Query gi|254780862|ref|YP_003065275.1| NADH dehydrogenase subunit J [Candidatus Liberibacter asiaticus str. psy62] Match_columns 199 No_of_seqs 111 out of 1690 Neff 6.6 Searched_HMMs 33803 Date Wed Jun 1 19:34:45 2011 Command /home/congqian_1/programs/hhpred/hhsearch -i 254780862.hhm -d /home/congqian_1/database/mmdb/mmdb70.hhm No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM 1 >2i68_A Protein EMRE; transmem 51.8 13 0.0004 15.9 4.8 37 131-169 71-107 (137) 2 >2fd5_A Transcriptional regula 47.9 14 0.00042 15.8 2.6 35 149-187 69-103 (105) 3 >2k21_A Potassium voltage-gate 33.9 13 0.00038 16.0 0.5 26 154-179 63-89 (90) 4 >2qi9_A Vitamin B12 import sys 31.5 29 0.00086 14.1 6.4 64 11-74 67-134 (326) 5 >1z9h_A Membrane-associated pr 22.9 42 0.0012 13.2 2.4 14 58-71 34-47 (56) 6 >1tzs_X 23-MER peptide from PE 15.1 59 0.0017 12.4 0.9 16 141-156 2-17 (26) 7 >2zze_A Alanyl-tRNA synthetase 12.9 75 0.0022 11.9 1.9 45 133-188 26-70 (77) 8 >2wjn_M Reaction center protei 11.8 37 0.0011 13.5 -0.9 19 152-170 71-90 (148) 9 >3bz1_A Photosystem Q(B) prote 9.6 98 0.0029 11.2 5.1 37 140-176 49-93 (202) 10 >1s7q_A H-2KB, H-2 class I his 7.8 98 0.0029 11.2 0.0 45 143-187 109-153 (169) No 1 >>2i68_A Protein EMRE; transmembrane protein, small-multidrug resistance, transporter, homodimer, dual topology, transport protein; NMR {Escherichia coli} (A:) Probab=51.82 E-value=13 Score=15.92 Aligned_cols=37 Identities=19% Similarity=0.293 Sum_probs=25.7 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC Q ss_conf 899999998752699999999999999999999975058 Q gi|254780862|r 131 VENIGKVLYTQYAYPLEISGFILLLSMIGAIVLMLRHRR 169 (199) Q Consensus 131 ~~~iG~~L~t~y~~~fel~sviLLvamiGAi~La~~~~~ 169 (199) +.-+|..++.+-.-+....|+.+. +.|.+.+...+++ T Consensus 71 ~~i~a~~~l~E~lt~~~~lG~~li--i~Gv~li~~~~~~ 107 (137) T 2i68_A 71 ISLLSWGFFGQRLDLPAIIGMMLI--CAGVLIINLLSRS 107 (137) T ss_dssp HHHHHHHHHC------CHHHHHHH--HHHHHHHHHC--- T ss_pred HHHHHHHHHCCCCCHHHHHHHHHH--HHHHHHEECCCCC T ss_conf 999999993798989999999999--9999930015788 No 2 >>2fd5_A Transcriptional regulator; DNA-binding protein, structural genomics, PSI, protein structure initiative; 1.70A {Pseudomonas aeruginosa PAO1} (A:76-180) Probab=47.87 E-value=14 Score=15.80 Aligned_cols=35 Identities=17% Similarity=0.241 Sum_probs=23.3 Q ss_pred HHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCHHHC Q ss_conf 999999999999999975058875468999950084315 Q gi|254780862|r 149 SGFILLLSMIGAIVLMLRHRRDIKRQDISKQLESNPDNS 187 (199) Q Consensus 149 ~sviLLvamiGAi~La~~~~~~~krq~~~~q~~~~~~~~ 187 (199) -.+-++..|+||++|+|-- ..++...++....++. T Consensus 69 ~A~~~~a~mVGal~LARa~----~d~~ls~~iL~a~r~~ 103 (105) T 2fd5_A 69 VALADLVLMIGGLALARAL----GPGELSDRVLRAAKQA 103 (105) T ss_dssp HHHHHHHHHHHHHHHHHHH----CSSHHHHHHHHHHHHT T ss_pred HHHHHHHHHHHHHHHHHHH----CCHHHHHHHHHHHHHH T ss_conf 8999999999999999883----7873899999999997 No 3 >>2k21_A Potassium voltage-gated channel subfamily E member; KCNE1, membrane protein, potassium channel, MINK, auxilliary subunit, micelles, ION transport; NMR {Homo sapiens} (A:1-90) Probab=33.86 E-value=13 Score=16.04 Aligned_cols=26 Identities=15% Similarity=0.077 Sum_probs=15.5 Q ss_pred HHHHHHHHHHH-HHCCCCCCCCCHHHH Q ss_conf 99999999999-750588754689999 Q gi|254780862|r 154 LLSMIGAIVLM-LRHRRDIKRQDISKQ 179 (199) Q Consensus 154 LvamiGAi~La-~~~~~~~krq~~~~q 179 (199) -...+++|.|. .|.|+..||+|++.| T Consensus 63 fgff~~gImLsYiRSKk~e~~~DPy~~ 89 (90) T 2k21_A 63 FGFFTLGIMLSYIRSKKLEHSNDPFNV 89 (90) T ss_dssp HHHHHHHHHHHHHHHHHHCCCCCTTTT T ss_pred HHHHHHHHHHHHHHHHHCCCCCCCHHH T ss_conf 999999999987788650367993778 No 4 >>2qi9_A Vitamin B12 import system permease protein BTUC; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_A* (A:) Probab=31.46 E-value=29 Score=14.09 Aligned_cols=64 Identities=19% Similarity=0.116 Sum_probs=33.3 Q ss_pred HHHHHHHHHHHHHHHCCHHHHH----HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH Q ss_conf 9999999999999724289999----999999999999999808707999999999999999999999 Q gi|254780862|r 11 FSFMAIISSFLVVTVRNPIYSV----FSLIFAFVNAAGLFLLLGAEFVAMITLVVYVGAVIVFFLFII 74 (199) Q Consensus 11 ~a~l~i~sal~vi~~kn~v~s~----l~Li~~f~~vAgl~~lL~aeFla~~qIlVYvGAI~VLflFvI 74 (199) =+.+++.+.+.-..+|||.-+- ..-...+..+.++++.-+...........-.+.......+.. T Consensus 67 G~~LavsG~~~Q~~~rNpLa~P~ilGi~sga~l~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 (326) T 2qi9_A 67 GAALAISGAVXQALFENPLAEPGLLGVSNGAGVGLIAAVLLGQGQLPNWALGLSAIAGALIITLILLR 134 (326) T ss_dssp HHHHHHHHHHHHHHTTCSSCCGGGGTHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHHHHHHHHHHH T ss_pred HHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH T ss_conf 99999999999999369876742454025899999999982454027899999999999999999998 No 5 >>1z9h_A Membrane-associated prostaglandin E synthase-2; membran associated protein, indomethacin, isomerase; HET: IMN; 2.60A {Macaca fascicularis} (A:156-211) Probab=22.87 E-value=42 Score=13.21 Aligned_cols=14 Identities=21% Similarity=0.714 Sum_probs=9.9 Q ss_pred HHHHHHHHHHHHHH Q ss_conf 99999999999999 Q gi|254780862|r 58 TLVVYVGAVIVFFL 71 (199) Q Consensus 58 qIlVYvGAI~VLfl 71 (199) +..+|+||+++-++ T Consensus 34 ~~~~y~GA~aM~~I 47 (56) T 1z9h_A 34 AVAKYMGAAAMYLI 47 (56) T ss_dssp HHHHHHHHHHHHHH T ss_pred HHHHHHCHHHHHHH T ss_conf 99875023777664 No 6 >>1tzs_X 23-MER peptide from PELB-IGG kappa light chain fusion protein; hydrolase, aspartic protease, activation intermediate; 2.35A {Homo sapiens} (X:) Probab=15.06 E-value=59 Score=12.44 Aligned_cols=16 Identities=31% Similarity=0.708 Sum_probs=10.4 Q ss_pred HHHHHHHHHHHHHHHH Q ss_conf 5269999999999999 Q gi|254780862|r 141 QYAYPLEISGFILLLS 156 (199) Q Consensus 141 ~y~~~fel~sviLLva 156 (199) +|.+|-..++++||.| T Consensus 2 kyllptaaagllllaa 17 (26) T 1tzs_X 2 KYLLPTAAAGLLLLAA 17 (26) T ss_pred CCCCHHHHHHHHHHHC T ss_conf 5213007878899945 No 7 >>2zze_A Alanyl-tRNA synthetase; ligase, hydrolase; HET: MLY; 2.16A {Pyrococcus horikoshii} PDB: 2zzf_A 2zzg_A* (A:427-503) Probab=12.93 E-value=75 Score=11.86 Aligned_cols=45 Identities=9% Similarity=0.047 Sum_probs=29.3 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCHHHCE Q ss_conf 99999987526999999999999999999999750588754689999500843156 Q gi|254780862|r 133 NIGKVLYTQYAYPLEISGFILLLSMIGAIVLMLRHRRDIKRQDISKQLESNPDNSI 188 (199) Q Consensus 133 ~iG~~L~t~y~~~fel~sviLLvamiGAi~La~~~~~~~krq~~~~q~~~~~~~~i 188 (199) ...-.||..|-+|.|++- .+|.+++-.+--++=|.+...+..++. T Consensus 26 ~~af~LYDTyGfP~dlt~-----------eia~e~g~~vD~~~gF~~~~~~~~~~s 70 (77) T 2zze_A 26 EXLVTFYESHGLTPEIVX-----------EIAEKEGVKVNIPDNFYSMVAKEAERT 70 (77) T ss_dssp HHHHHHHHHHCCCHHHHH-----------HHHTTSSCCCCCCTTHHHHHHGGGGCC T ss_pred HHHHHHHHHCCCCHHHHH-----------HHHHHHCCEECCHHHHHHHHHHHHHHH T ss_conf 889998870499889999-----------999872646330468889999999998 No 8 >>2wjn_M Reaction center protein M chain; bacteriochlorophyll, lipidic-sponge phase, photosynthesis, electron transport, cell membrane; HET: HEM FME BCB BPB MPG MQ7 NS5; 1.86A {Rhodopseudomonas viridis} PDB: 2wjm_M* 2i5n_M* 1prc_M* 1r2c_M* 1vrn_M* 1dxr_M* 2jbl_M* 2prc_M* 3d38_M* 3prc_M* 5prc_M* 6prc_M* 7prc_M* 3g7f_M* (M:142-289) Probab=11.85 E-value=37 Score=13.54 Aligned_cols=19 Identities=37% Similarity=0.433 Sum_probs=13.6 Q ss_pred HHHHHHHHHHHHH-HHCCCC Q ss_conf 9999999999999-750588 Q gi|254780862|r 152 ILLLSMIGAIVLM-LRHRRD 170 (199) Q Consensus 152 iLLvamiGAi~La-~~~~~~ 170 (199) -|+-||=|+.+++ .+.+++ T Consensus 71 al~~AmHGa~Vls~s~~~~~ 90 (148) T 2wjn_M 71 GLLFAAHGATILAVARFGGD 90 (148) T ss_dssp HHHHHHHHHHHHHTGGGTTT T ss_pred HHHHHCCCHHHEEEECCCCC T ss_conf 17765234031344225898 No 9 >>3bz1_A Photosystem Q(B) protein; electron transport photosystem, membrane complex, transmembrane alpha-helix; HET: CLA PHO HEM PL9 BCR DGD LHG SQD LMG LMT; 2.90A {Thermosynechococcus elongatus} PDB: 1s5l_A* 2axt_A* 3bz2_A* 1w5c_A* 1izl_A* 3a0b_A* 3a0h_A* (A:143-344) Probab=9.56 E-value=98 Score=11.21 Aligned_cols=37 Identities=16% Similarity=0.241 Sum_probs=17.5 Q ss_pred HHHHHHHHHHHH------HHHHHHHHHHHHHHH--CCCCCCCCCH Q ss_conf 752699999999------999999999999975--0588754689 Q gi|254780862|r 140 TQYAYPLEISGF------ILLLSMIGAIVLMLR--HRRDIKRQDI 176 (199) Q Consensus 140 t~y~~~fel~sv------iLLvamiGAi~La~~--~~~~~krq~~ 176 (199) .=|.-||-..|+ -|+-||=|+.+++-- +.++...|.. T Consensus 49 N~~ynPfHMl~Vaf~fg~aLl~AmHGslVls~~~~~~~~e~~~~~ 93 (202) T 3bz1_A 49 NILMHPFHQLGVAGVFGGALFCAMHGSLVTSSLIRETTETESANY 93 (202) T ss_dssp CGGGSHHHHHHHHHHHHHHHHHHHHHHHHHHTBBCCSCTTSCTTT T ss_pred HHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCC T ss_conf 330084998999999855999998652775035567766467656 No 10 >>1s7q_A H-2KB, H-2 class I histocompatibility antigen, K-B alpha chain; LCMV, MHC class I, immune escape, immune system; 1.99A {Mus musculus} (A:180-348) Probab=7.78 E-value=98 Score=11.21 Aligned_cols=45 Identities=16% Similarity=0.110 Sum_probs=0.0 Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHHHCCHHHC Q ss_conf 699999999999999999999975058875468999950084315 Q gi|254780862|r 143 AYPLEISGFILLLSMIGAIVLMLRHRRDIKRQDISKQLESNPDNS 187 (199) Q Consensus 143 ~~~fel~sviLLvamiGAi~La~~~~~~~krq~~~~q~~~~~~~~ 187 (199) .....+..++++++.+...++-+|++++.|+.+.....+.+-+|. T Consensus 109 ~v~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~s~~~s~~ 153 (169) T 1s7q_A 109 AVLVVLGAAIVTGAVVAFVMKMRRRNTGGKGGDYALAPGSQTSDL 153 (169) T ss_dssp --------------------------------------------- T ss_pred EEEHHHHHHHHHHHEEEEEEEEEECCCCCCCCCCCCCCCCCCCCC T ss_conf 220469999999860388999996589999998755898887666 Done!