Query gi|254780790|ref|YP_003065203.1| hypothetical protein CLIBASIA_03405 [Candidatus Liberibacter asiaticus str. psy62] Match_columns 129 No_of_seqs 107 out of 1040 Neff 7.8 Searched_HMMs 23785 Date Mon May 30 13:11:03 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780790.hhm -d /home/congqian_1/database/pdb/pdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 3h0d_A CTSR; protein DNA compl 5.2 96 0.0041 10.4 -0.4 14 45-58 40-53 (155) 2 1rh5_B Preprotein translocase 4.7 1.3E+02 0.0055 9.7 3.6 25 57-81 24-48 (74) 3 3few_X Colicin S4; cell lysis, 4.3 1.5E+02 0.0062 9.4 5.4 20 101-120 468-487 (505) 4 2ksf_A Sensor protein KDPD; me 4.0 1.6E+02 0.0067 9.2 2.9 37 39-75 57-94 (107) 5 3mp7_B Preprotein translocase 3.6 1.8E+02 0.0077 8.9 3.5 25 56-80 19-43 (61) 6 2knc_A Integrin alpha-IIB; tra 3.4 2E+02 0.0083 8.8 3.6 27 98-124 16-42 (54) 7 2k1a_A Integrin alpha-IIB; sin 3.4 2E+02 0.0084 8.7 1.8 26 98-123 14-39 (42) 8 1ldd_A APC2WHB, anaphase promo 2.6 2.7E+02 0.011 8.0 2.2 14 35-48 7-20 (74) 9 2wwb_B SEC61gamma, protein tra 2.6 2.8E+02 0.012 8.0 2.8 34 47-80 13-46 (68) 10 1akh_A Protein (mating-type pr 2.5 2.9E+02 0.012 7.9 1.4 20 34-53 38-57 (61) No 1 >3h0d_A CTSR; protein DNA complex, winged HTH domain, 4-helix bundle, DNA tandem repeat, transcription/DNA complex; HET: DNA; 2.40A {Bacillus stearothermophilus} Probab=5.22 E-value=96 Score=10.36 Aligned_cols=14 Identities=7% Similarity=0.320 Sum_probs=9.8 Q ss_pred HHHHHHHHHHHCCC Q ss_conf 99999988672057 Q gi|254780790|r 45 LVTWIPSRLFIFLK 58 (129) Q Consensus 45 ~~nf~lnr~~tF~~ 58 (129) =.||+++-+||=.+ T Consensus 40 QINYVl~TRFT~e~ 53 (155) T 3h0d_A 40 QINYVINTRFTLER 53 (155) T ss_dssp HHHHHHHHHSSGGG T ss_pred CCCEEECCCCCCCC T ss_conf 27266546646988 No 2 >1rh5_B Preprotein translocase SECE subunit; protein translocation, SECY, membrane protein, protein channels, protein transport; 3.20A {Methanocaldococcus jannaschii} SCOP: f.23.28.1 PDB: 1rhz_B 2yxq_B 2yxr_B 3dkn_B Probab=4.71 E-value=1.3e+02 Score=9.67 Aligned_cols=25 Identities=16% Similarity=-0.010 Sum_probs=13.3 Q ss_pred CCCCCHHHHHHHHHHHHHHHHHHHH Q ss_conf 5788067999999999999999999 Q gi|254780790|r 57 LKLRRKSFLETVRYGVMYFMLSILN 81 (129) Q Consensus 57 ~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (129) +.-+++.+.|+.+-.-++.++.++- T Consensus 24 k~~~KP~~~Ef~~i~k~~~iG~~i~ 48 (74) T 1rh5_B 24 LVLKKPTKDEYLAVAKVTALGISLL 48 (74) T ss_dssp HSEECCCHHHHHHHHHHHHHHHHHH T ss_pred HHHCCCCHHHHHHHHHHHHHHHHHH T ss_conf 9944998999999999999999999 No 3 >3few_X Colicin S4; cell lysis, Y-RAY, cell killing, immune system; 2.45A {Escherichia coli} Probab=4.28 E-value=1.5e+02 Score=9.40 Aligned_cols=20 Identities=15% Similarity=0.172 Sum_probs=9.5 Q ss_pred HHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999976799 Q gi|254780790|r 101 TVLSAVSSMLFVFLLYIRFM 120 (129) Q Consensus 101 ~~i~~~~~~~~nf~~~k~~v 120 (129) -+++.++...+..++...++ T Consensus 468 ~i~~~~~~~~~~~~i~~~~~ 487 (505) T 3few_X 468 GIVGILLAAVVGALLDDKFA 487 (505) T ss_dssp HHHHHHHHHHHHHHHCTHHH T ss_pred HHHHHHHHHHHHHHHCHHHH T ss_conf 99999999999998378999 No 4 >2ksf_A Sensor protein KDPD; methods development, histidine kinase receptor, membrane domain, four-helical bundle, cell-free synthesis, ATP- binding; NMR {Escherichia coli} Probab=4.02 E-value=1.6e+02 Score=9.23 Aligned_cols=37 Identities=3% Similarity=-0.170 Sum_probs=14.8 Q ss_pred HHHHHHHHHHH-HHHHHHCCCCCCHHHHHHHHHHHHHH Q ss_conf 99999999999-98867205788067999999999999 Q gi|254780790|r 39 SIAVAFLVTWI-PSRLFIFLKLRRKSFLETVRYGVMYF 75 (129) Q Consensus 39 a~~~a~~~nf~-lnr~~tF~~~~~~~~~~~~~~~~~~~ 75 (129) +...+...||+ .--+++|+-.+.+.+-...-|..+++ T Consensus 57 s~ls~l~~nyff~~P~~sf~v~~~~~~~~~~~f~~va~ 94 (107) T 2ksf_A 57 TVINVVSFDLFFIAPRGTLAVSDVQYLLTFAVMLTVGL 94 (107) T ss_dssp HHHHHHHHHHTTSCSSCTTCSSCHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCCCCCCEEECCCCHHHHHHHHHHHHH T ss_conf 99999999975227766211358037999999999999 No 5 >3mp7_B Preprotein translocase subunit SECE; protein transport, membrane protein complex, preprotein TRAN membrane insertion,; 2.90A {Pyrococcus furiosus} Probab=3.59 E-value=1.8e+02 Score=8.91 Aligned_cols=25 Identities=20% Similarity=0.184 Sum_probs=12.1 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 0578806799999999999999999 Q gi|254780790|r 56 FLKLRRKSFLETVRYGVMYFMLSIL 80 (129) Q Consensus 56 F~~~~~~~~~~~~~~~~~~~~~~~~ 80 (129) .+.-+++.++|+.+-.-++.++..+ T Consensus 19 lk~~~KP~~~Ef~~i~k~~~iG~~i 43 (61) T 3mp7_B 19 FLVTKKPNWATYKRAAKITGLGIIL 43 (61) T ss_dssp HHHSCCCCTTHHHHHHHHHHHHHHH T ss_pred HHHHCCCCHHHHHHHHHHHHHHHHH T ss_conf 9982699999999999999999999 No 6 >2knc_A Integrin alpha-IIB; transmembrane signaling, coiled coil, protein structure, alternative splicing, calcium, cell adhesion; NMR {Homo sapiens} Probab=3.39 E-value=2e+02 Score=8.76 Aligned_cols=27 Identities=11% Similarity=0.139 Sum_probs=16.5 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999767998676 Q gi|254780790|r 98 LLATVLSAVSSMLFVFLLYIRFMTRRV 124 (129) Q Consensus 98 ~~a~~i~~~~~~~~nf~~~k~~vFrk~ 124 (129) .+|-+.+..+.+++.|.+.|.==|||- T Consensus 16 ivsv~~GlLlL~ll~~~LwK~GFFKR~ 42 (54) T 2knc_A 16 LVGVLGGLLLLTILVLAMWKVGFFKRN 42 (54) T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHTTTT T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCC T ss_conf 999999999999999999982731267 No 7 >2k1a_A Integrin alpha-IIB; single-PASS transmembrane segment, alternative splicing, calcium, cell adhesion, cleavage on PAIR of basic residues; NMR {Homo sapiens} PDB: 2k9j_A Probab=3.36 E-value=2e+02 Score=8.74 Aligned_cols=26 Identities=12% Similarity=0.172 Sum_probs=13.9 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999976799867 Q gi|254780790|r 98 LLATVLSAVSSMLFVFLLYIRFMTRR 123 (129) Q Consensus 98 ~~a~~i~~~~~~~~nf~~~k~~vFrk 123 (129) .+|-+.+....+...|.+.|.==||| T Consensus 14 ivsv~~Gll~L~ll~~~lwKcGFFKR 39 (42) T 2k1a_A 14 LVGVLGGLLLLTILVLAMWKVGFFKR 39 (42) T ss_dssp HHHHHHHHHHHHHHHHHHHHTTTTCC T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCC T ss_conf 99999999999999999998273246 No 8 >1ldd_A APC2WHB, anaphase promoting complex; ubiquitin, ligase, ubiquitination, ring finger, winged-helix; 2.00A {Saccharomyces cerevisiae} SCOP: a.4.5.34 Probab=2.58 E-value=2.7e+02 Score=8.02 Aligned_cols=14 Identities=14% Similarity=0.233 Sum_probs=8.3 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999999999 Q gi|254780790|r 35 SRIFSIAVAFLVTW 48 (129) Q Consensus 35 A~~ia~~~a~~~nf 48 (129) -...+|++|++.|+ T Consensus 7 q~~~~yI~GMLtN~ 20 (74) T 1ldd_A 7 QRSLPFIEGMLTNL 20 (74) T ss_dssp HHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHCC T ss_conf 99999999999767 No 9 >2wwb_B SEC61gamma, protein transport protein SEC61 subunit gamma; ribosome, protein EXIT tunnel, cotranslational protein translocation, protein conducting channel; 6.48A {Canis lupus familiaris} Probab=2.56 E-value=2.8e+02 Score=8.00 Aligned_cols=34 Identities=3% Similarity=0.017 Sum_probs=14.1 Q ss_pred HHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHH Q ss_conf 9999886720578806799999999999999999 Q gi|254780790|r 47 TWIPSRLFIFLKLRRKSFLETVRYGVMYFMLSIL 80 (129) Q Consensus 47 nf~lnr~~tF~~~~~~~~~~~~~~~~~~~~~~~~ 80 (129) .|.-+....-+.-+++..+|+.+-.-...++..+ T Consensus 13 ~F~kds~~~vkrC~KPdrkEf~ki~~a~~iGf~i 46 (68) T 2wwb_B 13 QFVKDSIRLVKRCTKPDRKEFQKIAMATAIGFAI 46 (68) T ss_dssp HHHHHHHHHHHHCCCCCTHHHHHHHHHSSHHHHH T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHH T ss_conf 9999989999992499989999999999984999 No 10 >1akh_A Protein (mating-type protein A-1); complex (TWO DNA-binding proteins/DNA), complex, DNA- binding protein, DNA; HET: DNA; 2.50A {Saccharomyces cerevisiae} SCOP: a.4.1.1 PDB: 1f43_A 1yrn_A* Probab=2.46 E-value=2.9e+02 Score=7.89 Aligned_cols=20 Identities=10% Similarity=0.218 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHH Q ss_conf 99999999999999999886 Q gi|254780790|r 34 YSRIFSIAVAFLVTWIPSRL 53 (129) Q Consensus 34 ~A~~ia~~~a~~~nf~lnr~ 53 (129) +|..++....-+-+|+-|++ T Consensus 38 LA~~~gl~~~qV~~WF~NrR 57 (61) T 1akh_A 38 VAKKCGITPLQVRVWFINKR 57 (61) T ss_dssp HHHHHTSCHHHHHHHHHHHH T ss_pred HHHHHCCCHHHHHHHHHHCC T ss_conf 99997869888248304004 Done!