Query gi|254780864|ref|YP_003065277.1| NADH-ubiquinone oxidoreductase, chain 4L [Candidatus Liberibacter asiaticus str. psy62] Match_columns 68 No_of_seqs 104 out of 813 Neff 4.9 Searched_HMMs 33803 Date Wed Jun 1 19:14:22 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780864.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >1y2m_A Phenylalanine ammonia- 13.1 97 0.0029 13.1 1.7 19 30-48 76-94 (109) 2 >1v54_M VIIIB, IX, cytochrome 5.4 2.1E+02 0.0063 11.3 2.6 14 37-50 11-24 (46) 3 >1bvp_1 Bluetongue virus coat 4.2 1.2E+02 0.0037 12.5 -1.2 11 2-12 65-75 (210) 4 >1k8k_G P16, ARP2/3 complex 16 3.9 1.8E+02 0.0054 11.7 -0.6 14 44-57 137-150 (151) 5 >2j5l_A Apical membrane antige 3.7 2.5E+02 0.0075 10.9 0.0 34 29-64 512-545 (581) 6 >2pq4_B Periplasmic nitrate re 3.6 3E+02 0.0088 10.6 0.4 13 34-46 12-24 (35) 7 >3iv6_A Putative Zn-dependent 3.0 3.4E+02 0.01 10.2 1.2 11 47-57 34-44 (48) 8 >2knc_B Integrin beta-3; trans 2.8 3.6E+02 0.011 10.1 3.5 21 31-51 12-32 (79) 9 >2c9l_Y EB1, zebra, BZLF1 tran 2.5 4E+02 0.012 9.9 4.4 30 34-63 28-57 (63) 10 >1m5h_A Formylmethanofuran--te 2.5 4E+02 0.012 9.9 1.6 10 35-44 34-43 (155) No 1 >>1y2m_A Phenylalanine ammonia-lyase; alpha helices; HET: MSE; 1.60A {Rhodosporidium toruloides} PDB: 1t6j_A* 1t6p_A* (A:546-654) Probab=13.11 E-value=97 Score=13.12 Aligned_cols=19 Identities=37% Similarity=0.317 Sum_probs=13.4 Q ss_pred HHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999999999 Q gi|254780864|r 30 SLFILLVAAAETSIGLAIL 48 (68) Q Consensus 30 ~lfil~iAAaEaAiGLAi~ 48 (68) ++----+|++|.||.|.-- T Consensus 76 ~~nawkva~ae~ai~ltr~ 94 (109) T 1y2m_A 76 AVNAWKVAAAESAISLTRQ 94 (109) T ss_dssp HHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHH T ss_conf 7788899999999973999 No 2 >>1v54_M VIIIB, IX, cytochrome C oxidase polypeptide VIII-heart; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} (M:) Probab=5.42 E-value=2.1e+02 Score=11.34 Aligned_cols=14 Identities=29% Similarity=0.622 Sum_probs=9.0 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999999999 Q gi|254780864|r 37 AAAETSIGLAILVI 50 (68) Q Consensus 37 AAaEaAiGLAi~v~ 50 (68) .+.|.+|||..+.. T Consensus 11 ~~~E~aigltv~f~ 24 (46) T 1v54_M 11 SPKEQAIGLSVTFL 24 (46) T ss_dssp CHHHHHHHHHHHHH T ss_pred CHHHHHHHHHHHHH T ss_conf 68999999999999 No 3 >>1bvp_1 Bluetongue virus coat protein VP7; trimer; 2.60A {Bluetongue virus 10} (1:1-119,1:259-349) Probab=4.20 E-value=1.2e+02 Score=12.55 Aligned_cols=11 Identities=27% Similarity=0.616 Sum_probs=3.9 Q ss_pred HHHHHHHHHHH Q ss_conf 69999999999 Q gi|254780864|r 2 SIELMLLAVNL 12 (68) Q Consensus 2 ~iElmLnavnl 12 (68) |+.+++-+.++ T Consensus 65 clDm~l~al~i 75 (210) T 1bvp_1 65 CLDMMLSAAGI 75 (210) T ss_dssp HHHHHHHHHTC T ss_pred HHHHHHHHCCC T ss_conf 78889986136 No 4 >>1k8k_G P16, ARP2/3 complex 16 kDa subunit, P16-ARC; beta-propeller, structural protein; 2.00A {Bos taurus} (G:) Probab=3.88 E-value=1.8e+02 Score=11.67 Aligned_cols=14 Identities=14% Similarity=0.207 Sum_probs=7.5 Q ss_pred HHHHHHHHHHHCCC Q ss_conf 99999999972178 Q gi|254780864|r 44 GLAILVIFYRKCGS 57 (68) Q Consensus 44 GLAi~v~~yR~~~s 57 (68) |++-++...-.|++ T Consensus 137 G~G~IvRvltdRrt 150 (151) T 1k8k_G 137 GVGSIVRVLTARKT 150 (151) T ss_dssp HHHHHHHHHTCSCC T ss_pred CCCCEEEEECCCCC T ss_conf 98736888505632 No 5 >>2j5l_A Apical membrane antigen 1; malaria vaccine candidate, apical membrane antigen 1, hypothetical protein, immunoglobulin domain; 2.9A {Plasmodium falciparum} (A:) Probab=3.68 E-value=2.5e+02 Score=10.93 Aligned_cols=34 Identities=18% Similarity=0.419 Sum_probs=17.1 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH Q ss_conf 999999999999999999999999721785799996 Q gi|254780864|r 29 FSLFILLVAAAETSIGLAILVIFYRKCGSISVDDFN 64 (68) Q Consensus 29 ~~lfil~iAAaEaAiGLAi~v~~yR~~~si~~d~~~ 64 (68) ..+.++++.++-..+.++++..+||++. ..|+.+ T Consensus 512 ~~~iii~~~~~~~~~~~~~~~y~~k~~~--~~~~yd 545 (581) T 2j5l_A 512 NMKIIIASSAAVAVLATILMVYLYKRKG--NAEKYD 545 (581) T ss_dssp ------------------------------------ T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHCCC--CCCHHH T ss_conf 1567899999999999999999863266--611033 No 6 >>2pq4_B Periplasmic nitrate reductase precursor; NAPD/NAPA1-35, mixed beta-alpha sandwich structure, protein- peptide complex, alpha-helix; NMR {Escherichia coli} (B:) Probab=3.58 E-value=3e+02 Score=10.57 Aligned_cols=13 Identities=46% Similarity=0.488 Sum_probs=7.9 Q ss_pred HHHHHHHHHHHHH Q ss_conf 9999999999999 Q gi|254780864|r 34 LLVAAAETSIGLA 46 (68) Q Consensus 34 l~iAAaEaAiGLA 46 (68) -++||+.++-||+ T Consensus 12 navaaaaaaagls 24 (35) T 2pq4_B 12 NAVAAAAAAAGLS 24 (35) T ss_dssp HHHHHHHHHHCCC T ss_pred CCEEECCCCCCCC T ss_conf 3101102235655 No 7 >>3iv6_A Putative Zn-dependent alcohol dehydrogenase; alpha/beta fold, rossmann-fold, structural genomics, PSI-2, protein structure initiative; HET: SAM; 2.70A {Rhodobacter sphaeroides 2} (A:170-217) Probab=3.00 E-value=3.4e+02 Score=10.24 Aligned_cols=11 Identities=36% Similarity=0.782 Sum_probs=7.5 Q ss_pred HHHHHHHHCCC Q ss_conf 99999972178 Q gi|254780864|r 47 ILVIFYRKCGS 57 (68) Q Consensus 47 i~v~~yR~~~s 57 (68) -++-.||+||. T Consensus 34 tllewyrrrgk 44 (48) T 3iv6_A 34 TLLEWYRRRGK 44 (48) T ss_dssp HHHHHHHHTCE T ss_pred HHHHHHHHCCC T ss_conf 89999997386 No 8 >>2knc_B Integrin beta-3; transmembrane signaling, coiled coil, protein structure, alternative splicing, calcium, cell adhesion; NMR {Homo sapiens} (B:) Probab=2.79 E-value=3.6e+02 Score=10.11 Aligned_cols=21 Identities=43% Similarity=0.567 Sum_probs=16.2 Q ss_pred HHHHHHHHHHHHHHHHHHHHH Q ss_conf 999999999999999999999 Q gi|254780864|r 31 LFILLVAAAETSIGLAILVIF 51 (68) Q Consensus 31 lfil~iAAaEaAiGLAi~v~~ 51 (68) ..++.+.++=+.+||++++.+ T Consensus 12 ~ivlgvi~~ivliGl~lLliw 32 (79) T 2knc_B 12 VVLLSVMGAILLIGLAALLIW 32 (79) T ss_dssp HHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHHHHHHH T ss_conf 699999999999999999999 No 9 >>2c9l_Y EB1, zebra, BZLF1 trans-activator protein; viral protein, epstein-BARR virus, EBV; 2.25A {Human herpesvirus 4} (Y:) Probab=2.54 E-value=4e+02 Score=9.90 Aligned_cols=30 Identities=30% Similarity=0.377 Sum_probs=24.6 Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCHHHH Q ss_conf 999999999999999999972178579999 Q gi|254780864|r 34 LLVAAAETSIGLAILVIFYRKCGSISVDDF 63 (68) Q Consensus 34 l~iAAaEaAiGLAi~v~~yR~~~si~~d~~ 63 (68) -++||+.+.-.=-+-+.+-..-.|+|+|.+ T Consensus 28 r~vaaaks~en~rlr~l~kqmcpsldvdsi 57 (63) T 2c9l_Y 28 REVAAAKSSENDRLRLLLKQMCPSLDVDSI 57 (63) T ss_dssp HHHHHHHHHHHHHHHHHHHHHCTTCCHHHH T ss_pred HHHHHHCCCCCHHHHHHHHHHCCCCCCCCC T ss_conf 999973025004999999986875461114 No 10 >>1m5h_A Formylmethanofuran--tetrahydromethanopterin formyltransferase; alpha/beta sandwich; 2.00A {Archaeoglobus fulgidus} (A:1-17,A:160-297) Probab=2.51 E-value=4e+02 Score=9.87 Aligned_cols=10 Identities=30% Similarity=0.464 Sum_probs=6.7 Q ss_pred HHHHHHHHHH Q ss_conf 9999999999 Q gi|254780864|r 35 LVAAAETSIG 44 (68) Q Consensus 35 ~iAAaEaAiG 44 (68) ++.|||+|+- T Consensus 34 aL~AaeaAV~ 43 (155) T 1m5h_A 34 ALAAAKAAVD 43 (155) T ss_dssp HHHHHHHHHH T ss_pred HHHHHHHHHH T ss_conf 9999999999 Done!