
#######################################################
#                                                     #
#                        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  119 (  119),  selected  119 , name T0382TS393_5-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS393_5-D1.T0382_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L       4      L       4           -
LGA    D       5      D       5           -
LGA    L       6      L       6           -
LGA    H       7      H       7           -
LGA    Q       8      Q       8           -
LGA    M       9      -       -           -
LGA    T      10      -       -           -
LGA    T      11      -       -           -
LGA    Q      12      -       -           -
LGA    D      13      -       -           -
LGA    L      14      -       -           -
LGA    V      15      -       -           -
LGA    A      16      -       -           -
LGA    L      17      -       -           -
LGA    F      18      -       -           -
LGA    A      19      -       -           -
LGA    K      20      -       -           -
LGA    V      21      -       -           -
LGA    T      22      -       -           -
LGA    V      23      -       -           -
LGA    E      24      -       -           -
LGA    Q      25      -       -           -
LGA    D      26      -       -           -
LGA    D      27      -       -           -
LGA    A      28      -       -           -
LGA    L      29      -       -           -
LGA    L      30      -       -           -
LGA    G      31      -       -           -
LGA    N      32      -       -           -
LGA    Q      33      -       -           -
LGA    I      34      -       -           -
LGA    S      35      -       -           -
LGA    R      36      -       -           -
LGA    F      37      -       -           -
LGA    N      38      -       -           -
LGA    R      39      -       -           -
LGA    L      40      -       -           -
LGA    F      41      -       -           -
LGA    G      42      -       -           -
LGA    V      43      -       -           -
LGA    M      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      -       -           -
LGA    I      47      M       9           #
LGA    A      48      T      10          4.423
LGA    D      49      T      11          4.595
LGA    E      50      Q      12          3.584
LGA    -       -      D      13           -
LGA    -       -      L      14           -
LGA    L      51      V      15           #
LGA    K      52      A      16           -
LGA    A      53      -       -           -
LGA    R      54      -       -           -
LGA    D      55      -       -           -
LGA    G      56      L      17           #
LGA    D      57      F      18          3.724
LGA    -       -      A      19           -
LGA    -       -      K      20           -
LGA    Q      58      V      21          0.995
LGA    R      59      T      22          1.520
LGA    T      60      V      23          2.073
LGA    A      61      E      24          1.241
LGA    L      62      Q      25          0.677
LGA    L      63      D      26          1.633
LGA    S      64      D      27          0.630
LGA    L      65      A      28          1.258
LGA    F      66      L      29          2.632
LGA    E      67      L      30          2.322
LGA    Y      68      -       -           -
LGA    P      69      G      31           #
LGA    N      70      N      32          2.226
LGA    M      71      -       -           -
LGA    Q      72      -       -           -
LGA    V      73      -       -           -
LGA    R      74      Q      33          1.181
LGA    L      75      I      34          0.061
LGA    Q      76      S      35          0.744
LGA    A      77      R      36          0.365
LGA    A      78      F      37          0.354
LGA    K      79      N      38          0.784
LGA    L      80      R      39          0.692
LGA    T      81      L      40          0.540
LGA    L      82      F      41          0.957
LGA    A      83      G      42          1.127
LGA    V      84      V      43          0.778
LGA    A      85      M      44          0.731
LGA    P      86      A      45          1.086
LGA    V      87      E      46          1.019
LGA    K      88      I      47          0.503
LGA    A      89      A      48          0.757
LGA    R      90      D      49          1.012
LGA    E      91      E      50          0.769
LGA    Q      92      L      51          0.689
LGA    L      93      K      52          0.865
LGA    E      94      A      53          0.854
LGA    A      95      R      54          0.841
LGA    I      96      D      55          3.671
LGA    V      97      -       -           -
LGA    S      98      -       -           -
LGA    S      99      G      56          3.882
LGA    K     100      D      57           #
LGA    W     101      Q      58           #
LGA    -       -      R      59           -
LGA    F     102      T      60          3.782
LGA    P     103      A      61           #
LGA    Q     104      L      62           -
LGA    A     105      L      63          5.214
LGA    G     106      -       -           -
LGA    D     107      S      64           #
LGA    A     108      L      65          4.640
LGA    G     109      F      66           #
LGA    -       -      E      67           -
LGA    -       -      Y      68           -
LGA    -       -      P      69           -
LGA    -       -      N      70           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    -       -      V      73           -
LGA    -       -      R      74           -
LGA    -       -      L      75           -
LGA    M     110      Q      76          3.678
LGA    C     111      A      77          3.577
LGA    L     112      A      78          4.153
LGA    -       -      K      79           -
LGA    -       -      L      80           -
LGA    -       -      T      81           -
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    -       -      A      85           -
LGA    -       -      P      86           -
LGA    -       -      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    -       -      Q      92           -
LGA    -       -      L      93           -
LGA    -       -      E      94           -
LGA    -       -      A      95           -
LGA    -       -      I      96           -
LGA    -       -      V      97           -
LGA    -       -      S      98           -
LGA    -       -      S      99           -
LGA    -       -      K     100           -
LGA    -       -      W     101           -
LGA    -       -      F     102           -
LGA    -       -      P     103           -
LGA    D     113      Q     104           #
LGA    L     114      A     105           -
LGA    L     115      G     106           -
LGA    D     116      D     107           #
LGA    D     117      A     108           #
LGA    G     118      G     109          4.999
LGA    -       -      M     110           -
LGA    -       -      C     111           -
LGA    -       -      L     112           -
LGA    T     119      D     113          4.172
LGA    F     120      L     114           #
LGA    K     121      L     115           -
LGA    P     122      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    -       -      P     122           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  119  119    5.0     47    2.49    10.64     31.673     1.817

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.271334 * X  +   0.895438 * Y  +   0.352944 * Z  +  -9.817686
  Y_new =  -0.155126 * X  +  -0.321221 * Y  +   0.934212 * Z  +  36.074890
  Z_new =   0.949902 * X  +  -0.308234 * Y  +   0.051748 * Z  +   2.503377 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.404463    1.737129  [ DEG:   -80.4698     99.5302 ]
  Theta =  -1.252922   -1.888671  [ DEG:   -71.7871   -108.2129 ]
  Phi   =  -0.519363    2.622229  [ DEG:   -29.7573    150.2427 ]
 
# 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: T0382TS393_5-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS393_5-D1.T0382_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  119  119   5.0   47   2.49   10.64  31.673
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS393_5-D1
PFRMAT TS
TARGET T0382
MODEL 5
PARENT N/A
ATOM      4  CA  LEU     4       4.525  25.268  -8.131  1.00 25.00           C
ATOM      5  CA  ASP     5       1.418  27.181  -7.007  1.00 25.00           C
ATOM      6  CA  LEU     6      -0.775  24.071  -6.574  1.00 25.00           C
ATOM      7  CA  HIS     7       1.898  22.466  -4.350  1.00 25.00           C
ATOM      8  CA  GLN     8       2.090  25.654  -2.238  1.00 25.00           C
ATOM      9  CA  MET     9      -1.723  25.673  -1.875  1.00 25.00           C
ATOM     10  CA  THR    10      -1.663  21.999  -0.795  1.00 25.00           C
ATOM     11  CA  THR    11       1.056  22.777   1.787  1.00 25.00           C
ATOM     12  CA  GLN    12      -1.021  25.702   3.129  1.00 25.00           C
ATOM     13  CA  ASP    13      -4.092  23.430   3.400  1.00 25.00           C
ATOM     14  CA  LEU    14      -2.020  20.815   5.283  1.00 25.00           C
ATOM     15  CA  VAL    15      -0.742  23.517   7.678  1.00 25.00           C
ATOM     16  CA  ALA    16      -4.329  24.713   8.282  1.00 25.00           C
ATOM     17  CA  LEU    17      -5.435  21.117   8.997  1.00 25.00           C
ATOM     18  CA  PHE    18      -2.537  20.690  11.463  1.00 25.00           C
ATOM     19  CA  ALA    19      -3.509  23.956  13.211  1.00 25.00           C
ATOM     20  CA  LYS    20      -7.143  22.770  13.456  1.00 25.00           C
ATOM     21  CA  VAL    21      -5.979  19.437  14.943  1.00 25.00           C
ATOM     22  CA  THR    22      -7.512  17.910  18.068  1.00 25.00           C
ATOM     23  CA  VAL    23      -9.760  16.108  20.480  1.00 25.00           C
ATOM     24  CA  GLU    24     -10.964  14.195  17.388  1.00 25.00           C
ATOM     25  CA  GLN    25     -14.243  16.171  17.413  1.00 25.00           C
ATOM     26  CA  ASP    26     -12.291  19.456  17.666  1.00 25.00           C
ATOM     27  CA  ASP    27     -10.080  18.397  14.724  1.00 25.00           C
ATOM     28  CA  ALA    28     -13.191  17.538  12.662  1.00 25.00           C
ATOM     29  CA  LEU    29     -14.712  20.954  13.490  1.00 25.00           C
ATOM     30  CA  LEU    30     -11.463  22.685  12.435  1.00 25.00           C
ATOM     31  CA  GLY    31     -11.461  20.726   9.144  1.00 25.00           C
ATOM     32  CA  ASN    32     -15.101  21.734   8.512  1.00 25.00           C
ATOM     33  CA  GLN    33     -14.230  25.402   9.193  1.00 25.00           C
ATOM     34  CA  ILE    34     -11.283  25.179   6.758  1.00 25.00           C
ATOM     35  CA  SER    35     -13.568  23.648   4.094  1.00 25.00           C
ATOM     36  CA  ARG    36     -16.113  26.460   4.624  1.00 25.00           C
ATOM     37  CA  PHE    37     -13.334  29.072   4.275  1.00 25.00           C
ATOM     38  CA  ASN    38     -12.145  27.411   1.036  1.00 25.00           C
ATOM     39  CA  ARG    39     -15.727  27.434  -0.319  1.00 25.00           C
ATOM     40  CA  LEU    40     -16.062  31.147   0.561  1.00 25.00           C
ATOM     41  CA  PHE    41     -12.754  31.893  -1.219  1.00 25.00           C
ATOM     42  CA  GLY    42     -13.959  29.980  -4.311  1.00 25.00           C
ATOM     43  CA  VAL    43     -17.239  31.957  -4.287  1.00 25.00           C
ATOM     44  CA  MET    44     -15.286  35.241  -4.034  1.00 25.00           C
ATOM     45  CA  ALA    45     -13.075  34.182  -6.975  1.00 25.00           C
ATOM     46  CA  GLU    46     -16.186  33.324  -9.036  1.00 25.00           C
ATOM     47  CA  ILE    47     -17.707  36.739  -8.209  1.00 25.00           C
ATOM     48  CA  ALA    48     -14.458  38.470  -9.265  1.00 25.00           C
ATOM     49  CA  ASP    49     -14.456  36.512 -12.556  1.00 25.00           C
ATOM     50  CA  GLU    50     -18.096  37.520 -13.186  1.00 25.00           C
ATOM     51  CA  LEU    51     -17.224  41.187 -12.506  1.00 25.00           C
ATOM     52  CA  LYS    52     -14.278  40.963 -14.941  1.00 25.00           C
ATOM     53  CA  ALA    53     -11.242  40.032 -12.915  1.00 25.00           C
ATOM     54  CA  ARG    54      -9.330  37.422 -10.911  1.00 25.00           C
ATOM     55  CA  ASP    55      -7.088  36.250  -8.069  1.00 25.00           C
ATOM     56  CA  GLY    56      -8.874  36.878  -4.825  1.00 25.00           C
ATOM     57  CA  ASP    57     -11.290  36.755  -1.835  1.00 25.00           C
ATOM     58  CA  GLN    58     -11.544  35.624   1.815  1.00 25.00           C
ATOM     59  CA  ARG    59     -14.350  37.500   3.625  1.00 25.00           C
ATOM     60  CA  THR    60     -15.448  34.256   5.338  1.00 25.00           C
ATOM     61  CA  ALA    61     -11.839  33.581   6.429  1.00 25.00           C
ATOM     62  CA  LEU    62     -11.572  37.135   7.832  1.00 25.00           C
ATOM     63  CA  LEU    63     -14.852  36.651   9.749  1.00 25.00           C
ATOM     64  CA  SER    64     -13.558  33.339  11.174  1.00 25.00           C
ATOM     65  CA  LEU    65     -10.305  35.049  12.256  1.00 25.00           C
ATOM     66  CA  PHE    66     -12.307  37.840  13.950  1.00 25.00           C
ATOM     67  CA  GLU    67     -14.442  35.236  15.775  1.00 25.00           C
ATOM     68  CA  TYR    68     -11.571  35.570  18.315  1.00 25.00           C
ATOM     69  CA  PRO    69      -8.294  37.445  18.299  1.00 25.00           C
ATOM     70  CA  ASN    70      -5.239  35.087  18.407  1.00 25.00           C
ATOM     71  CA  MET    71      -3.098  31.922  18.082  1.00 25.00           C
ATOM     72  CA  GLN    72      -0.162  33.367  16.094  1.00 25.00           C
ATOM     73  CA  VAL    73      -0.993  31.067  13.147  1.00 25.00           C
ATOM     74  CA  ARG    74      -4.656  32.177  13.281  1.00 25.00           C
ATOM     75  CA  LEU    75      -3.567  35.849  13.305  1.00 25.00           C
ATOM     76  CA  GLN    76      -1.298  35.220  10.285  1.00 25.00           C
ATOM     77  CA  ALA    77      -4.189  33.524   8.433  1.00 25.00           C
ATOM     78  CA  ALA    78      -6.470  36.498   9.218  1.00 25.00           C
ATOM     79  CA  LYS    79      -3.801  38.918   7.919  1.00 25.00           C
ATOM     80  CA  LEU    80      -3.462  36.861   4.707  1.00 25.00           C
ATOM     81  CA  THR    81      -7.263  36.911   4.244  1.00 25.00           C
ATOM     82  CA  LEU    82      -7.298  40.709   4.739  1.00 25.00           C
ATOM     83  CA  ALA    83      -4.499  41.095   2.153  1.00 25.00           C
ATOM     84  CA  VAL    84      -6.452  38.920  -0.321  1.00 25.00           C
ATOM     85  CA  ALA    85      -9.587  41.046   0.247  1.00 25.00           C
ATOM     86  CA  PRO    86      -7.560  44.240  -0.354  1.00 25.00           C
ATOM     87  CA  VAL    87      -6.144  42.762  -3.590  1.00 25.00           C
ATOM     88  CA  LYS    88      -9.677  41.839  -4.744  1.00 25.00           C
ATOM     89  CA  ALA    89     -10.881  45.394  -3.984  1.00 25.00           C
ATOM     90  CA  ARG    90      -7.945  46.840  -5.973  1.00 25.00           C
ATOM     91  CA  GLU    91      -8.776  44.539  -8.920  1.00 25.00           C
ATOM     92  CA  GLN    92     -12.439  45.649  -8.785  1.00 25.00           C
ATOM     93  CA  LEU    93     -11.350  49.321  -8.762  1.00 25.00           C
ATOM     94  CA  GLU    94      -9.081  48.692 -11.782  1.00 25.00           C
ATOM     95  CA  ALA    95     -11.972  46.996 -13.633  1.00 25.00           C
ATOM     96  CA  ILE    96     -14.253  49.971 -12.848  1.00 25.00           C
ATOM     97  CA  VAL    97     -11.584  52.390 -14.148  1.00 25.00           C
ATOM     98  CA  SER    98     -11.245  50.333 -17.359  1.00 25.00           C
ATOM     99  CA  SER    99     -15.046  50.383 -17.823  1.00 25.00           C
ATOM    100  CA  LYS   100     -17.467  52.764 -16.233  1.00 25.00           C
ATOM    101  CA  TRP   101     -19.761  53.331 -13.197  1.00 25.00           C
ATOM    102  CA  PHE   102     -20.346  51.360  -9.998  1.00 25.00           C
ATOM    103  CA  PRO   103     -23.270  53.075  -8.269  1.00 25.00           C
ATOM    104  CA  GLN   104     -25.945  52.885  -5.654  1.00 25.00           C
ATOM    105  CA  ALA   105     -26.470  50.179  -3.059  1.00 25.00           C
ATOM    106  CA  GLY   106     -27.210  49.730   0.673  1.00 25.00           C
ATOM    107  CA  ASP   107     -25.504  47.580   3.332  1.00 25.00           C
ATOM    108  CA  ALA   108     -22.091  45.935   4.082  1.00 25.00           C
ATOM    109  CA  GLY   109     -18.493  44.742   3.676  1.00 25.00           C
ATOM    110  CA  MET   110     -15.299  42.699   3.139  1.00 25.00           C
ATOM    111  CA  CYS   111     -13.498  45.814   1.829  1.00 25.00           C
ATOM    112  CA  LEU   112     -14.660  47.804   4.888  1.00 25.00           C
ATOM    113  CA  ASP   113     -13.400  45.026   7.204  1.00 25.00           C
ATOM    114  CA  LEU   114     -10.018  45.029   5.409  1.00 25.00           C
ATOM    115  CA  LEU   115      -9.794  48.834   5.785  1.00 25.00           C
ATOM    116  CA  ASP   116     -10.504  52.441   6.771  1.00 25.00           C
ATOM    117  CA  ASP   117     -10.927  55.853   8.346  1.00 25.00           C
ATOM    118  CA  GLY   118     -11.738  57.141  11.849  1.00 25.00           C
ATOM    119  CA  THR   119     -11.022  57.506  15.552  1.00 25.00           C
ATOM    120  CA  PHE   120      -7.424  56.225  15.441  1.00 25.00           C
ATOM    121  CA  LYS   121      -5.044  57.717  12.806  1.00 25.00           C
ATOM    122  CA  PRO   122      -1.464  56.428  13.321  1.00 25.00           C
TER
END
