAVFVSVF 157 (352) T ss_dssp CCSHHHHHTHHHHHHHHHHH T ss_pred CCCHHHHHHHHHHHHHHHHE T ss_conf 85332224258889876430 No 10 >2hfr_A Fowlicidin-3, cathelicidin; alpha helix, antimicrobial protein; NMR {Synthetic} Probab=3.83 E-value=59 Score=12.67 Aligned_cols=20 Identities=25% Similarity=0.501 Sum_probs=9.8 Q ss_pred CHHHHHHHH---HHHHHHHHHHC Q ss_conf 277999999---99999996201 Q gi|254780356|r 30 FFLFIPVFL---AFGAIFWFVYS 49 (120) Q Consensus 30 lflW~PV~l---g~GI~~YF~L~ 49 (120) ..+.+||+. ++||-+|-+.+ T Consensus 3 fwplvpvaintvaaginlykair 25 (27) T 2hfr_A 3 FWPLVPVAINTVAAGINLYKAIR 25 (27) T ss_dssp SCSSSSSHHHHHHHHHTSTTTTT T ss_pred CCCCCHHHHHHHHHHHHHHHHHH T ss_conf 66543014556887667999984 Done!