Query gi|254781001|ref|YP_003065414.1| hypothetical protein CLIBASIA_04510 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 93 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Tue May 31 23:37:54 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781001.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2e62_A Protein AT5G25060; CWF2 24.0 34 0.0014 15.7 2.1 25 44-68 25-49 (61) 2 2w6a_A ARF GTPase-activating p 22.4 31 0.0013 16.0 1.6 15 60-74 14-28 (63) 3 2ovm_B NCOR, progesterone rece 7.1 1.4E+02 0.0058 12.5 1.6 18 54-71 7-24 (26) 4 3dcg_E Virion infectivity fact 5.4 1.7E+02 0.0073 12.0 1.7 23 60-82 8-30 (39) 5 1un0_C Nucleoporin NUP2; nucle 5.0 1.3E+02 0.0055 12.7 0.2 17 65-82 31-47 (51) 6 3kuu_A Phosphoribosylaminoimid 4.7 1.9E+02 0.0082 11.7 0.9 11 34-44 109-119 (174) 7 3oow_A Phosphoribosylaminoimid 4.3 2.1E+02 0.0089 11.6 0.9 12 34-45 102-113 (166) 8 2gpv_G Nuclear receptor corepr 4.3 2.1E+02 0.0089 11.6 1.5 15 56-70 1-15 (26) 9 1y88_A Hypothetical protein AF 3.8 79 0.0033 13.8 -1.7 28 48-75 128-155 (199) 10 3e6q_A Putative 5-carboxymethy 3.2 1.5E+02 0.0065 12.3 -0.7 36 37-72 19-54 (146) No 1 >2e62_A Protein AT5G25060; CWF21 domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Arabidopsis thaliana} Probab=24.00 E-value=34 Score=15.69 Aligned_cols=25 Identities=32% Similarity=0.371 Sum_probs=15.2 Q ss_pred CEEHHHHHHHHHHCCCHHHHHHHHH Q ss_conf 6203556777641263788889987 Q gi|254781001|r 44 SIEYRDTLDERVANSGLYMIVKKAL 68 (93) Q Consensus 44 sieyrdtldervansglymivkkal 68 (93) -||||++|.|+-..+.--.--|-|+ T Consensus 25 ~ieYResLEE~G~kn~eEierkVa~ 49 (61) T 2e62_A 25 LIEYRETLEEQGMKNPEEIERKVEI 49 (61) T ss_dssp HHHHHHHHHHHTCCCHHHHHHHHHH T ss_pred HHHHHHHHHHHCCCCHHHHHHHHHH T ss_conf 9999988998514469999999999 No 2 >2w6a_A ARF GTPase-activating protein GIT1; PIX, zinc, signaling protein, CAT-1, cytoplasm, ANK repeat, coiled-coil, zinc-finger, metal-binding; 1.40A {Rattus norvegicus} Probab=22.36 E-value=31 Score=15.96 Aligned_cols=15 Identities=40% Similarity=0.563 Sum_probs=12.2 Q ss_pred HHHHHHHHHHHHHHH Q ss_conf 788889987641100 Q gi|254781001|r 60 LYMIVKKALVRSKKR 74 (93) Q Consensus 60 lymivkkalvrskkr 74 (93) -||-||+||+.|.-+ T Consensus 14 EylevK~AL~aSEak 28 (63) T 2w6a_A 14 EYLELKKALATSEAK 28 (63) T ss_dssp HHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHH T ss_conf 999999998743999 No 3 >2ovm_B NCOR, progesterone receptor; nuclear receptor, steroid receptor, CO-repressor, asoprisnil, transcription; HET: AS0; 2.60A {Homo sapiens} Probab=7.14 E-value=1.4e+02 Score=12.54 Aligned_cols=18 Identities=44% Similarity=0.540 Sum_probs=14.1 Q ss_pred HHHCCCHHHHHHHHHHHH Q ss_conf 641263788889987641 Q gi|254781001|r 54 RVANSGLYMIVKKALVRS 71 (93) Q Consensus 54 rvansglymivkkalvrs 71 (93) ...|-||--|..|||..| T Consensus 7 pasnlglediirkalmgs 24 (26) T 2ovm_B 7 PASNLGLEDIIRKALMGS 24 (26) T ss_pred CCCCCCHHHHHHHHHHHC T ss_conf 200038999999998203 No 4 >3dcg_E Virion infectivity factor; HIV, VIF, AIDS, cytoplasm, HOST-virus interaction, membrane, phosphoprotein, RNA-binding; 2.40A {Human immunodeficiency virus type 1} Probab=5.38 E-value=1.7e+02 Score=12.00 Aligned_cols=23 Identities=30% Similarity=0.427 Sum_probs=17.9 Q ss_pred HHHHHHHHHHHHHHHHCCCCHHH Q ss_conf 78888998764110000253257 Q gi|254781001|r 60 LYMIVKKALVRSKKRKIAVPSRQ 82 (93) Q Consensus 60 lymivkkalvrskkrkiavpsrq 82 (93) |-...-+||+..||+|-..||-+ T Consensus 8 LQyLAL~alv~pkk~kpPlPSV~ 30 (39) T 3dcg_E 8 LQYLALAALIKPKQIKPPLPSVR 30 (39) T ss_pred HHHHHHHHHHCCCCCCCCCCCHH T ss_conf 99999999874478899997202 No 5 >1un0_C Nucleoporin NUP2; nuclear import, armadillo repeat, NLS release, karyopherin recycling; 2.6A {Saccharomyces cerevisiae} PDB: 2c1t_C Probab=5.02 E-value=1.3e+02 Score=12.66 Aligned_cols=17 Identities=41% Similarity=0.681 Sum_probs=11.1 Q ss_pred HHHHHHHHHHHCCCCHHH Q ss_conf 998764110000253257 Q gi|254781001|r 65 KKALVRSKKRKIAVPSRQ 82 (93) Q Consensus 65 kkalvrskkrkiavpsrq 82 (93) --+-|-| +||||-|-|. T Consensus 31 AS~~Vms-~RKIa~Pk~k 47 (51) T 1un0_C 31 ASSAVMN-RRKIAMPKRR 47 (51) T ss_pred HHHHHHH-HHHHCCCCCC T ss_conf 1099986-5231165543 No 6 >3kuu_A Phosphoribosylaminoimidazole carboxylase catalytic subunit PURE; 3-layer (ABA) sandwich, rossmann fold, csgid, lyase, structural genomics; 1.41A {Yersinia pestis} PDB: 1d7a_A* 1qcz_A 2ate_A* 2nsl_A* 2nsh_A* 2nsj_A* Probab=4.71 E-value=1.9e+02 Score=11.75 Aligned_cols=11 Identities=45% Similarity=0.676 Sum_probs=9.0 Q ss_pred HHHHHHCCCCC Q ss_conf 53665077886 Q gi|254781001|r 34 WLSIFSMPSGS 44 (93) Q Consensus 34 wlsifsmpsgs 44 (93) -||+..||+|- T Consensus 109 llS~vqMP~Gv 119 (174) T 3kuu_A 109 LYSIVQMPRGI 119 (174) T ss_dssp HHHHHTCCTTS T ss_pred HHHHHHCCCCC T ss_conf 88997187889 No 7 >3oow_A Phosphoribosylaminoimidazole carboxylase,catalyic; structural genomics, center for structural genomics of infec diseases, csgid; HET: MSE; 1.75A {Francisella tularensis subsp} Probab=4.27 E-value=2.1e+02 Score=11.56 Aligned_cols=12 Identities=50% Similarity=0.695 Sum_probs=9.1 Q ss_pred HHHHHHCCCCCE Q ss_conf 536650778862 Q gi|254781001|r 34 WLSIFSMPSGSI 45 (93) Q Consensus 34 wlsifsmpsgsi 45 (93) -||+..||+|-- T Consensus 102 llS~vqMP~GvP 113 (166) T 3oow_A 102 LLSIVQMPAGIP 113 (166) T ss_dssp HHHHHTCCTTSC T ss_pred HHHHHHCCCCCC T ss_conf 899970987898 No 8 >2gpv_G Nuclear receptor corepressor 2; estrogen related receptor, ERR, ERRG, ESRRG, steroid receptor, SMRT, tamoxifen, transcription; HET: OHT; 2.85A {Homo sapiens} Probab=4.26 E-value=2.1e+02 Score=11.56 Aligned_cols=15 Identities=47% Similarity=0.671 Sum_probs=11.7 Q ss_pred HCCCHHHHHHHHHHH Q ss_conf 126378888998764 Q gi|254781001|r 56 ANSGLYMIVKKALVR 70 (93) Q Consensus 56 ansglymivkkalvr 70 (93) .|-||-.|..|||.. T Consensus 1 tnmgleaiirkalmg 15 (26) T 2gpv_G 1 TNMGLEAIIRKALMG 15 (26) T ss_pred CCCCHHHHHHHHHHC T ss_conf 963499999999821 No 9 >1y88_A Hypothetical protein AF1548; APC5567, structural genomics, protein structure initiative, PSI; 1.85A {Archaeoglobus fulgidus} SCOP: a.60.4.3 c.52.1.30 Probab=3.81 E-value=79 Score=13.80 Aligned_cols=28 Identities=14% Similarity=0.282 Sum_probs=19.8 Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHHHHHH Q ss_conf 5567776412637888899876411000 Q gi|254781001|r 48 RDTLDERVANSGLYMIVKKALVRSKKRK 75 (93) Q Consensus 48 rdtldervansglymivkkalvrskkrk 75 (93) .+.|-+|+-.+|||-+....+.++.++. T Consensus 128 ~~~L~~~I~~~~lypit~~~l~~~~~~~ 155 (199) T 1y88_A 128 KEGIEVLLESKGLYPITILRIDKEVLDE 155 (199) T ss_dssp TTSHHHHHHTTTCCBGGGSSCCHHHHHH T ss_pred CCHHHHHHHHCCCCCEEECCCCHHHHHH T ss_conf 4219999863288621220503677765 No 10 >3e6q_A Putative 5-carboxymethyl-2-hydroxymuconate isomerase; structural genomics, APC7683, PSI-2, protein structure initiative; HET: GOL IMD; 1.75A {Pseudomonas aeruginosa} Probab=3.22 E-value=1.5e+02 Score=12.28 Aligned_cols=36 Identities=25% Similarity=0.180 Sum_probs=27.5 Q ss_pred HHHCCCCCEEHHHHHHHHHHCCCHHHHHHHHHHHHH Q ss_conf 650778862035567776412637888899876411 Q gi|254781001|r 37 IFSMPSGSIEYRDTLDERVANSGLYMIVKKALVRSK 72 (93) Q Consensus 37 ifsmpsgsieyrdtldervansglymivkkalvrsk 72 (93) +-.||-=.|||-+.|++++.-..|.--+..+++-+. T Consensus 19 ~~~MPHiiIEYS~nL~~~~d~~~Ll~~lh~~l~~sg 54 (146) T 3e6q_A 19 FQGMPHLVIEATANLRLETSPGELLEQANAALFASG 54 (146) T ss_dssp CCCCCEEEEEEETTCEESSCHHHHHHHHHHHHHHTT T ss_pred ECCCCEEEEEECCCCCCCCCHHHHHHHHHHHHHHCC T ss_conf 158983899988780100599999999999998469 Done!