Query         537021.9.peg.116_1
Match_columns 39
No_of_seqs    1 out of 3
Neff          1.0 
Searched_HMMs 23785
Date          Mon May 23 23:01:02 2011
Command       /home/congqian_1/programs/hhpred/hhsearch -i peg_116.hhm -d /home/congqian_1/database/pdb/pdb70.hhm 

 No Hit                             Prob E-value P-value  Score    SS Cols Query HMM  Template HMM
  1 3mly_P HIV-1 GP120 third varia   7.1      61  0.0026   15.3  -0.5   17   10-26      2-18  (26)
  2 2kog_A Vesicle-associated memb   6.8 1.1E+02  0.0048   14.1   0.7   27    7-33     76-102 (119)
  3 3hd7_A Vesicle-associated memb   5.0 1.6E+02  0.0069   13.4   0.6   27    7-33     48-74  (91)
  4 3mlx_P HIV-1 GP120 third varia   4.4      89  0.0038   14.6  -1.1   18    9-26      1-18  (26)
  5 3jyv_O 40S ribosomal protein S   3.1 3.1E+02   0.013   12.0   0.8   19   10-28     62-80  (84)
  6 1z2z_A Probable tRNA pseudouri   2.8 3.6E+02   0.015   11.7   1.6   26   10-35    253-281 (446)
  7 1m1e_B ICAT; cell adhesion, cy   2.8 2.8E+02   0.012   12.3   0.2   10   14-23      6-15  (81)
  8 1pq1_B BCL2-like protein 11; B   2.4 3.3E+02   0.014   11.9   0.3   10   19-28     24-33  (33)
  9 2k0m_A Uncharacterized protein   2.3 3.6E+02   0.015   11.8   0.3    6   26-31     91-96  (104)
 10 2lis_A Sperm lysin; abalone ly   2.2 4.5E+02   0.019   11.3   0.6   19   12-30     70-88  (136)

No 1  
>3mly_P HIV-1 GP120 third variable region (V3) crown; human monoclonal antibody, FAB, third variable antibody-antigen interaction; 1.70A {Human immunodeficiency virus 1} PDB: 2b1h_P 3mlu_P
Probab=7.06  E-value=61  Score=15.34  Aligned_cols=17  Identities=47%  Similarity=0.673  Sum_probs=13.8

Q ss_pred             CHHHHHHHCCHHHHHHH
Q ss_conf             37778520324453212
Q 537021.9.peg.1   10 NYKKRIGKLPRTMFYNS   26 (39)
Q Consensus        10 nykkrigklprtmfyns   26 (39)
                      |-||.|.--||..||..
T Consensus         2 ntkksikirprqafyat   18 (26)
T 3mly_P            2 NTKKSIKIRPRQAFYAT   18 (26)
T ss_pred             CCCCCEEECCHHHEECC
T ss_conf             85542586516740101


No 2  
>2kog_A Vesicle-associated membrane protein 2; synaptobrevin, VAMP2, DPC micelle, snare, coiled coil, membrane fusion, transmembrane; NMR {Rattus norvegicus}
Probab=6.76  E-value=1.1e+02  Score=14.11  Aligned_cols=27  Identities=22%  Similarity=0.390  Sum_probs=22.3

Q ss_pred             ECCCHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             001377785203244532123321212
Q 537021.9.peg.1    7 EAYNYKKRIGKLPRTMFYNSYRNCIIN   33 (39)
Q Consensus         7 eaynykkrigklprtmfynsyrnciin   33 (39)
                      +|-.+++.-.+|.|.|++..|+-.+|-
T Consensus        76 ~s~~F~k~A~kL~r~mwwrn~K~~ii~  102 (119)
T 2kog_A           76 GASQFETSAAKLKRKYWWKNLKMMIIL  102 (119)
T ss_dssp             SSHHHHHHHHHHHHHHSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             699999999999999999999999999


No 3  
>3hd7_A Vesicle-associated membrane protein 2; membrane protein, coiled-coil, 4-helical bundle, acetylation, cell junction, coiled coil; HET: GGG; 3.40A {Rattus norvegicus} PDB: 3hd9_A 3ipd_A
Probab=4.98  E-value=1.6e+02  Score=13.36  Aligned_cols=27  Identities=22%  Similarity=0.390  Sum_probs=21.9

Q ss_pred             ECCCHHHHHHHCCHHHHHHHHHHHHHH
Q ss_conf             001377785203244532123321212
Q 537021.9.peg.1    7 EAYNYKKRIGKLPRTMFYNSYRNCIIN   33 (39)
Q Consensus         7 eaynykkrigklprtmfynsyrnciin   33 (39)
                      +|-.+++.--+|.|.|+...|+-.+|-
T Consensus        48 ~s~~F~~~a~~l~~~~ww~~~K~~~i~   74 (91)
T 3hd7_A           48 GASQFETSAAKLKRKYWWKNLKMMIIL   74 (91)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf             899999999999999999999999999


No 4  
>3mlx_P HIV-1 GP120 third variable region (V3) crown; human monoclonal antibody, FAB, third variable antibody-antigen interaction, immune system; 1.90A {Hiv-1 M} PDB: 3mlw_P 1f58_P 1ai1_P 1acy_P 2b1a_P 3mlt_P
Probab=4.35  E-value=89  Score=14.59  Aligned_cols=18  Identities=44%  Similarity=0.717  Sum_probs=14.1

Q ss_pred             CCHHHHHHHCCHHHHHHH
Q ss_conf             137778520324453212
Q 537021.9.peg.1    9 YNYKKRIGKLPRTMFYNS   26 (39)
Q Consensus         9 ynykkrigklprtmfyns   26 (39)
                      ||-.|||.--|...||..
T Consensus         1 ynkrkrihigpgrafytt   18 (26)
T 3mlx_P            1 YNKRKRIHIGPGRAFYTT   18 (26)
T ss_pred             CCCCCEEEECCCCEEEEE
T ss_conf             985304777798116774


No 5  
>3jyv_O 40S ribosomal protein S13; eukaryotic ribosome, RACK1 protein, flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC 7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1ysh_E 1s1h_O
Probab=3.07  E-value=3.1e+02  Score=12.05  Aligned_cols=19  Identities=26%  Similarity=0.454  Sum_probs=14.8

Q ss_pred             CHHHHHHHCCHHHHHHHHH
Q ss_conf             3777852032445321233
Q 537021.9.peg.1   10 NYKKRIGKLPRTMFYNSYR   28 (39)
Q Consensus        10 nykkrigklprtmfynsyr   28 (39)
                      .|-|+.|.||.+--|.+-.
T Consensus        62 rYYk~~~~Lp~~WkY~~~~   80 (84)
T 3jyv_O           62 RYYRTVAVLPPNWKYESAT   80 (84)
T ss_dssp             HHHHHHCCSSCSHHHHHHH
T ss_pred             HHHHHCCCCCCCCEECHHH
T ss_conf             9998558599997377786


No 6  
>1z2z_A Probable tRNA pseudouridine synthase D; alpha-beta protein., structural genomics, PSI, protein structure initiative; 2.60A {Methanosarcina mazei}
Probab=2.81  E-value=3.6e+02  Score=11.75  Aligned_cols=26  Identities=35%  Similarity=0.667  Sum_probs=18.3

Q ss_pred             CHHHHHHHCCH---HHHHHHHHHHHHHHH
Q ss_conf             37778520324---453212332121210
Q 537021.9.peg.1   10 NYKKRIGKLPR---TMFYNSYRNCIINTI   35 (39)
Q Consensus        10 nykkrigklpr---tmfynsyrnciinti   35 (39)
                      +|++.+-.+||   .||-.+|+.++-|.+
T Consensus       253 ~~~~A~~~ipr~lr~myihAyQS~lfN~~  281 (446)
T 1z2z_A          253 DYSGSFRVLPQNLYRMFVHGYQSYIYNII  281 (446)
T ss_dssp             CGGGGGTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHCCHHHHHHHHHHHHHHHHHHH
T ss_conf             37678871999999999877777765289


No 7  
>1m1e_B ICAT; cell adhesion, cytoskeleton, armadillo repeats, transciption factor, structural protein; 2.10A {Homo sapiens} SCOP: a.161.1.1 PDB: 1luj_B 1t08_B
Probab=2.77  E-value=2.8e+02  Score=12.28  Aligned_cols=10  Identities=40%  Similarity=0.727  Sum_probs=6.9

Q ss_pred             HHHHCCHHHH
Q ss_conf             8520324453
Q 537021.9.peg.1   14 RIGKLPRTMF   23 (39)
Q Consensus        14 rigklprtmf   23 (39)
                      .+|||||.++
T Consensus         6 ~vGKl~~d~y   15 (81)
T 1m1e_B            6 APGKSPEEMY   15 (81)
T ss_dssp             ---CCHHHHH
T ss_pred             CCCCCHHHHH
T ss_conf             0463449998


No 8  
>1pq1_B BCL2-like protein 11; BCL-XL/BIM, apoptosis; 1.65A {Mus musculus}
Probab=2.44  E-value=3.3e+02  Score=11.93  Aligned_cols=10  Identities=50%  Similarity=0.926  Sum_probs=0.0

Q ss_pred             CHHHHHHHHH
Q ss_conf             2445321233
Q 537021.9.peg.1   19 PRTMFYNSYR   28 (39)
Q Consensus        19 prtmfynsyr   28 (39)
                      ||..|.|.|+
T Consensus        24 ~rrv~~n~~~   33 (33)
T 1pq1_B           24 TRRVFANDYR   33 (33)
T ss_dssp             HHHHHHHTTC
T ss_pred             CHHHHCCCCC
T ss_conf             3000003579


No 9  
>2k0m_A Uncharacterized protein; structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Rhodospirillum rubrum atcc 11170}
Probab=2.30  E-value=3.6e+02  Score=11.79  Aligned_cols=6  Identities=50%  Similarity=1.558  Sum_probs=0.0

Q ss_pred             HHHHHH
Q ss_conf             233212
Q 537021.9.peg.1   26 SYRNCI   31 (39)
Q Consensus        26 syrnci   31 (39)
                      ||+.||
T Consensus        91 Sy~KCv   96 (104)
T 2k0m_A           91 SYKKCV   96 (104)
T ss_dssp             CGGGSS
T ss_pred             EHHHHH
T ss_conf             699998


No 10 
>2lis_A Sperm lysin; abalone lysin, fertilization protein, gamete recognition protein, cell adhesion; 1.35A {Haliotis rufescens} SCOP: a.19.1.1 PDB: 1lyn_A 1lis_A 2lyn_A
Probab=2.18  E-value=4.5e+02  Score=11.34  Aligned_cols=19  Identities=32%  Similarity=0.420  Sum_probs=0.0

Q ss_pred             HHHHHHCCHHHHHHHHHHH
Q ss_conf             7785203244532123321
Q 537021.9.peg.1   12 KKRIGKLPRTMFYNSYRNC   30 (39)
Q Consensus        12 kkrigklprtmfynsyrnc   30 (39)
                      .|+|.||-|+---+.|+++
T Consensus        70 ~k~i~kLGR~P~~~DY~~l   88 (136)
T 2lis_A           70 NKKIDALGRTPVVGDYTRL   88 (136)
T ss_dssp             HHHHHTSSSCCCHHHHHHH
T ss_pred             HHHHHHHCCCCCHHHHHHH
T ss_conf             9999994899865579999


Done!