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!