Query gi|254781226|ref|YP_003065639.1| hypothetical protein CLIBASIA_05665 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 129 No_of_seqs 67 out of 69 Neff 3.8 Searched_HMMs 13730 Date Wed Jun 1 12:00:54 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254781226.hhm -d /home/congqian_1/database/scop/scop70_1_75.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 d2cuja1 a.4.1.18 (A:8-108) Tra 11.7 34 0.0025 11.8 0.9 16 2-17 30-45 (101) 2 d1p65a_ d.254.1.1 (A:) Arteriv 9.8 40 0.0029 11.4 2.5 21 3-23 3-23 (57) 3 d1ayia_ a.28.2.1 (A:) ImmE7 pr 6.9 54 0.004 10.6 2.4 15 42-56 65-79 (86) 4 d1gxha_ a.28.2.1 (A:) ImmE8 (I 6.7 56 0.0041 10.6 1.9 15 42-56 63-77 (85) 5 d2vlqa1 a.28.2.1 (A:4-84) ImmE 6.6 56 0.0041 10.6 2.4 15 42-56 61-75 (81) 6 d1sf9a_ b.34.15.1 (A:) Hypothe 4.1 90 0.0066 9.4 1.4 12 109-120 27-38 (118) 7 d1a62a1 a.140.3.1 (A:1-47) Rho 3.7 1E+02 0.0074 9.1 1.3 12 114-125 4-15 (47) 8 d1di2a_ d.50.1.1 (A:) Double-s 3.7 1E+02 0.0074 9.1 2.4 19 100-118 51-69 (69) 9 d1t4oa_ d.50.1.1 (A:) RNase II 3.3 1.2E+02 0.0086 8.7 2.2 21 98-118 55-75 (81) 10 d1ekza_ d.50.1.1 (A:) Staufen, 3.0 1.3E+02 0.0094 8.5 -0.0 18 100-117 57-74 (76) No 1 >d2cuja1 a.4.1.18 (A:8-108) Transcriptional adaptor 2-like, TADA2L {Mouse (Mus musculus) [TaxId: 10090]} Probab=11.68 E-value=34 Score=11.78 Aligned_cols=16 Identities=31% Similarity=0.594 Sum_probs=13.1 Q ss_pred CHHHHCHHHHHHHHHH Q ss_conf 6233023301442399 Q gi|254781226|r 2 GRKVLTPEERMLCRRE 17 (129) Q Consensus 2 ~r~~~~~~~r~~C~kE 17 (129) |...|++.|..+|..- T Consensus 30 ~~~lLs~~E~~LC~~l 45 (101) T d2cuja1 30 GTEKLNEKEKELCQVV 45 (101) T ss_dssp TTTTSCHHHHHHHHHT T ss_pred CHHHCCHHHHHHHHHH T ss_conf 8002699999999991 No 2 >d1p65a_ d.254.1.1 (A:) Arterivirus nucleocapsid protein {PRRSV (Porcine reproductive and respiratory syndrome virus) [TaxId: 28344]} Probab=9.77 E-value=40 Score=11.39 Aligned_cols=21 Identities=33% Similarity=0.634 Sum_probs=16.2 Q ss_pred HHHHCHHHHHHHHHHHHHHHH Q ss_conf 233023301442399999999 Q gi|254781226|r 3 RKVLTPEERMLCRREYKRRYY 23 (129) Q Consensus 3 r~~~~~~~r~~C~kE~~KkY~ 23 (129) |-.+++-||.+|..--+-++- T Consensus 3 RHh~T~~er~lcl~siqtafN 23 (57) T d1p65a_ 3 RHHFTPSERQLCLSSIQTAFN 23 (57) T ss_dssp GGGCCHHHHHHHHHHHHHHHH T ss_pred CCCCCHHHHHHHHHHHHHHHH T ss_conf 443778899999999999985 No 3 >d1ayia_ a.28.2.1 (A:) ImmE7 protein (Im7) {Escherichia coli [TaxId: 562]} Probab=6.86 E-value=54 Score=10.65 Aligned_cols=15 Identities=13% Similarity=0.235 Sum_probs=6.8 Q ss_pred HHHHHHHHHHHHHHC Q ss_conf 999999999998738 Q gi|254781226|r 42 KDKIRESYHQYYLKN 56 (129) Q Consensus 42 KEKIke~~Keyy~kN 56 (129) ++-|.+-.++||..| T Consensus 65 PegI~k~IKeWRa~n 79 (86) T d1ayia_ 65 PEGIVKEIKEWRAAN 79 (86) T ss_dssp HHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHC T ss_conf 899999999999975 No 4 >d1gxha_ a.28.2.1 (A:) ImmE8 (Im8) {Escherichia coli [TaxId: 562]} Probab=6.66 E-value=56 Score=10.58 Aligned_cols=15 Identities=7% Similarity=0.222 Sum_probs=6.8 Q ss_pred HHHHHHHHHHHHHHC Q ss_conf 999999999998738 Q gi|254781226|r 42 KDKIRESYHQYYLKN 56 (129) Q Consensus 42 KEKIke~~Keyy~kN 56 (129) ++-|.+-.++||..| T Consensus 63 PegIv~~IKeWRa~n 77 (85) T d1gxha_ 63 PEAVIKEIKEWRAAN 77 (85) T ss_dssp THHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHC T ss_conf 899999999999975 No 5 >d2vlqa1 a.28.2.1 (A:4-84) ImmE9 protein (Im9) {Escherichia coli [TaxId: 562]} Probab=6.65 E-value=56 Score=10.58 Aligned_cols=15 Identities=20% Similarity=0.222 Sum_probs=6.8 Q ss_pred HHHHHHHHHHHHHHC Q ss_conf 999999999998738 Q gi|254781226|r 42 KDKIRESYHQYYLKN 56 (129) Q Consensus 42 KEKIke~~Keyy~kN 56 (129) ++-|.+-.++||..| T Consensus 61 PegIv~~IK~WRa~n 75 (81) T d2vlqa1 61 PSGIVNTVKQWRAAN 75 (81) T ss_dssp HHHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHC T ss_conf 899999999999974 No 6 >d1sf9a_ b.34.15.1 (A:) Hypothetical protein YfhH {Bacillus subtilis [TaxId: 1423]} Probab=4.09 E-value=90 Score=9.39 Aligned_cols=12 Identities=50% Similarity=0.559 Sum_probs=7.6 Q ss_pred HHHHHHHHHHHH Q ss_conf 998998754223 Q gi|254781226|r 109 LEREIARLKAKP 120 (129) Q Consensus 109 ~~~e~~~~~~~~ 120 (129) |..||+.|+.|. T Consensus 27 L~~EIa~L~EKa 38 (118) T d1sf9a_ 27 LNTEIALLSEKA 38 (118) T ss_dssp HHHHHHHHHHHH T ss_pred HHHHHHHHHHHH T ss_conf 999999999999 No 7 >d1a62a1 a.140.3.1 (A:1-47) Rho termination factor, N-terminal domain {Escherichia coli [TaxId: 562]} Probab=3.74 E-value=1e+02 Score=9.11 Aligned_cols=12 Identities=50% Similarity=0.847 Sum_probs=5.6 Q ss_pred HHHHHHHHHHHH Q ss_conf 875422399974 Q gi|254781226|r 114 ARLKAKPIEELI 125 (129) Q Consensus 114 ~~~~~~~~~~~~ 125 (129) .-|+.+++++|. T Consensus 4 seLk~k~~~EL~ 15 (47) T d1a62a1 4 TELKNTPVSELI 15 (47) T ss_dssp HHHHTSCHHHHH T ss_pred HHHHCCCHHHHH T ss_conf 988159999999 No 8 >d1di2a_ d.50.1.1 (A:) Double-stranded RNA-binding protein A, second dsRBD {Xenopus laevis [TaxId: 8355]} Probab=3.71 E-value=1e+02 Score=9.09 Aligned_cols=19 Identities=21% Similarity=0.233 Sum_probs=14.5 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 5679999999989987542 Q gi|254781226|r 100 GMTKAEIEALEREIARLKA 118 (129) Q Consensus 100 ~~~~~e~~~~~~e~~~~~~ 118 (129) ++..+|++|+..-+..|+. T Consensus 51 sKK~Aeq~AA~~aL~~L~s 69 (69) T d1di2a_ 51 SKQVAKRVAAEKLLTKFKT 69 (69) T ss_dssp SHHHHHHHHHHHHHHHHHC T ss_pred CHHHHHHHHHHHHHHHHCC T ss_conf 2999999999999998459 No 9 >d1t4oa_ d.50.1.1 (A:) RNase III, C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Probab=3.28 E-value=1.2e+02 Score=8.72 Aligned_cols=21 Identities=24% Similarity=0.177 Sum_probs=14.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 555679999999989987542 Q gi|254781226|r 98 PMGMTKAEIEALEREIARLKA 118 (129) Q Consensus 98 ~~~~~~~e~~~~~~e~~~~~~ 118 (129) --|...+|++|+..-+..+++ T Consensus 55 g~SKK~AEq~AA~~aL~~~~~ 75 (81) T d1t4oa_ 55 GRNIKIAGIRAAENALRDKKM 75 (81) T ss_dssp ESSHHHHHHHHHHHHHHCHHH T ss_pred CCHHHHHHHHHHHHHHHHCCH T ss_conf 330108999999999983228 No 10 >d1ekza_ d.50.1.1 (A:) Staufen, domain III {Fruit fly (Drosophila melanogaster) [TaxId: 7227]} Probab=3.01 E-value=1.3e+02 Score=8.51 Aligned_cols=18 Identities=22% Similarity=0.344 Sum_probs=11.4 Q ss_pred HHHHHHHHHHHHHHHHHH Q ss_conf 567999999998998754 Q gi|254781226|r 100 GMTKAEIEALEREIARLK 117 (129) Q Consensus 100 ~~~~~e~~~~~~e~~~~~ 117 (129) |.+.+|++|+..-+..|+ T Consensus 57 SKK~Aeq~AA~~al~~L~ 74 (76) T d1ekza_ 57 GKKVSKKRAAEKMLVELQ 74 (76) T ss_dssp STTSSSHHHHHHHHHHHT T ss_pred CHHHHHHHHHHHHHHHHH T ss_conf 699999999999999987 Done!