Query gi|254781090|ref|YP_003065503.1| hypothetical protein CLIBASIA_04960 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 71 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Wed Jun 1 00:31:47 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781090.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3a1g_A RNA-directed RNA polyme 43.5 12 0.00049 19.0 2.4 25 21-45 52-76 (80) 2 2xev_A YBGF; tetratricopeptide 20.4 53 0.0022 15.4 2.5 25 36-60 87-111 (129) 3 3hsq_A Acyl-[acyl-carrier-prot 10.5 1.1E+02 0.0045 13.7 3.0 33 22-54 218-250 (259) 4 1xri_A AT1G05000; structural g 10.0 1.1E+02 0.0047 13.6 2.0 27 13-39 6-33 (151) 5 3oon_A Outer membrane protein 9.7 1.1E+02 0.0048 13.5 2.3 24 40-63 31-54 (123) 6 1p9y_A Trigger factor, TF; alp 9.1 1.2E+02 0.0051 13.4 2.9 20 17-36 42-61 (121) 7 2ckc_A Chromodomain-helicase-D 7.7 1.1E+02 0.0047 13.6 1.1 24 38-61 39-62 (80) 8 1dbu_A HI1434, cysteinyl-tRNA( 7.5 91 0.0038 14.1 0.5 18 1-18 1-18 (158) 9 2cka_A Chromodomain-helicase-D 7.4 1.2E+02 0.005 13.5 1.1 22 39-60 59-80 (95) 10 3kos_A HTH-type transcriptiona 7.3 1.2E+02 0.0049 13.5 1.0 15 48-62 31-45 (219) No 1 >3a1g_A RNA-directed RNA polymerase catalytic subunit; influenza virus, RNA polymerase, nucleotide-binding, nucleotidyltransferase, nucleus, RNA replication; 1.70A {Influenza a virus} PDB: 2ztt_A Probab=43.50 E-value=12 Score=19.02 Aligned_cols=25 Identities=28% Similarity=0.624 Sum_probs=20.8 Q ss_pred HHHCCCCCHHHHHHHHHHCCHHHHH Q ss_conf 1233864378899898620116679 Q gi|254781090|r 21 GYRSGKTSKDKYQKIVKIGDHAESI 45 (71) Q Consensus 21 gyrsgktskdkyqkivkigdhaesi 45 (71) .|.||..+||.+.+|.||-...|.. T Consensus 52 d~esgr~~k~~f~~~mkicstieel 76 (80) T 3a1g_A 52 DFESGRIKKEEFTEIMKICSTIEEL 76 (80) T ss_dssp HHHHTSSCHHHHHHHHHHHHHHHHH T ss_pred CHHCCCCCHHHHHHHHHHHHHHHHH T ss_conf 3121664489999999999889999 No 2 >2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris} Probab=20.45 E-value=53 Score=15.38 Aligned_cols=25 Identities=28% Similarity=0.466 Sum_probs=17.7 Q ss_pred HHHCCHHHHHHHHHHHHHHCCCCCE Q ss_conf 8620116679999999631888740 Q gi|254781090|r 36 VKIGDHAESIKTLADFIKDYPDCDL 60 (71) Q Consensus 36 vkigdhaesiktladfikdypdcdl 60 (71) ...|+..+++.++..+++.||+-+. T Consensus 87 ~~~~~~~~A~~~~~~~~~~yP~s~~ 111 (129) T 2xev_A 87 YGEGKNTEAQQTLQQVATQYPGSDA 111 (129) T ss_dssp HHTTCHHHHHHHHHHHHHHSTTSHH T ss_pred HHCCCHHHHHHHHHHHHHHCCCCHH T ss_conf 9849999999999999988819999 No 3 >3hsq_A Acyl-[acyl-carrier-protein]--UDP-N- acetylglucosamine O-acyltransferase; L.interrogans LPXA, LPXA, LPXA acyltransferase; 2.10A {Leptospira interrogans} PDB: 3i3a_A* 3i3x_A* Probab=10.48 E-value=1.1e+02 Score=13.71 Aligned_cols=33 Identities=24% Similarity=0.545 Sum_probs=22.4 Q ss_pred HHCCCCCHHHHHHHHHHCCHHHHHHHHHHHHHH Q ss_conf 233864378899898620116679999999631 Q gi|254781090|r 22 YRSGKTSKDKYQKIVKIGDHAESIKTLADFIKD 54 (71) Q Consensus 22 yrsgktskdkyqkivkigdhaesiktladfikd 54 (71) ||++..-++.-+.+-+-...-+.++.+.+|+++ T Consensus 218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~ 250 (259) T 3hsq_A 218 YHSGISTRKALDELEASGNLIEQVKYIIKFFRD 250 (259) T ss_dssp HSSSSCHHHHHHHHHTTCCCCHHHHHHHHHHHH T ss_pred HCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHC T ss_conf 727998999999998645798999999999973 No 4 >1xri_A AT1G05000; structural genomics, protein structure initiative, CESG, center for eukaryotic structural genomics, phosphoprotein phosphatase; 3.30A {Arabidopsis thaliana} SCOP: c.45.1.1 PDB: 2q47_A Probab=10.02 E-value=1.1e+02 Score=13.61 Aligned_cols=27 Identities=26% Similarity=0.616 Sum_probs=18.5 Q ss_pred CEEEEEEEH-HHCCCCCHHHHHHHHHHC Q ss_conf 012112311-233864378899898620 Q gi|254781090|r 13 VNFRFLLDG-YRSGKTSKDKYQKIVKIG 39 (71) Q Consensus 13 vnfrflldg-yrsgktskdkyqkivkig 39 (71) .||...-+| ||||..+....+.+-+.| T Consensus 6 ~nF~~V~~~lyRs~~~~~~~~~~L~~lg 33 (151) T 1xri_A 6 LNFSMVDNGIFRSGFPDSANFSFLQTLG 33 (151) T ss_dssp TTCEEEETTEEEESCCCHHHHHHHHHHT T ss_pred CCCCEECCCCEECCCCCHHHHHHHHHCC T ss_conf 6323456884476998965399999879 No 5 >3oon_A Outer membrane protein (TPN50); protein structure initiative, PSI-2, structural genomics, MI center for structural genomics, MCSG; 1.79A {Borrelia burgdorferi} Probab=9.68 E-value=1.1e+02 Score=13.54 Aligned_cols=24 Identities=13% Similarity=0.379 Sum_probs=17.1 Q ss_pred CHHHHHHHHHHHHHHCCCCCEEHH Q ss_conf 116679999999631888740077 Q gi|254781090|r 40 DHAESIKTLADFIKDYPDCDLELE 63 (71) Q Consensus 40 dhaesiktladfikdypdcdlele 63 (71) +..+.+..+|.+++.+|++.++++ T Consensus 31 ~~~~~L~~ia~~l~~~~~~~I~I~ 54 (123) T 3oon_A 31 KEYKKIDLIAKLLEKFKKNNILIE 54 (123) T ss_dssp GGHHHHHHHHHHHHHSCSCCEEEE T ss_pred HHHHHHHHHHHHHHHCCCCEEEEE T ss_conf 899999999999986899569999 No 6 >1p9y_A Trigger factor, TF; alpha-beta protein, isomerase; 2.15A {Escherichia coli} SCOP: d.241.2.1 PDB: 1oms_A* Probab=9.07 E-value=1.2e+02 Score=13.40 Aligned_cols=20 Identities=25% Similarity=0.375 Sum_probs=14.5 Q ss_pred EEEEHHHCCCCCHHHHHHHH Q ss_conf 12311233864378899898 Q gi|254781090|r 17 FLLDGYRSGKTSKDKYQKIV 36 (71) Q Consensus 17 flldgyrsgktskdkyqkiv 36 (71) .-+.|+|.||....-..+-. T Consensus 42 ~~ipGFRkGKvP~~vi~k~y 61 (121) T 1p9y_A 42 VRIDGLRKGKVPMNIVAQRY 61 (121) T ss_dssp CCCTTSCTTCSCHHHHHHHH T ss_pred CCCCCCCCCCCCHHHHHHHH T ss_conf 88899788988999999998 No 7 >2ckc_A Chromodomain-helicase-DNA-binding protein 7; protein-protein interaction, phosphorylation, disease mutation, nucleotide-binding; NMR {Homo sapiens} SCOP: d.76.2.1 PDB: 2v0e_A Probab=7.72 E-value=1.1e+02 Score=13.58 Aligned_cols=24 Identities=25% Similarity=0.515 Sum_probs=21.2 Q ss_pred HCCHHHHHHHHHHHHHHCCCCCEE Q ss_conf 201166799999996318887400 Q gi|254781090|r 38 IGDHAESIKTLADFIKDYPDCDLE 61 (71) Q Consensus 38 igdhaesiktladfikdypdcdle 61 (71) .|++|-+.+.|.++.+..|+.... T Consensus 39 ~G~~AP~~~~L~~WL~~hP~y~Vd 62 (80) T 2ckc_A 39 VGEDAPKNKDLVEWLKLHPTYTVD 62 (80) T ss_dssp CTTSSCBHHHHHHHHHHCTTEEES T ss_pred CCCCCCCHHHHHHHHHHCCCEEEE T ss_conf 677797778999999988692871 No 8 >1dbu_A HI1434, cysteinyl-tRNA(Pro) deacylase; structural genomics, YBAK, structure 2 function project, S2F, hydrolase; HET: MSE; 1.80A {Haemophilus influenzae} SCOP: d.116.1.1 PDB: 1dbx_A Probab=7.51 E-value=91 Score=14.10 Aligned_cols=18 Identities=33% Similarity=0.490 Sum_probs=15.9 Q ss_pred CCCHHHHHHCCCCEEEEE Q ss_conf 971323111346012112 Q gi|254781090|r 1 MKPIIHLLNGWGVNFRFL 18 (71) Q Consensus 1 mkpiihllngwgvnfrfl 18 (71) |.|.+.+|+.+|+.|+.. T Consensus 1 mT~a~~~L~~~~I~y~~~ 18 (158) T 1dbu_A 1 MTPAIDLLKKQKIPFILH 18 (158) T ss_dssp -CHHHHHHHHHTCCCEEE T ss_pred CCHHHHHHHHCCCCCEEE T ss_conf 977999999879997898 No 9 >2cka_A Chromodomain-helicase-DNA-binding protein 8; BRK domain, transcription elongation, chromatin remodeling, protein-protein interaction, transcription; NMR {Homo sapiens} SCOP: d.76.2.1 Probab=7.44 E-value=1.2e+02 Score=13.46 Aligned_cols=22 Identities=18% Similarity=0.400 Sum_probs=0.0 Q ss_pred CCHHHHHHHHHHHHHHCCCCCE Q ss_conf 0116679999999631888740 Q gi|254781090|r 39 GDHAESIKTLADFIKDYPDCDL 60 (71) Q Consensus 39 gdhaesiktladfikdypdcdl 60 (71) |++|-..+.|.++.+..|+... T Consensus 59 G~~AP~lk~L~~WL~~nP~Y~V 80 (95) T 2cka_A 59 GEDAPRRAELEMWLQGHPEFAV 80 (95) T ss_dssp TTSSCBHHHHHHHHHHCTTEEE T ss_pred CCCCCCHHHHHHHHHHCCCCEE T ss_conf 5679688899999998889688 No 10 >3kos_A HTH-type transcriptional activator AMPR; alpha-beta sandwich, DNA-binding, transcription regulation; HET: MES; 1.83A {Citrobacter freundii} PDB: 3kot_A Probab=7.33 E-value=1.2e+02 Score=13.50 Aligned_cols=15 Identities=47% Similarity=0.988 Sum_probs=0.0 Q ss_pred HHHHHHHCCCCCEEH Q ss_conf 999963188874007 Q gi|254781090|r 48 LADFIKDYPDCDLEL 62 (71) Q Consensus 48 ladfikdypdcdlel 62 (71) |++|.+.||+-++++ T Consensus 31 L~~F~~~~P~i~v~l 45 (219) T 3kos_A 31 LSDFKRSYPHIDLHI 45 (219) T ss_dssp HHHHHHHCTTEEEEE T ss_pred HHHHHHHCCCEEEEE T ss_conf 999999883979999 Done!