
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms   31 (  124),  selected   31 , name T0363AL044_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363AL044_1-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N      11           -
LGA    -       -      Q      12           -
LGA    -       -      I      13           -
LGA    -       -      N      14           -
LGA    I      13      I      15          1.667
LGA    N      14      E      16          2.626
LGA    I      15      I      17          2.515
LGA    E      16      A      18          2.867
LGA    I      17      Y      19          2.774
LGA    A      18      A      20          2.554
LGA    Y      19      F      21          4.230
LGA    A      20      P      22          2.220
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    F      21      Y      25          5.156
LGA    P      22      Y      26          2.872
LGA    E      23      L      27           -
LGA    R      24      K      28           -
LGA    -       -      S      29           -
LGA    -       -      F      30           -
LGA    -       -      Q      31           -
LGA    -       -      V      32           -
LGA    V      32      D      33           #
LGA    -       -      E      34           -
LGA    D      33      G      35          0.713
LGA    V      38      I      36          0.514
LGA    -       -      T      37           -
LGA    Q      39      V      38          0.636
LGA    T      40      Q      39          2.100
LGA    A      41      T      40          1.482
LGA    I      42      A      41          1.745
LGA    T      43      I      42          2.133
LGA    Q      44      T      43          1.147
LGA    S      45      Q      44          1.281
LGA    G      46      S      45          2.802
LGA    I      47      G      46          4.050
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      I      47          3.933
LGA    F      51      L      48          4.314
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    P      52      I      54          1.768
LGA    E      53      D      55          2.096
LGA    L      56      L      56          4.422

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   31   46    5.0     26    2.77    15.38     37.378     0.905

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.986249 * X  +  -0.096567 * Y  +  -0.134116 * Z  +  30.056320
  Y_new =  -0.106427 * X  +  -0.249732 * Y  +   0.962448 * Z  +  16.892977
  Z_new =  -0.126433 * X  +   0.963488 * Y  +   0.236021 * Z  +   7.211329 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.330562   -1.811031  [ DEG:    76.2356   -103.7644 ]
  Theta =   0.126773    3.014820  [ DEG:     7.2635    172.7365 ]
  Phi   =  -3.034098    0.107495  [ DEG:  -173.8410      6.1590 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0363AL044_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363AL044_1-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   31   46   5.0   26   2.77   15.38  37.378
REMARK  ---------------------------------------------------------- 
MOLECULE T0363AL044_1-D1
REMARK Aligment from pdb entry: 1wgk_A
ATOM      1  N   ILE    13      19.917   9.451   4.558  1.00  0.00              
ATOM      2  CA  ILE    13      19.915  10.865   4.913  1.00  0.00              
ATOM      3  C   ILE    13      20.240  11.736   3.703  1.00  0.00              
ATOM      4  O   ILE    13      21.096  11.392   2.888  1.00  0.00              
ATOM      5  N   ASN    14      19.549  12.866   3.593  1.00  0.00              
ATOM      6  CA  ASN    14      19.764  13.788   2.483  1.00  0.00              
ATOM      7  C   ASN    14      20.789  14.855   2.854  1.00  0.00              
ATOM      8  O   ASN    14      20.512  15.741   3.663  1.00  0.00              
ATOM      9  N   ILE    15      21.973  14.764   2.257  1.00  0.00              
ATOM     10  CA  ILE    15      23.039  15.723   2.523  1.00  0.00              
ATOM     11  C   ILE    15      23.100  16.791   1.437  1.00  0.00              
ATOM     12  O   ILE    15      23.066  16.482   0.246  1.00  0.00              
ATOM     13  N   GLU    16      23.191  18.049   1.857  1.00  0.00              
ATOM     14  CA  GLU    16      23.257  19.164   0.918  1.00  0.00              
ATOM     15  C   GLU    16      24.389  20.118   1.286  1.00  0.00              
ATOM     16  O   GLU    16      24.584  20.446   2.457  1.00  0.00              
ATOM     17  N   ILE    17      25.133  20.560   0.277  1.00  0.00              
ATOM     18  CA  ILE    17      26.248  21.476   0.493  1.00  0.00              
ATOM     19  C   ILE    17      26.013  22.798  -0.232  1.00  0.00              
ATOM     20  O   ILE    17      25.546  22.820  -1.370  1.00  0.00              
ATOM     21  N   ALA    18      26.342  23.899   0.436  1.00  0.00              
ATOM     22  CA  ALA    18      26.160  25.210  -0.159  1.00  0.00              
ATOM     23  C   ALA    18      26.957  25.382  -1.437  1.00  0.00              
ATOM     24  O   ALA    18      27.184  24.419  -2.169  1.00  0.00              
ATOM     25  N   TYR    19      27.380  26.613  -1.708  1.00  0.00              
ATOM     26  CA  TYR    19      28.148  26.886  -2.909  1.00  0.00              
ATOM     27  C   TYR    19      29.640  26.725  -2.691  1.00  0.00              
ATOM     28  O   TYR    19      30.193  27.247  -1.723  1.00  0.00              
ATOM     29  N   ALA    20      30.293  25.999  -3.592  1.00  0.00              
ATOM     30  CA  ALA    20      31.723  25.782  -3.475  1.00  0.00              
ATOM     31  C   ALA    20      32.059  24.396  -2.961  1.00  0.00              
ATOM     32  O   ALA    20      32.919  23.713  -3.515  1.00  0.00              
ATOM     33  N   PHE    21      31.381  23.981  -1.896  1.00  0.00              
ATOM     34  CA  PHE    21      31.612  22.669  -1.306  1.00  0.00              
ATOM     35  C   PHE    21      31.052  21.562  -2.194  1.00  0.00              
ATOM     36  O   PHE    21      31.685  20.523  -2.380  1.00  0.00              
ATOM     37  N   PRO    22      29.861  21.792  -2.738  1.00  0.00              
ATOM     38  CA  PRO    22      29.217  20.813  -3.606  1.00  0.00              
ATOM     39  C   PRO    22      30.212  20.235  -4.609  1.00  0.00              
ATOM     40  O   PRO    22      30.184  19.042  -4.911  1.00  0.00              
ATOM     41  N   GLU    23      31.089  21.091  -5.122  1.00  0.00              
ATOM     42  CA  GLU    23      32.093  20.668  -6.091  1.00  0.00              
ATOM     43  C   GLU    23      32.919  19.506  -5.549  1.00  0.00              
ATOM     44  O   GLU    23      33.234  18.562  -6.274  1.00  0.00              
ATOM     45  N   ARG    24      24.716  -2.151  15.486  1.00  0.00              
ATOM     46  CA  ARG    24      24.195  -2.114  16.847  1.00  0.00              
ATOM     47  C   ARG    24      24.082  -0.678  17.349  1.00  0.00              
ATOM     48  O   ARG    24      23.168  -0.342  18.101  1.00  0.00              
ATOM     49  N   VAL    32      25.018   0.165  16.925  1.00  0.00              
ATOM     50  CA  VAL    32      25.025   1.566  17.331  1.00  0.00              
ATOM     51  C   VAL    32      24.547   2.465  16.194  1.00  0.00              
ATOM     52  O   VAL    32      24.859   2.246  15.023  1.00  0.00              
ATOM     53  N   ASP    33      23.771   3.501  16.545  1.00  0.00              
ATOM     54  CA  ASP    33      23.234   4.454  15.569  1.00  0.00              
ATOM     55  C   ASP    33      24.318   5.343  14.969  1.00  0.00              
ATOM     56  O   ASP    33      25.256   5.746  15.658  1.00  0.00              
ATOM     57  N   VAL    38      24.184   5.645  13.684  1.00  0.00              
ATOM     58  CA  VAL    38      25.153   6.487  12.991  1.00  0.00              
ATOM     59  C   VAL    38      25.167   7.895  13.577  1.00  0.00              
ATOM     60  O   VAL    38      24.209   8.652  13.419  1.00  0.00              
ATOM     61  N   GLN    39      27.042  11.764  14.085  1.00  0.00              
ATOM     62  CA  GLN    39      27.816  12.732  13.320  1.00  0.00              
ATOM     63  C   GLN    39      29.296  12.363  13.304  1.00  0.00              
ATOM     64  O   GLN    39      29.924  12.316  12.246  1.00  0.00              
ATOM     65  N   THR    40      29.847  12.100  14.485  1.00  0.00              
ATOM     66  CA  THR    40      31.253  11.734  14.608  1.00  0.00              
ATOM     67  C   THR    40      31.669  10.790  13.484  1.00  0.00              
ATOM     68  O   THR    40      32.597  11.078  12.729  1.00  0.00              
ATOM     69  N   ALA    41      30.976   9.661  13.379  1.00  0.00              
ATOM     70  CA  ALA    41      31.273   8.673  12.349  1.00  0.00              
ATOM     71  C   ALA    41      30.855   9.181  10.972  1.00  0.00              
ATOM     72  O   ALA    41      31.623   9.107  10.011  1.00  0.00              
ATOM     73  N   ILE    42      29.634   9.696  10.883  1.00  0.00              
ATOM     74  CA  ILE    42      29.113  10.217   9.625  1.00  0.00              
ATOM     75  C   ILE    42      30.218  10.881   8.811  1.00  0.00              
ATOM     76  O   ILE    42      30.306  10.697   7.596  1.00  0.00              
ATOM     77  N   THR    43      31.061  11.654   9.487  1.00  0.00              
ATOM     78  CA  THR    43      32.163  12.344   8.828  1.00  0.00              
ATOM     79  C   THR    43      33.029  11.364   8.044  1.00  0.00              
ATOM     80  O   THR    43      33.293  11.561   6.857  1.00  0.00              
ATOM     81  N   GLN    44      33.468  10.303   8.715  1.00  0.00              
ATOM     82  CA  GLN    44      34.303   9.289   8.081  1.00  0.00              
ATOM     83  C   GLN    44      33.712   8.847   6.747  1.00  0.00              
ATOM     84  O   GLN    44      34.437   8.635   5.775  1.00  0.00              
ATOM     85  N   SER    45      32.391   8.710   6.708  1.00  0.00              
ATOM     86  CA  SER    45      31.703   8.293   5.492  1.00  0.00              
ATOM     87  C   SER    45      31.658   9.427   4.475  1.00  0.00              
ATOM     88  O   SER    45      32.171   9.296   3.363  1.00  0.00              
ATOM     89  N   GLY    46      31.045  10.540   4.863  1.00  0.00              
ATOM     90  CA  GLY    46      30.936  11.698   3.984  1.00  0.00              
ATOM     91  C   GLY    46      32.313  12.196   3.558  1.00  0.00              
ATOM     92  O   GLY    46      32.447  12.913   2.567  1.00  0.00              
ATOM     93  N   ILE    47      33.335  11.809   4.313  1.00  0.00              
ATOM     94  CA  ILE    47      34.704  12.212   4.013  1.00  0.00              
ATOM     95  C   ILE    47      35.358  11.238   3.039  1.00  0.00              
ATOM     96  O   ILE    47      36.372  11.553   2.417  1.00  0.00              
ATOM     97  N   LEU    48      34.770  10.054   2.909  1.00  0.00              
ATOM     98  CA  LEU    48      35.293   9.034   2.008  1.00  0.00              
ATOM     99  C   LEU    48      34.284   8.708   0.912  1.00  0.00              
ATOM    100  O   LEU    48      34.525   8.976  -0.265  1.00  0.00              
ATOM    101  N   SER    49      33.153   8.131   1.306  1.00  0.00              
ATOM    102  CA  SER    49      32.107   7.770   0.355  1.00  0.00              
ATOM    103  C   SER    49      31.729   8.964  -0.517  1.00  0.00              
ATOM    104  O   SER    49      32.014   8.986  -1.715  1.00  0.00              
ATOM    105  N   GLN    50      31.088   9.954   0.092  1.00  0.00              
ATOM    106  CA  GLN    50      30.671  11.152  -0.628  1.00  0.00              
ATOM    107  C   GLN    50      31.881  11.940  -1.121  1.00  0.00              
ATOM    108  O   GLN    50      32.151  11.999  -2.321  1.00  0.00              
ATOM    109  N   PHE    51      32.606  12.544  -0.185  1.00  0.00              
ATOM    110  CA  PHE    51      33.790  13.328  -0.524  1.00  0.00              
ATOM    111  C   PHE    51      34.680  12.573  -1.506  1.00  0.00              
ATOM    112  O   PHE    51      35.228  11.519  -1.182  1.00  0.00              
ATOM    113  N   PRO    52      37.104  18.922   5.084  1.00  0.00              
ATOM    114  CA  PRO    52      37.134  18.697   6.524  1.00  0.00              
ATOM    115  C   PRO    52      38.470  18.106   6.961  1.00  0.00              
ATOM    116  O   PRO    52      39.142  17.429   6.184  1.00  0.00              
ATOM    117  N   GLU    53      38.846  18.367   8.209  1.00  0.00              
ATOM    118  CA  GLU    53      40.102  17.860   8.749  1.00  0.00              
ATOM    119  C   GLU    53      39.862  17.054  10.021  1.00  0.00              
ATOM    120  O   GLU    53      39.601  17.616  11.084  1.00  0.00              
ATOM    121  N   LEU    56      39.950  15.733   9.904  1.00  0.00              
ATOM    122  CA  LEU    56      39.739  14.871  11.054  1.00  0.00              
ATOM    123  C   LEU    56      38.311  14.374  11.150  1.00  0.00              
ATOM    124  O   LEU    56      37.524  14.540  10.218  1.00  0.00              
END
