Query gi|254780887|ref|YP_003065300.1| hypothetical protein CLIBASIA_03920 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 86 No_of_seqs 1 out of 3 Neff 1.0 Searched_HMMs 23785 Date Tue May 31 21:43:22 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780887.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 2w07_B PAPF, minor pilin subun 8.9 78 0.0033 13.9 0.7 22 35-56 11-32 (148) 2 3mxn_A RECQ-mediated genome in 6.6 64 0.0027 14.4 -0.6 14 58-71 13-26 (157) 3 3ipj_A PTS system, iiabc compo 6.5 1.4E+02 0.006 12.6 1.1 28 4-31 9-44 (95) 4 1xo8_A AT1G01470; structural g 6.5 1.5E+02 0.0064 12.4 1.4 66 9-83 29-95 (151) 5 1gmu_A UREE; metallochaperone; 6.1 51 0.0022 14.9 -1.3 55 18-78 87-141 (143) 6 1jvr_A HTLV-II MA, MA, human T 5.3 71 0.003 14.1 -1.0 22 53-74 60-81 (137) 7 3dcl_A TM1086; SAD, structural 4.8 2E+02 0.0082 11.9 1.2 18 58-75 27-44 (284) 8 2enc_A Zinc finger protein 224 4.8 2E+02 0.0083 11.8 1.0 13 60-73 33-45 (46) 9 1yyc_A LEA protein, putative l 4.7 2E+02 0.0083 11.8 1.0 64 11-83 54-118 (174) 10 1bhi_A CRE-BP1, ATF-2; CRE bin 4.4 2.1E+02 0.0087 11.7 1.2 16 63-78 2-17 (38) No 1 >2w07_B PAPF, minor pilin subunit PAPF; donor strand complementation, NTE, PAPD, groove, immunoglobulin domain, donor-strand exchange, secreted; 2.20A {Escherichia coli} Probab=8.94 E-value=78 Score=13.92 Aligned_cols=22 Identities=27% Similarity=0.409 Sum_probs=12.5 Q ss_pred CCCCCCCCEECCCCEEEEEECC Q ss_conf 3744642000344044454304 Q gi|254780887|r 35 LKPSCNLSTIIPQTVSFELINN 56 (86) Q Consensus 35 lkpscnlstiipqtvsfelinn 56 (86) .-|+|.++.=-+|+|.|.-++. T Consensus 11 ~~~~C~I~~~~~~~Vdlg~v~~ 32 (148) T 2w07_B 11 YIPPCTINNGQNIVVDFGNINP 32 (148) T ss_dssp SCCCCEEGGGCCCEEECCSCCS T ss_pred ECCCCEEECCCCEEEECCEEEH T ss_conf 9466198199728998950381 No 2 >3mxn_A RECQ-mediated genome instability protein 1; bloom syndrome, helicase, RMI, topoisomerase, replication PR replication; 1.55A {Homo sapiens} Probab=6.56 E-value=64 Score=14.36 Aligned_cols=14 Identities=21% Similarity=0.494 Sum_probs=6.5 Q ss_pred CEEEECCCCCCCCC Q ss_conf 10142278761046 Q gi|254780887|r 58 NYSVSTNDKPFTYP 71 (86) Q Consensus 58 nysvstndkpftyp 71 (86) +-.+.-+-.||||- T Consensus 13 ~~~~dl~spPFtYl 26 (157) T 3mxn_A 13 SIAMDLYSPPFVYL 26 (157) T ss_dssp GGHHHHHCSSCCCH T ss_pred CEEEECCCCCHHHH T ss_conf 43541589974589 No 3 >3ipj_A PTS system, iiabc component; iiabc component,PSI, structural genomics, MCSG, protein structure initiative; 1.20A {Clostridium difficile 630} Probab=6.55 E-value=1.4e+02 Score=12.55 Aligned_cols=28 Identities=18% Similarity=0.217 Sum_probs=16.1 Q ss_pred HHHHHHHHCCC--------CCEEEEEEECCCCCCCC Q ss_conf 78888764035--------40478755214335581 Q gi|254780887|r 4 VEKKILKVGSM--------GITRIRFEMGLRHKNHP 31 (86) Q Consensus 4 vekkilkvgsm--------gitrirfemglrhknhp 31 (86) ..+.|+..|.. -+||+||++-=.-+-.. T Consensus 9 ~A~~Il~~~G~~NI~~v~~C~TRLR~~lkD~~~vd~ 44 (95) T 3ipj_A 9 IANELIKIIGEDNIISITHCATRLRVMVKDREIIND 44 (95) T ss_dssp HHHHHHHHHCGGGEEEEEECSSEEEEEESCGGGSCH T ss_pred HHHHHHHHHCHHHHCCCCCCCEEEEEEECCHHHCCH T ss_conf 999999971877553000351268988558334499 No 4 >1xo8_A AT1G01470; structural genomics, protein structure initiative, center for eukaryotic structural genomics, CESG, unknown function; NMR {Arabidopsis thaliana} SCOP: b.1.25.1 Probab=6.48 E-value=1.5e+02 Score=12.43 Aligned_cols=66 Identities=12% Similarity=0.300 Sum_probs=32.4 Q ss_pred HHHCCCCCEEEEEEECCCCCCCCHHHCCCCCCCCEECCCCEEEEE-ECCCCEEEECCCCCCCCCCCCCCCCCCCCC Q ss_conf 764035404787552143355811003744642000344044454-304310142278761046678776677400 Q gi|254780887|r 9 LKVGSMGITRIRFEMGLRHKNHPKKALKPSCNLSTIIPQTVSFEL-INNLNYSVSTNDKPFTYPSRGASSSDLPIK 83 (86) Q Consensus 9 lkvgsmgitrirfemglrhknhpkkalkpscnlstiipqtvsfel-innlnysvstndkpftypsrgasssdlpik 83 (86) +++++++...++|+..+|-.|.-.-++ |-|. ++|.+ +|+....-.+...+.+-|..|...-.+|++ T Consensus 29 v~i~~v~~~~~~~~~~l~V~NPN~~~l-~i~~--------i~y~l~~~g~~i~~G~~~~~~~ipa~~~t~v~vpv~ 95 (151) T 1xo8_A 29 VDLKDVNRDSVEYLAKVSVTNPYSHSI-PICE--------ISFTFHSAGREIGKGKIPDPGSLKAKDMTALDIPVV 95 (151) T ss_dssp EEECCCTTTEECEEEEEEEECSSSSCC-CCEE--------EEEEEESSSSCEEEEEEEECCCCSSSSEEEEEECCC T ss_pred EEEEEECCCEEEEEEEEEEECCCCCCE-EEEE--------EEEEEEECCEEEEEEECCCCCEECCCCCEEEEEEEE T ss_conf 797761441489999999979999766-5510--------699999999999846418985876898489999999 No 5 >1gmu_A UREE; metallochaperone; 1.5A {Klebsiella aerogenes} SCOP: b.107.1.1 d.58.38.1 PDB: 1gmw_A 1gmw_D 1gmv_A Probab=6.14 E-value=51 Score=14.87 Aligned_cols=55 Identities=22% Similarity=0.362 Sum_probs=35.4 Q ss_pred EEEEEECCCCCCCCHHHCCCCCCCCEECCCCEEEEEECCCCEEEECCCCCCCCCCCCCCCC Q ss_conf 7875521433558110037446420003440444543043101422787610466787766 Q gi|254780887|r 18 RIRFEMGLRHKNHPKKALKPSCNLSTIIPQTVSFELINNLNYSVSTNDKPFTYPSRGASSS 78 (86) Q Consensus 18 rirfemglrhknhpkkalkpscnlstiipqtvsfelinnlnysvstndkpftypsrgasss 78 (86) |+-++.|-||-.-- +.+ +--.|-+..|--+++.++...|.--+.|| .|-.||.+. T Consensus 87 rl~~~lGNrH~pl~---i~~--~~l~i~~D~vl~~mL~~lG~~v~~~~~pF-~Pe~GAy~~ 141 (143) T 1gmu_A 87 KACYALGNRHVPLQ---IMP--GELRYHHDHVLDDMLRQFGLTVTFGQLPF-EPEAGAYAS 141 (143) T ss_dssp HHHHHHHHTTCCCE---EET--TEEEEECCHHHHHHHHTTTCCEEEEEEEC-CCCSCC--- T ss_pred HHHHHHHCCCCEEE---EEC--CEEEECCCHHHHHHHHHCCCEEEEEEEEE-CCCCCCCCC T ss_conf 99999835874079---809--99998787899999997799699978432-787855578 No 6 >1jvr_A HTLV-II MA, MA, human T-cell leukemia virus type II matrix protein; HTLV-II matrix protein, retroviral matrix protein; NMR {Human t-lymphotropic virus 2} SCOP: a.61.1.2 Probab=5.31 E-value=71 Score=14.14 Aligned_cols=22 Identities=32% Similarity=0.539 Sum_probs=15.6 Q ss_pred EECCCCEEEECCCCCCCCCCCC Q ss_conf 4304310142278761046678 Q gi|254780887|r 53 LINNLNYSVSTNDKPFTYPSRG 74 (86) Q Consensus 53 linnlnysvstndkpftypsrg 74 (86) .+|-.|||+-.+--|-.||.|- T Consensus 60 wlnPInYSlLA~LiPKgYPGRv 81 (137) T 1jvr_A 60 WLNPIDYSLLASLIPKGYPGRV 81 (137) T ss_dssp STTTTCTTTHHHHSCSSCSTTH T ss_pred EECCCCHHHHHHHCCCCCCCHH T ss_conf 3344318999976457898329 No 7 >3dcl_A TM1086; SAD, structural genomics, PSI-2, protein structure initiative, midwest center for structural genomics, MCSG, unknown function; 2.25A {Thermotoga maritima} PDB: 3n99_A Probab=4.77 E-value=2e+02 Score=11.85 Aligned_cols=18 Identities=33% Similarity=0.434 Sum_probs=10.0 Q ss_pred CEEEECCCCCCCCCCCCC Q ss_conf 101422787610466787 Q gi|254780887|r 58 NYSVSTNDKPFTYPSRGA 75 (86) Q Consensus 58 nysvstndkpftypsrga 75 (86) +|.|...-+||.+|+-|. T Consensus 27 ~y~v~~dG~~~ilP~~GG 44 (284) T 3dcl_A 27 PYSVTTEGTVRVIPVLGG 44 (284) T ss_dssp SCEECTTSCEECCCCSBS T ss_pred CCEECCCCCEEECCCCCC T ss_conf 857899998876655376 No 8 >2enc_A Zinc finger protein 224; ZF-C2H2, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} Probab=4.75 E-value=2e+02 Score=11.85 Aligned_cols=13 Identities=31% Similarity=0.506 Sum_probs=7.6 Q ss_pred EEECCCCCCCCCCC Q ss_conf 14227876104667 Q gi|254780887|r 60 SVSTNDKPFTYPSR 73 (86) Q Consensus 60 svstndkpftypsr 73 (86) .+-|.+|||. |+- T Consensus 33 riHt~ekPy~-~~~ 45 (46) T 2enc_A 33 RSHSGEKPSG-PSS 45 (46) T ss_dssp HHSCCSSCCS-SCC T ss_pred HCCCCCCCCC-CCC T ss_conf 3439988979-898 No 9 >1yyc_A LEA protein, putative late embryogenesis abundant protein; structural genomics, protein structure initiative, CESG; NMR {Arabidopsis thaliana} Probab=4.71 E-value=2e+02 Score=11.83 Aligned_cols=64 Identities=19% Similarity=0.338 Sum_probs=27.7 Q ss_pred HCCCCCEEEEEEECCCCCCCCHHHCCCCCCCCEECCCCEEEEE-ECCCCEEEECCCCCCCCCCCCCCCCCCCCC Q ss_conf 4035404787552143355811003744642000344044454-304310142278761046678776677400 Q gi|254780887|r 11 VGSMGITRIRFEMGLRHKNHPKKALKPSCNLSTIIPQTVSFEL-INNLNYSVSTNDKPFTYPSRGASSSDLPIK 83 (86) Q Consensus 11 vgsmgitrirfemglrhknhpkkalkpscnlstiipqtvsfel-innlnysvstndkpftypsrgasssdlpik 83 (86) +.+++.+.+.|+.-+|-+|--.-+| |-|.++ |.| +|.....-.+-..|.+-|..|...-++|++ T Consensus 54 i~~vs~~~~~l~~~l~V~NPN~~~L-pi~~i~--------y~L~~~G~~lasG~~~~~~~Ipa~g~t~v~vpv~ 118 (174) T 1yyc_A 54 FKGVTRDGVDYHAKVSVKNPYSQSI-PICQIS--------YILKSATRTIASGTIPDPGSLVGSGTTVLDVPVK 118 (174) T ss_dssp EEEECSSSEEEEEEEEEEECSSSCC-BCCSEE--------EEEEESSSCEEEEEESCCCBCCSSEEEEEEEEEE T ss_pred EEEECCCEEEEEEEEEEECCCCCCC-CCCCEE--------EEEEECCEEEECCCCCCCCEECCCCCEEEEEEEE T ss_conf 3240552279999999989798774-113259--------9999999998711358986877888589999899 No 10 >1bhi_A CRE-BP1, ATF-2; CRE binding protein, transcriptional activation domain, Zn finger, DNA-binding regulatory protein; NMR {Homo sapiens} SCOP: g.37.1.1 Probab=4.45 E-value=2.1e+02 Score=11.72 Aligned_cols=16 Identities=31% Similarity=0.671 Sum_probs=0.0 Q ss_pred CCCCCCCCCCCCCCCC Q ss_conf 2787610466787766 Q gi|254780887|r 63 TNDKPFTYPSRGASSS 78 (86) Q Consensus 63 tndkpftypsrgasss 78 (86) ..||||.-++-|.+-+ T Consensus 2 ~ddkPf~C~~~GC~~~ 17 (38) T 1bhi_A 2 SDDKPFLCTAPGCGQR 17 (38) T ss_dssp TTCCCEECCCTTTCCE T ss_pred CCCCCEECCCCCCCCC T ss_conf 8787563378984323 Done!