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!