Query gi|254780678|ref|YP_003065091.1| hypothetical protein CLIBASIA_02825 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 108 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 33803 Date Wed Jun 1 14:40:33 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780678.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1c1k_A BPT4 gene 59 helicase 25.7 20 0.00058 17.5 0.3 22 77-98 35-57 (121) 2 >2kfn_A Klenow fragment of DNA 20.0 37 0.0011 16.2 0.8 12 92-103 24-35 (46) 3 >2zuo_A MVP, major vault prote 17.2 48 0.0014 15.6 0.9 20 28-47 29-48 (62) 4 >3gnf_B MVP, major vault prote 13.1 50 0.0015 15.5 0.1 21 28-48 29-49 (59) 5 >1x9m_A DNA polymerase; DNA pl 11.8 77 0.0023 14.6 0.7 16 55-70 84-99 (262) 6 >1uqt_A Alpha, alpha-trehalose 7.9 1.2E+02 0.0036 13.6 0.5 14 32-45 147-160 (265) 7 >16vp_A Protein (VP16, VMW65, 7.7 98 0.0029 14.1 -0.1 24 75-98 18-45 (163) 8 >2r6g_F Maltose transport syst 6.0 1.7E+02 0.0051 12.8 0.5 10 76-86 8-17 (33) 9 >2rq6_A ATP synthase epsilon c 5.6 2E+02 0.0059 12.5 0.7 44 27-82 24-67 (86) 10 >1oh1_A Staphostatin A; cystei 5.6 1.4E+02 0.0042 13.3 -0.1 18 2-19 36-53 (109) No 1 >>1c1k_A BPT4 gene 59 helicase assembly protein; DNA replication, DNA recombination, forked DNA; 1.45A {Bacteriophage T4} (A:1-10,A:107-217) Probab=25.67 E-value=20 Score=17.53 Aligned_cols=22 Identities=36% Similarity=0.671 Sum_probs=18.2 Q ss_pred HHHHHH-HCCCCCCCEECCHHCC Q ss_conf 001111-1466558534201104 Q gi|254780678|r 77 VFKGIL-FNHSKKHPFIFPRLQN 98 (108) Q Consensus 77 vfkgil-fnhskkhpfifprlqn 98 (108) +||.+. ||.+..||+||-.+|. T Consensus 35 ~~k~l~~yn~k~~hp~I~Kl~qs 57 (121) T 1c1k_A 35 AFKEIFEYNPKVQSSYIFKLLQS 57 (121) T ss_dssp SGGGGTSCBTTTTBCHHHHHHHT T ss_pred HHHHHCCCCCCCCCCHHHHHHHC T ss_conf 46675156888887079999975 No 2 >>2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} (A:326-371) Probab=20.01 E-value=37 Score=16.18 Aligned_cols=12 Identities=50% Similarity=0.645 Sum_probs=9.0 Q ss_pred ECCHHCCCCCCC Q ss_conf 420110488861 Q gi|254780678|r 92 IFPRLQNIPSGR 103 (108) Q Consensus 92 ifprlqnipsgr 103 (108) --|-|||||+.- T Consensus 24 ~~PNlQniP~~~ 35 (46) T 2kfn_A 24 TDPNLQNIPVRN 35 (46) T ss_dssp ESSCGGGSCSSS T ss_pred CCCCCCCCCCCC T ss_conf 442100279998 No 3 >>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex, cytoplasm, ribonucleoprotein, structural protein; 3.50A {Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A (A:54-115) Probab=17.16 E-value=48 Score=15.62 Aligned_cols=20 Identities=40% Similarity=0.692 Sum_probs=16.7 Q ss_pred HCCCCCCEEEHHHCCCHHHH Q ss_conf 21543402102217602332 Q gi|254780678|r 28 RGKHNDRKILFNHIPFPLRT 47 (108) Q Consensus 28 rgkhndrkilfnhipfplrt 47 (108) +-+|.|+.|-|..-||||-- T Consensus 29 klrhgd~EiR~~qdPFPLYP 48 (62) T 2zuo_A 29 RLRHADQEIRLAQDPFPLYP 48 (62) T ss_dssp CCSSSSEEEECTTCCCCCCS T ss_pred EECCCCEEEEECCCCCCCCC T ss_conf 76257677740899979998 No 4 >>3gnf_B MVP, major vault protein; beta sheets, acetylation, cytoplasm, phosphoprotein, ribonucleoprotein, structural protein; 2.10A {Mus musculus} PDB: 3gf5_A 3gng_A 1y7x_A (B:58-116) Probab=13.05 E-value=50 Score=15.53 Aligned_cols=21 Identities=38% Similarity=0.667 Sum_probs=17.1 Q ss_pred HCCCCCCEEEHHHCCCHHHHE Q ss_conf 215434021022176023320 Q gi|254780678|r 28 RGKHNDRKILFNHIPFPLRTA 48 (108) Q Consensus 28 rgkhndrkilfnhipfplrta 48 (108) +-+|.|+.|-|..-||||--. T Consensus 29 klrhg~~EiR~~q~PFPLYPG 49 (59) T 3gnf_B 29 RLRHADQEIRLAQDPFPLYPG 49 (59) T ss_dssp CBCTTCEEEECSEEEECCCTT T ss_pred EEEECCEEEEECCCCCCCCCC T ss_conf 980054888716899788997 No 5 >>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} (A:206-227,A:403-497,A:554-698) Probab=11.81 E-value=77 Score=14.60 Aligned_cols=16 Identities=25% Similarity=0.171 Sum_probs=8.9 Q ss_pred EEEEEECCCCEEEEHH Q ss_conf 7542111500021012 Q gi|254780678|r 55 TLTSISFSPIKLYTRA 70 (108) Q Consensus 55 tltsisfspiklytra 70 (108) .+.+..||-|.++.-| T Consensus 84 ~lv~~DysqiElrilA 99 (262) T 1x9m_A 84 VQAGIDASGLELRCLA 99 (262) T ss_dssp EEEEEEETTHHHHHHH T ss_pred EEEEEHHHCCHHHHHH T ss_conf 8998722023188989 No 6 >>1uqt_A Alpha, alpha-trehalose-phosphate synthase; glycosyltransferase, transferase; HET: U2F; 2.0A {Escherichia coli} (A:1-227,A:445-482) Probab=7.88 E-value=1.2e+02 Score=13.59 Aligned_cols=14 Identities=57% Similarity=0.975 Sum_probs=10.1 Q ss_pred CCCEEEHHHCCCHH Q ss_conf 34021022176023 Q gi|254780678|r 32 NDRKILFNHIPFPL 45 (108) Q Consensus 32 ndrkilfnhipfpl 45 (108) +-+-..|-|||||- T Consensus 147 ~~~IGFFlHiPFPs 160 (265) T 1uqt_A 147 NNRIGFFLHIPFPT 160 (265) T ss_dssp CSCEEEECCSCCCC T ss_pred CCCEEEEECCCCCC T ss_conf 98389997589998 No 7 >>16vp_A Protein (VP16, VMW65, ATIF); transcriptional regulatory protein; 2.10A {Herpes simplex virus type 1} (A:204-366) Probab=7.68 E-value=98 Score=14.08 Aligned_cols=24 Identities=21% Similarity=0.349 Sum_probs=14.3 Q ss_pred HHHHHHHHHCCCC----CCCEECCHHCC Q ss_conf 2200111114665----58534201104 Q gi|254780678|r 75 YCVFKGILFNHSK----KHPFIFPRLQN 98 (108) Q Consensus 75 ycvfkgilfnhsk----khpfifprlqn 98 (108) -|.|.-+||||.- ..|.-+.+||. T Consensus 18 ~ClF~PvlfnhGvv~leg~pl~a~~Lr~ 45 (163) T 16vp_A 18 AGLFQPFMFVNGALTVRGVPIEARRLRE 45 (163) T ss_dssp HSSCCSCSBCCSEEEETTEECCHHHHHH T ss_pred EEECCCEEEECCEEEECCCCCCHHHHHH T ss_conf 5753533541662566798788899988 No 8 >>2r6g_F Maltose transport system permease protein MALF; ABC transporter, catalytic intermediate, E. coli maltose transporter, MBP; HET: MAL ATP; 2.80A {Escherichia coli K12} (F:327-359) Probab=5.95 E-value=1.7e+02 Score=12.85 Aligned_cols=10 Identities=70% Similarity=1.218 Sum_probs=5.8 Q ss_pred HHHHHHHHCCC Q ss_conf 20011111466 Q gi|254780678|r 76 CVFKGILFNHS 86 (108) Q Consensus 76 cvfkgilfnhs 86 (108) -||+| |||.| T Consensus 8 LiF~G-lFNqs 17 (33) T 2r6g_F 8 LIFKG-LFNQS 17 (33) T ss_dssp HHHHH-HTCSS T ss_pred HHHHH-HHCCC T ss_conf 99999-85024 No 9 >>2rq6_A ATP synthase epsilon chain; F1FO ATP synthase, F1-ATPase, epsilon subunit, ATP synthesis, CF1, hydrogen ION transport, hydrolase; NMR {Thermosynechococcus elongatus} PDB: 2rq7_A (A:1-86) Probab=5.63 E-value=2e+02 Score=12.54 Aligned_cols=44 Identities=16% Similarity=0.200 Sum_probs=26.6 Q ss_pred HHCCCCCCEEEHHHCCCHHHHEEEEEEEEEEEEECCCCEEEEHHHHHHHHHHHHHH Q ss_conf 42154340210221760233202444677542111500021012101222001111 Q gi|254780678|r 27 KRGKHNDRKILFNHIPFPLRTAILALRITLTSISFSPIKLYTRALSFKYCVFKGIL 82 (108) Q Consensus 27 krgkhndrkilfnhipfplrtailalritltsisfspiklytralsfkycvfkgil 82 (108) -++...+.-||-||.|+- +.+..+.+++.+..-.-+|-+-.|++ T Consensus 24 ~~t~~G~~gIl~~H~p~i------------~~L~~g~~~i~~~~~~~~~~v~gG~l 67 (86) T 2rq6_A 24 LPSTTGQLGILSNHAPLL------------TALETGVMRVRQDREWVAIALMGGFA 67 (86) T ss_dssp ECCTTSCEEEESSCCSEE------------EEECSEEEEEESSSCEEEEEECSEEE T ss_pred EECCCCCEEECCCCCCEE------------EEEECCEEEEEECCCEEEEEEECCEE T ss_conf 987944726658981646------------77317789999789589999957889 No 10 >>1oh1_A Staphostatin A; cysteine proteinase inhibitor, cysteine protease inhibitor, staphopain inhibitor, NOT similar to cystatins; NMR {Staphylococcus aureus} (A:) Probab=5.63 E-value=1.4e+02 Score=13.30 Aligned_cols=18 Identities=17% Similarity=0.196 Sum_probs=9.7 Q ss_pred CCCCCEEEECHHHCCHHH Q ss_conf 766874762511058033 Q gi|254780678|r 2 ISAPPLLITNKKLLEPDK 19 (108) Q Consensus 2 isappllitnkkllepdk 19 (108) ++..||-||-.|-..||- T Consensus 36 i~tsPLkitfnk~i~p~Y 53 (109) T 1oh1_A 36 LNDSPLKFILSTSDDSDY 53 (109) T ss_dssp TTTCCEEEEESCTTTCCE T ss_pred CCCCCEEEEEECCCCCHH T ss_conf 268865899715778125 Done!