Query gi|254780354|ref|YP_003064767.1| hypothetical protein CLIBASIA_01195 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 38 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 12:16:58 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780354.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2r7g_A PP110, retinoblastoma- 55.6 14 0.0004 18.0 3.5 27 9-35 100-142 (162) 2 >1ijy_A Frizzled homolog 8; WN 11.4 86 0.0025 14.1 0.9 10 14-23 27-36 (98) 3 >2vgl_B AP-2 complex subunit b 8.7 1.5E+02 0.0043 12.9 1.2 11 25-35 13-23 (111) 4 >1ijx_A Secreted frizzled-rela 8.6 1.3E+02 0.0037 13.2 0.9 10 14-23 27-36 (100) 5 >2k59_B Neuronal acetylcholine 7.1 1.9E+02 0.0056 12.4 2.4 18 20-37 8-25 (28) 6 >2nnu_B HUNK1 protein, bromodo 4.8 2.6E+02 0.0078 11.7 1.4 13 6-18 11-23 (26) 7 >1rq0_A RF-1, peptide chain re 4.5 2.8E+02 0.0082 11.5 1.7 14 7-20 68-81 (113) 8 >3h0g_A DNA-directed RNA polym 4.5 2.8E+02 0.0083 11.5 1.7 10 26-35 127-136 (147) 9 >1twf_A B220, DNA-directed RNA 4.4 2.9E+02 0.0085 11.5 1.7 10 26-35 169-178 (189) 10 >2euc_A Hypothetical protein Y 4.1 3E+02 0.0088 11.4 1.1 7 30-36 13-19 (130) No 1 >>2r7g_A PP110, retinoblastoma-associated protein, P105-RB, RB; retinoblastoma protein, E2F displacement, transcription repressor; 1.67A {Homo sapiens} (A:1-162) Probab=55.63 E-value=14 Score=18.00 Aligned_cols=27 Identities=37% Similarity=0.789 Sum_probs=21.8 Q ss_pred HHHHHHHHHHHHHHHHHHH----------------HHHHHHHH Q ss_conf 9999999999999999999----------------99999997 Q gi|254780354|r 9 RVIFQEAFFICSLFVVIAC----------------FVWIISEI 35 (38) Q Consensus 9 rvifqeafficslfvviac----------------fvwiisei 35 (38) +-+|..+.+.|++=+|+++ |-||..-. T Consensus 100 ~~~FhrsLlACclEiVl~~y~~~~~~~~~~~~~l~FPwIL~~~ 142 (162) T 2r7g_A 100 DNIFHMSLLACALEVVMATYSRSTSQNLDSGTDLSFPWILNVL 142 (162) T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHC------CCCCCTTHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHH T ss_conf 6589999999999999999166433555532236645999983 No 2 >>1ijy_A Frizzled homolog 8; WNT receptor, frizzled protein structure, cysteine-rich, signaling protein; 1.35A {Mus musculus} (A:33-130) Probab=11.43 E-value=86 Score=14.06 Aligned_cols=10 Identities=40% Similarity=1.172 Sum_probs=7.2 Q ss_pred HHHHHHHHHH Q ss_conf 9999999999 Q gi|254780354|r 14 EAFFICSLFV 23 (38) Q Consensus 14 eafficslfv 23 (38) -.+|+||+|+ T Consensus 27 ~~~flCs~~~ 36 (98) T 1ijy_A 27 LKFFLCSMYT 36 (98) T ss_dssp HHHHHHHHHS T ss_pred CEEEEEECCC T ss_conf 3064220355 No 3 >>2vgl_B AP-2 complex subunit beta-1; cytoplasmic vesicle, alternative splicing, endocytosis, lipid-binding, golgi apparatus, adaptor, membrane, transport; HET: IHP; 2.59A {Homo sapiens} (B:433-543) Probab=8.69 E-value=1.5e+02 Score=12.92 Aligned_cols=11 Identities=36% Similarity=0.902 Sum_probs=6.9 Q ss_pred HHHHHHHHHHH Q ss_conf 99999999997 Q gi|254780354|r 25 IACFVWIISEI 35 (38) Q Consensus 25 iacfvwiisei 35 (38) .|..+||+.|- T Consensus 13 kaa~iWilGEy 23 (111) T 2vgl_B 13 RAAMIWIVGEY 23 (111) T ss_dssp HHHHHHHHHTT T ss_pred HHHHHHHHHCC T ss_conf 99999999643 No 4 >>1ijx_A Secreted frizzled-related sequence protein 3; WNT receptor, frizzled protein structure, cysteine-rich, signaling protein; 1.90A {Mus musculus} (A:28-127) Probab=8.58 E-value=1.3e+02 Score=13.22 Aligned_cols=10 Identities=30% Similarity=1.112 Sum_probs=6.8 Q ss_pred HHHHHHHHHH Q ss_conf 9999999999 Q gi|254780354|r 14 EAFFICSLFV 23 (38) Q Consensus 14 eafficslfv 23 (38) -.+|+||+|+ T Consensus 27 ~~~flCsl~~ 36 (100) T 1ijx_A 27 LLFFLCAMYA 36 (100) T ss_dssp HHHHHHHHHS T ss_pred HHHHHHHHHC T ss_conf 9999998756 No 5 >>2k59_B Neuronal acetylcholine receptor subunit beta-2; second transmembrane domain, beta 2 subunit, cell junction, disease mutation, epilepsy, glycoprotein; NMR {Synthetic} (B:) Probab=7.10 E-value=1.9e+02 Score=12.37 Aligned_cols=18 Identities=33% Similarity=0.643 Sum_probs=12.5 Q ss_pred HHHHHHHHHHHHHHHHHC Q ss_conf 999999999999999732 Q gi|254780354|r 20 SLFVVIACFVWIISEIVL 37 (38) Q Consensus 20 slfvviacfvwiiseivl 37 (38) |.......|...||.||- T Consensus 8 svllaltvfllliskivp 25 (28) T 2k59_B 8 SVLLALTVFLLLISKIVP 25 (28) T ss_dssp HHHHHHHHHHHHHHHTSC T ss_pred HHHHHHHHHHHHHHCCCC T ss_conf 999999999999960079 No 6 >>2nnu_B HUNK1 protein, bromodomain-containing protein 4; protein-peptide complex, helical peptide, three helix bundle, amphipathic helix, transcription; 1.59A {Homo sapiens} (B:) Probab=4.82 E-value=2.6e+02 Score=11.66 Aligned_cols=13 Identities=46% Similarity=0.784 Sum_probs=9.8 Q ss_pred HHHHHHHHHHHHH Q ss_conf 8899999999999 Q gi|254780354|r 6 CDLRVIFQEAFFI 18 (38) Q Consensus 6 cdlrvifqeaffi 18 (38) .||--||.|..|. T Consensus 11 sdllsifeenlf~ 23 (26) T 2nnu_B 11 SDLLSIFEENLFX 23 (26) T ss_pred HHHHHHHHHHHCC T ss_conf 8799999986100 No 7 >>1rq0_A RF-1, peptide chain release factor 1; X-RAY, crystal, peptide release factor 1, ribosome, structural genomics, BSGC structure funded by NIH; 2.65A {Thermotoga maritima} (A:1-83,A:313-342) Probab=4.53 E-value=2.8e+02 Score=11.55 Aligned_cols=14 Identities=36% Similarity=0.724 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 89999999999999 Q gi|254780354|r 7 DLRVIFQEAFFICS 20 (38) Q Consensus 7 dlrvifqeaffics 20 (38) .|.-.|||-||.-| T Consensus 68 eld~l~qel~~lls 81 (113) T 1rq0_A 68 ELDQLYQELLFLLS 81 (113) T ss_dssp HHHHHHHHHHHHHS T ss_pred HHHHHHHHHHCCCC T ss_conf 99999997531132 No 8 >>3h0g_A DNA-directed RNA polymerase II subunit RPB1; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} (A:917-1063) Probab=4.48 E-value=2.8e+02 Score=11.53 Aligned_cols=10 Identities=40% Similarity=1.115 Sum_probs=0.0 Q ss_pred HHHHHHHHHH Q ss_conf 9999999997 Q gi|254780354|r 26 ACFVWIISEI 35 (38) Q Consensus 26 acfvwiisei 35 (38) ..|-|++.|| T Consensus 127 ~AFdwilgEI 136 (147) T 3h0g_A 127 VAFEWIMGEV 136 (147) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 8887578888 No 9 >>1twf_A B220, DNA-directed RNA polymerase II largest subunit; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} (A:872-1060) Probab=4.35 E-value=2.9e+02 Score=11.48 Aligned_cols=10 Identities=40% Similarity=1.052 Sum_probs=0.0 Q ss_pred HHHHHHHHHH Q ss_conf 9999999997 Q gi|254780354|r 26 ACFVWIISEI 35 (38) Q Consensus 26 acfvwiisei 35 (38) ..|-|++.|| T Consensus 169 ~AF~wilgEI 178 (189) T 1twf_A 169 QAFDWVLSNI 178 (189) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999999999 No 10 >>2euc_A Hypothetical protein YFMB; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.50A {Bacillus subtilis} (A:) Probab=4.15 E-value=3e+02 Score=11.39 Aligned_cols=7 Identities=57% Similarity=1.540 Sum_probs=0.0 Q ss_pred HHHHHHH Q ss_conf 9999973 Q gi|254780354|r 30 WIISEIV 36 (38) Q Consensus 30 wiiseiv 36 (38) ||+|..| T Consensus 13 WivSDLV 19 (130) T 2euc_A 13 WIVSDLV 19 (130) T ss_dssp HHHHHHH T ss_pred HHHHHHH T ss_conf 8899999 Done!