Query gi|254780894|ref|YP_003065307.1| hypothetical protein CLIBASIA_03955 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 103 No_of_seqs 46 out of 48 Neff 3.9 Searched_HMMs 13730 Date Wed Jun 1 10:30:12 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780894.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 d1ykha1 a.252.1.2 (A:111-205) 61.6 4.9 0.00035 18.1 5.3 34 3-36 60-93 (95) 2 d1vf6a_ a.194.1.1 (A:) Associa 13.1 36 0.0026 12.7 2.4 29 59-87 27-55 (58) 3 d1r9wa_ d.89.1.2 (A:) Replicat 10.8 40 0.0029 12.3 1.0 10 2-11 83-92 (145) 4 d1ku2a2 a.177.1.1 (A:93-272) S 8.8 50 0.0037 11.7 2.4 17 53-69 150-167 (180) 5 d1w98b1 a.74.1.1 (B:228-357) G 7.8 55 0.004 11.5 2.0 32 30-70 31-64 (130) 6 d2o4aa1 a.35.1.7 (A:370-452) D 7.8 55 0.004 11.5 0.9 11 3-13 53-63 (83) 7 d1quua1 a.7.1.1 (A:1-124) alph 6.4 65 0.0047 11.0 8.8 37 63-99 88-124 (124) 8 d1k4ta1 a.2.8.1 (A:641-712) Eu 5.8 70 0.0051 10.8 4.9 21 73-93 6-26 (72) 9 d1hywa_ d.186.1.1 (A:) Head-to 5.7 71 0.0052 10.8 1.7 16 77-92 39-54 (58) 10 d1wh8a_ a.35.1.7 (A:) Homeobox 5.1 77 0.0056 10.5 0.9 12 2-13 78-89 (111) No 1 >d1ykha1 a.252.1.2 (A:111-205) RNA polymerase II mediator complex protein MED7 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Probab=61.59 E-value=4.9 Score=18.10 Aligned_cols=34 Identities=15% Similarity=0.179 Sum_probs=28.4 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 6788899999889999999999999999999999 Q gi|254780894|r 3 LQEQRTRLKEFRLNDERRQLQQLRATILEFRRIV 36 (103) Q Consensus 3 sretLIRLk~fqVdEkRR~laql~~m~~ef~~~~ 36 (103) +|+|||-+=.-|+++||-.+.+++...+++..+. T Consensus 60 AResLi~lme~Ql~~kr~~~~~i~~~~~~~~~~L 93 (95) T d1ykha1 60 SRESLIMLLEEQLEYKRGEIREIEQVCKQVHDKL 93 (95) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 7999999999999999999999999999999876 No 2 >d1vf6a_ a.194.1.1 (A:) Associated tight junction protein Pals-1 {Human (Homo sapiens) [TaxId: 9606]} Probab=13.09 E-value=36 Score=12.66 Aligned_cols=29 Identities=24% Similarity=0.180 Sum_probs=18.8 Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 31899999999999999999999999999 Q gi|254780894|r 59 AYPILAKSARQRIDNLLLSIRDLLLRQES 87 (103) Q Consensus 59 aY~tfAraa~~RRdnL~~Si~~l~~Q~e~ 87 (103) -+++.---.-..-=+|+.||..|+.|+.. T Consensus 27 lk~~LqSPLF~qiL~lQ~SiqqLk~Qvn~ 55 (58) T d1vf6a_ 27 FYETLKSPLFNQILTLQQSIKQLKGQLNH 55 (58) T ss_dssp HHHHHHCHHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHCHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99998687899999999999999999977 No 3 >d1r9wa_ d.89.1.2 (A:) Replication initiation protein E1 {Human papillomavirus type 18 [TaxId: 333761]} Probab=10.78 E-value=40 Score=12.35 Aligned_cols=10 Identities=0% Similarity=-0.193 Sum_probs=6.8 Q ss_pred CCHHHHHHHH Q ss_conf 8678889999 Q gi|254780894|r 2 RLQEQRTRLK 11 (103) Q Consensus 2 KsretLIRLk 11 (103) |||+|+++|= T Consensus 83 KsReTV~kLl 92 (145) T d1r9wa_ 83 KSRLTVAKGL 92 (145) T ss_dssp ECHHHHHHHH T ss_pred CCHHHHHHHH T ss_conf 7889999999 No 4 >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Probab=8.76 E-value=50 Score=11.72 Aligned_cols=17 Identities=12% Similarity=0.256 Sum_probs=8.8 Q ss_pred CCCC-CCCHHHHHHHHHH Q ss_conf 7700-1431899999999 Q gi|254780894|r 53 YDKD-HFAYPILAKSARQ 69 (103) Q Consensus 53 ~d~~-hFaY~tfAraa~~ 69 (103) .||. +|-.+|||.-|+. T Consensus 150 fd~~~g~~f~tya~~~i~ 167 (180) T d1ku2a2 150 FEYKRRFKFSTYATWWIR 167 (180) T ss_dssp CCGGGCSCHHHHHHHHHH T ss_pred CCCCCCCCHHHHHHHHHH T ss_conf 399889977999899999 No 5 >d1w98b1 a.74.1.1 (B:228-357) G1/S-specific cyclin-E1 {Human (Homo sapiens) [TaxId: 9606]} Probab=7.80 E-value=55 Score=11.46 Aligned_cols=32 Identities=38% Similarity=0.419 Sum_probs=22.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCC--CCCHHHHHHHHHHH Q ss_conf 999999999999999999997157700--14318999999999 Q gi|254780894|r 30 LEFRRIVADLEKQIAIEERQVGIYDKD--HFAYPILAKSARQR 70 (103) Q Consensus 30 ~ef~~~~~~LE~qI~~Ee~~agi~d~~--hFaY~tfAraa~~R 70 (103) .+|.++++-||-=+ -|++ -|.|+..|.||.-- T Consensus 31 ~~fiq~aqLLDLC~---------LDi~sl~fsYsvLAAaAl~h 64 (130) T d1w98b1 31 QIFIQIAELLDLCV---------LDVDCLEFPYGILAASALYH 64 (130) T ss_dssp HHHHHHHHHHHHHH---------HSGGGGGSCHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHH---------HHHHHHCCCHHHHHHHHHHH T ss_conf 99999999999999---------60235319659999999997 No 6 >d2o4aa1 a.35.1.7 (A:370-452) DNA-binding protein SATB1 {Human (Homo sapiens) [TaxId: 9606]} Probab=7.79 E-value=55 Score=11.46 Aligned_cols=11 Identities=18% Similarity=0.317 Sum_probs=5.8 Q ss_pred CHHHHHHHHHH Q ss_conf 67888999998 Q gi|254780894|r 3 LQEQRTRLKEF 13 (103) Q Consensus 3 sretLIRLk~f 13 (103) ++++++|+..| T Consensus 53 gre~f~Rm~~w 63 (83) T d2o4aa1 53 LLVNLRAMQNF 63 (83) T ss_dssp HHHHHHHHHHH T ss_pred HHHHHHHHHHH T ss_conf 77999999999 No 7 >d1quua1 a.7.1.1 (A:1-124) alpha-actinin {Human (Homo sapiens) [TaxId: 9606]} Probab=6.42 E-value=65 Score=11.03 Aligned_cols=37 Identities=14% Similarity=-0.041 Sum_probs=24.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999999999999999999997 Q gi|254780894|r 63 LAKSARQRIDNLLLSIRDLLLRQESLESHLESESNSD 99 (103) Q Consensus 63 fAraa~~RRdnL~~Si~~l~~Q~e~a~~~L~~a~~~~ 99 (103) .+....++.+.|...-..|......=+..|..+.+++ T Consensus 88 ~~~~i~~~~~~l~~rW~~L~~~~~~R~~~L~~a~~ll 124 (124) T d1quua1 88 DAVNVNDRCQKICDQWDRLGTLTQKRREALERMEKLL 124 (124) T ss_dssp THHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC T ss_conf 5899999999999999999999999999999987239 No 8 >d1k4ta1 a.2.8.1 (A:641-712) Eukaryotic DNA topoisomerase I, dispensable insert domain {Human (Homo sapiens) [TaxId: 9606]} Probab=5.83 E-value=70 Score=10.82 Aligned_cols=21 Identities=19% Similarity=0.104 Sum_probs=8.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999 Q gi|254780894|r 73 NLLLSIRDLLLRQESLESHLE 93 (103) Q Consensus 73 nL~~Si~~l~~Q~e~a~~~L~ 93 (103) ||+.-|..-..|+.+|..+|- T Consensus 6 nLq~KI~~Kk~qi~~a~~e~K 26 (72) T d1k4ta1 6 NLQTKIDAKKEQLADARRDLK 26 (72) T ss_dssp HHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHH T ss_conf 999999999999999999999 No 9 >d1hywa_ d.186.1.1 (A:) Head-to-tail joining protein W, gpW {Bacteriophage lambda [TaxId: 10710]} Probab=5.71 E-value=71 Score=10.77 Aligned_cols=16 Identities=31% Similarity=0.264 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 9999999999999999 Q gi|254780894|r 77 SIRDLLLRQESLESHL 92 (103) Q Consensus 77 Si~~l~~Q~e~a~~~L 92 (103) ||.+|+.-|+.++..| T Consensus 39 si~eL~~yI~~lE~~l 54 (58) T d1hywa_ 39 SVSDLKKYIAELEVQT 54 (58) T ss_dssp THHHHHHHHHHHHHHT T ss_pred CHHHHHHHHHHHHHHH T ss_conf 7999999999999875 No 10 >d1wh8a_ a.35.1.7 (A:) Homeobox protein Cux-2, CUTL2 {Human (Homo sapiens) [TaxId: 9606]} Probab=5.10 E-value=77 Score=10.53 Aligned_cols=12 Identities=17% Similarity=0.274 Sum_probs=0.0 Q ss_pred CCHHHHHHHHHH Q ss_conf 867888999998 Q gi|254780894|r 2 RLQEQRTRLKEF 13 (103) Q Consensus 2 KsretLIRLk~f 13 (103) ++|++.||+..| T Consensus 78 ~gR~~y~RM~~w 89 (111) T d1wh8a_ 78 KGREPFVRMQLW 89 (111) T ss_dssp HHHHHHHHHHHH T ss_pred HHHHHHHHHHHH T ss_conf 888999999998 Done!