
#######################################################
#                                                     #
#                        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   36 (  178),  selected   36 , name T0335TS239_5-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS239_5-D1.T0335_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       5      A       5          1.382
LGA    K       6      K       6          0.995
LGA    I       7      I       7          0.404
LGA    A       8      A       8          0.284
LGA    R       9      R       9          0.390
LGA    I      10      I      10          0.711
LGA    N      11      N      11          0.591
LGA    E      12      E      12          0.468
LGA    L      13      L      13          0.798
LGA    A      14      A      14          0.528
LGA    A      15      A      15          0.793
LGA    K      16      K      16          0.872
LGA    A      17      A      17          1.182
LGA    K      18      K      18          2.066
LGA    -       -      A      19           -
LGA    -       -      G      20           -
LGA    -       -      V      21           -
LGA    -       -      I      22           -
LGA    -       -      T      23           -
LGA    -       -      E      24           -
LGA    -       -      E      25           -
LGA    -       -      E      26           -
LGA    A      19      K      27          5.207
LGA    G      20      A      28           -
LGA    -       -      E      29           -
LGA    -       -      Q      30           -
LGA    -       -      Q      31           -
LGA    -       -      K      32           -
LGA    -       -      L      33           -
LGA    -       -      R      34           -
LGA    -       -      Q      35           -
LGA    -       -      E      36           -
LGA    -       -      Y      37           -
LGA    -       -      L      38           -
LGA    V      21      K      39          2.529
LGA    I      22      G      40          1.837
LGA    T      23      -       -           -
LGA    E      24      -       -           -
LGA    E      25      -       -           -
LGA    E      26      -       -           -
LGA    K      27      -       -           -
LGA    A      28      -       -           -
LGA    E      29      -       -           -
LGA    Q      30      -       -           -
LGA    Q      31      -       -           -
LGA    K      32      -       -           -
LGA    L      33      -       -           -
LGA    R      34      -       -           -
LGA    Q      35      -       -           -
LGA    E      36      -       -           -
LGA    Y      37      -       -           -
LGA    L      38      -       -           -
LGA    K      39      -       -           -
LGA    G      40      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     17    1.70    82.35     45.236     0.944

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.987640 * X  +  -0.146788 * Y  +   0.054956 * Z  +  28.372606
  Y_new =  -0.145110 * X  +  -0.988852 * Y  +  -0.033395 * Z  +  -0.426558
  Z_new =   0.059245 * X  +   0.025008 * Y  +  -0.997930 * Z  +  37.562321 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.116538   -0.025054  [ DEG:   178.5645     -1.4355 ]
  Theta =  -0.059280   -3.082313  [ DEG:    -3.3965   -176.6035 ]
  Phi   =  -0.145882    2.995711  [ DEG:    -8.3584    171.6416 ]
 
# 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: T0335TS239_5-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS239_5-D1.T0335_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   36   5.0   17   1.70   82.35  45.236
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS239_5-D1
PFRMAT TS
TARGET T0335
MODEL 5
PARENT 1wy5_A
ATOM     21  N   ALA     5      -1.660 -10.681  -7.866  1.00  9.99
ATOM     22  CA  ALA     5      -1.737 -10.944  -6.434  1.00  9.99
ATOM     23  C   ALA     5      -1.073  -9.863  -5.594  1.00  9.99
ATOM     24  O   ALA     5      -1.541  -9.531  -4.506  1.00  9.99
ATOM     25  CB  ALA     5      -1.107 -12.301  -6.122  1.00  9.99
ATOM     26  N   LYS     6       0.018  -9.314  -6.100  1.00  9.99
ATOM     27  CA  LYS     6       0.748  -8.275  -5.389  1.00  9.99
ATOM     28  C   LYS     6      -0.109  -7.015  -5.235  1.00  9.99
ATOM     29  O   LYS     6      -0.196  -6.437  -4.149  1.00  9.99
ATOM     30  CB  LYS     6       2.039  -7.951  -6.140  1.00  9.99
ATOM     31  N   ILE     7      -0.754  -6.584  -6.312  1.00  9.99
ATOM     32  CA  ILE     7      -1.572  -5.392  -6.204  1.00  9.99
ATOM     33  C   ILE     7      -2.880  -5.638  -5.471  1.00  9.99
ATOM     34  O   ILE     7      -3.413  -4.736  -4.827  1.00  9.99
ATOM     35  CB  ILE     7      -1.784  -4.766  -7.580  1.00  9.99
ATOM     36  N   ALA     8      -3.391  -6.860  -5.546  1.00  9.99
ATOM     37  CA  ALA     8      -4.607  -7.183  -4.819  1.00  9.99
ATOM     38  C   ALA     8      -4.259  -6.930  -3.351  1.00  9.99
ATOM     39  O   ALA     8      -4.981  -6.234  -2.633  1.00  9.99
ATOM     40  CB  ALA     8      -4.980  -8.652  -5.047  1.00  9.99
ATOM     41  N   ARG     9      -3.120  -7.480  -2.930  1.00  9.99
ATOM     42  CA  ARG     9      -2.638  -7.327  -1.562  1.00  9.99
ATOM     43  C   ARG     9      -2.420  -5.851  -1.214  1.00  9.99
ATOM     44  O   ARG     9      -2.886  -5.376  -0.167  1.00  9.99
ATOM     45  CB  ARG     9      -1.336  -8.111  -1.382  1.00  9.99
ATOM     46  N   ILE    10      -1.717  -5.130  -2.088  1.00  9.99
ATOM     47  CA  ILE    10      -1.439  -3.714  -1.858  1.00  9.99
ATOM     48  C   ILE    10      -2.731  -2.927  -1.705  1.00  9.99
ATOM     49  O   ILE    10      -2.844  -2.082  -0.818  1.00  9.99
ATOM     50  CB  ILE    10      -0.609  -3.124  -3.003  1.00  9.99
ATOM     51  N   ASN    11      -3.709  -3.217  -2.560  1.00  9.99
ATOM     52  CA  ASN    11      -4.990  -2.525  -2.508  1.00  9.99
ATOM     53  C   ASN    11      -5.809  -2.865  -1.269  1.00  9.99
ATOM     54  O   ASN    11      -6.529  -2.010  -0.756  1.00  9.99
ATOM     55  CB  ASN    11      -5.789  -2.801  -3.782  1.00  9.99
ATOM     56  N   GLU    12      -5.689  -4.103  -0.785  1.00  9.99
ATOM     57  CA  GLU    12      -6.394  -4.523   0.421  1.00  9.99
ATOM     58  C   GLU    12      -5.851  -3.754   1.616  1.00  9.99
ATOM     59  O   GLU    12      -6.617  -3.285   2.446  1.00  9.99
ATOM     60  CB  GLU    12      -6.213  -6.022   0.665  1.00  9.99
ATOM     61  N   LEU    13      -4.527  -3.637   1.708  1.00  9.99
ATOM     62  CA  LEU    13      -3.901  -2.906   2.810  1.00  9.99
ATOM     63  C   LEU    13      -4.286  -1.427   2.720  1.00  9.99
ATOM     64  O   LEU    13      -4.458  -0.754   3.731  1.00  9.99
ATOM     65  CB  LEU    13      -2.350  -3.024   2.767  1.00  9.99
ATOM     66  N   ALA    14      -4.438  -0.935   1.499  1.00  9.99
ATOM     67  CA  ALA    14      -4.793   0.458   1.283  1.00  9.99
ATOM     68  C   ALA    14      -6.163   0.789   1.864  1.00  9.99
ATOM     69  O   ALA    14      -6.367   1.861   2.435  1.00  9.99
ATOM     70  CB  ALA    14      -4.758   0.776  -0.218  1.00  9.99
ATOM     71  N   ALA    15      -7.103  -0.135   1.736  1.00  9.99
ATOM     72  CA  ALA    15      -8.439   0.113   2.242  1.00  9.99
ATOM     73  C   ALA    15      -8.629  -0.222   3.719  1.00  9.99
ATOM     74  O   ALA    15      -9.181   0.581   4.473  1.00  9.99
ATOM     75  CB  ALA    15      -9.453  -0.617   1.357  1.00  9.99
ATOM     76  N   LYS    16      -8.150  -1.381   4.150  1.00  9.99
ATOM     77  CA  LYS    16      -8.305  -1.769   5.546  1.00  9.99
ATOM     78  C   LYS    16      -7.399  -0.985   6.500  1.00  9.99
ATOM     79  O   LYS    16      -7.577  -1.037   7.720  1.00  9.99
ATOM     80  CB  LYS    16      -8.040  -3.269   5.709  1.00  9.99
ATOM     81  N   ALA    17      -6.428  -0.261   5.950  1.00  9.99
ATOM     82  CA  ALA    17      -5.510   0.509   6.779  1.00  9.99
ATOM     83  C   ALA    17      -5.558   2.012   6.535  1.00  9.99
ATOM     84  O   ALA    17      -4.778   2.765   7.111  1.00  9.99
ATOM     85  CB  ALA    17      -4.081  -0.008   6.601  1.00  9.99
ATOM     86  N   LYS    18      -6.470   2.445   5.676  1.00  9.99
ATOM     87  CA  LYS    18      -6.625   3.860   5.404  1.00  9.99
ATOM     88  C   LYS    18      -5.508   4.616   4.709  1.00  9.99
ATOM     89  O   LYS    18      -5.091   5.675   5.182  1.00  9.99
ATOM     90  CB  LYS    18      -6.929   4.536   6.752  1.00  9.99
ATOM     91  N   ALA    19      -5.013   4.095   3.592  1.00  9.99
ATOM     92  CA  ALA    19      -3.970   4.799   2.862  1.00  9.99
ATOM     93  C   ALA    19      -4.590   5.515   1.668  1.00  9.99
ATOM     94  O   ALA    19      -5.614   5.085   1.146  1.00  9.99
ATOM     95  CB  ALA    19      -2.851   3.844   2.437  1.00  9.99
ATOM     96  N   GLY    20      -3.976   6.617   1.256  1.00  9.99
ATOM     97  CA  GLY    20      -4.494   7.420   0.157  1.00  9.99
ATOM     98  C   GLY    20      -3.980   7.026  -1.223  1.00  9.99
ATOM     99  O   GLY    20      -4.585   7.380  -2.235  1.00  9.99
ATOM    100  N   VAL    21       8.132   1.932  -7.475  1.00  9.99
ATOM    101  CA  VAL    21       9.484   2.331  -7.883  1.00  9.99
ATOM    102  C   VAL    21       9.695   2.277  -9.401  1.00  9.99
ATOM    103  O   VAL    21      10.843   2.293  -9.879  1.00  9.99
ATOM    104  CB  VAL    21      10.529   1.466  -7.173  1.00  9.99
ATOM    105  N   ILE    22       8.597   2.212 -10.157  1.00  9.99
ATOM    106  CA  ILE    22       8.692   2.169 -11.612  1.00  9.99
ATOM    107  C   ILE    22       9.461   3.362 -12.149  1.00  9.99
ATOM    108  O   ILE    22       9.191   4.501 -11.776  1.00  9.99
ATOM    109  CB  ILE    22       7.306   2.096 -12.242  1.00  9.99
ATOM    110  N   THR    23      10.422   3.093 -13.028  1.00  9.99
ATOM    111  CA  THR    23      11.260   4.149 -13.574  1.00  9.99
ATOM    112  C   THR    23      11.353   4.220 -15.097  1.00  9.99
ATOM    113  O   THR    23      10.701   3.460 -15.815  1.00  9.99
ATOM    114  CB  THR    23      12.661   4.029 -12.982  1.00  9.99
ATOM    115  N   GLU    24      12.183   5.142 -15.578  1.00  9.99
ATOM    116  CA  GLU    24      12.364   5.353 -17.002  1.00  9.99
ATOM    117  C   GLU    24      12.753   4.094 -17.776  1.00  9.99
ATOM    118  O   GLU    24      12.276   3.887 -18.885  1.00  9.99
ATOM    119  CB  GLU    24      13.395   6.458 -17.246  1.00  9.99
ATOM    120  N   GLU    25      13.607   3.246 -17.216  1.00  9.99
ATOM    121  CA  GLU    25      13.954   2.041 -17.948  1.00  9.99
ATOM    122  C   GLU    25      12.774   1.074 -18.031  1.00  9.99
ATOM    123  O   GLU    25      12.659   0.321 -18.994  1.00  9.99
ATOM    124  CB  GLU    25      15.185   1.361 -17.344  1.00  9.99
ATOM    125  N   GLU    26      11.890   1.094 -17.037  1.00  9.99
ATOM    126  CA  GLU    26      10.708   0.229 -17.065  1.00  9.99
ATOM    127  C   GLU    26       9.770   0.753 -18.150  1.00  9.99
ATOM    128  O   GLU    26       9.077  -0.004 -18.821  1.00  9.99
ATOM    129  CB  GLU    26       9.964   0.256 -15.725  1.00  9.99
ATOM    130  N   LYS    27       9.756   2.069 -18.308  1.00  9.99
ATOM    131  CA  LYS    27       8.912   2.702 -19.304  1.00  9.99
ATOM    132  C   LYS    27       9.401   2.346 -20.711  1.00  9.99
ATOM    133  O   LYS    27       8.604   2.002 -21.583  1.00  9.99
ATOM    134  CB  LYS    27       8.928   4.217 -19.098  1.00  9.99
ATOM    135  N   ALA    28      10.717   2.418 -20.916  1.00  9.99
ATOM    136  CA  ALA    28      11.339   2.112 -22.201  1.00  9.99
ATOM    137  C   ALA    28      11.030   0.662 -22.603  1.00  9.99
ATOM    138  O   ALA    28      10.664   0.394 -23.747  1.00  9.99
ATOM    139  CB  ALA    28      12.852   2.333 -22.089  1.00  9.99
ATOM    140  N   GLU    29      11.164  -0.260 -21.649  1.00  9.99
ATOM    141  CA  GLU    29      10.890  -1.675 -21.887  1.00  9.99
ATOM    142  C   GLU    29       9.416  -1.864 -22.245  1.00  9.99
ATOM    143  O   GLU    29       9.080  -2.601 -23.174  1.00  9.99
ATOM    144  CB  GLU    29      11.236  -2.501 -20.642  1.00  9.99
ATOM    145  N   GLN    30       8.544  -1.187 -21.504  1.00  9.99
ATOM    146  CA  GLN    30       7.111  -1.264 -21.743  1.00  9.99
ATOM    147  C   GLN    30       6.734  -0.687 -23.111  1.00  9.99
ATOM    148  O   GLN    30       5.859  -1.210 -23.801  1.00  9.99
ATOM    149  CB  GLN    30       6.324  -0.492 -20.657  1.00  9.99
ATOM    150  N   GLN    31       7.390   0.399 -23.495  1.00  9.99
ATOM    151  CA  GLN    31       7.110   1.032 -24.773  1.00  9.99
ATOM    152  C   GLN    31       7.509   0.100 -25.913  1.00  9.99
ATOM    153  O   GLN    31       6.759  -0.076 -26.872  1.00  9.99
ATOM    154  CB  GLN    31       7.873   2.351 -24.875  1.00  9.99
ATOM    155  N   LYS    32       8.694  -0.494 -25.797  1.00  9.99
ATOM    156  CA  LYS    32       9.200  -1.413 -26.807  1.00  9.99
ATOM    157  C   LYS    32       8.356  -2.687 -26.901  1.00  9.99
ATOM    158  O   LYS    32       8.247  -3.275 -27.971  1.00  9.99
ATOM    159  CB  LYS    32      10.672  -1.767 -26.521  1.00  9.99
ATOM    160  N   LEU    33       7.769  -3.122 -25.789  1.00  9.99
ATOM    161  CA  LEU    33       6.917  -4.313 -25.814  1.00  9.99
ATOM    162  C   LEU    33       5.593  -4.057 -26.555  1.00  9.99
ATOM    163  O   LEU    33       4.999  -4.991 -27.081  1.00  9.99
ATOM    164  CB  LEU    33       6.625  -4.816 -24.395  1.00  9.99
ATOM    165  N   ARG    34       5.131  -2.804 -26.597  1.00  9.99
ATOM    166  CA  ARG    34       3.887  -2.478 -27.310  1.00  9.99
ATOM    167  C   ARG    34       4.169  -2.280 -28.798  1.00  9.99
ATOM    168  O   ARG    34       3.332  -2.571 -29.655  1.00  9.99
ATOM    169  CB  ARG    34       3.237  -1.205 -26.755  1.00  9.99
ATOM    170  N   GLN    35       5.358  -1.773 -29.100  1.00  9.99
ATOM    171  CA  GLN    35       5.764  -1.560 -30.478  1.00  9.99
ATOM    172  C   GLN    35       5.812  -2.952 -31.123  1.00  9.99
ATOM    173  O   GLN    35       5.348  -3.157 -32.243  1.00  9.99
ATOM    174  CB  GLN    35       7.148  -0.922 -30.486  1.00  9.99
ATOM    175  N   GLU    36       6.358  -3.904 -30.376  1.00  9.99
ATOM    176  CA  GLU    36       6.514  -5.279 -30.813  1.00  9.99
ATOM    177  C   GLU    36       5.229  -6.080 -30.967  1.00  9.99
ATOM    178  O   GLU    36       5.053  -6.794 -31.951  1.00  9.99
ATOM    179  CB  GLU    36       7.422  -6.051 -29.834  1.00  9.99
ATOM    180  N   TYR    37       4.337  -5.965 -29.992  1.00  9.99
ATOM    181  CA  TYR    37       3.097  -6.728 -30.000  1.00  9.99
ATOM    182  C   TYR    37       1.882  -6.089 -30.633  1.00  9.99
ATOM    183  O   TYR    37       0.878  -6.765 -30.867  1.00  9.99
ATOM    184  CB  TYR    37       2.744  -7.125 -28.579  1.00  9.99
ATOM    185  N   LEU    38       1.956  -4.795 -30.908  1.00  9.99
ATOM    186  CA  LEU    38       0.820  -4.123 -31.511  1.00  9.99
ATOM    187  C   LEU    38       0.384  -3.006 -30.606  1.00  9.99
ATOM    188  O   LEU    38       0.140  -3.230 -29.426  1.00  9.99
ATOM    189  CB  LEU    38      -0.318  -5.127 -31.761  1.00  9.99
ATOM    190  N   LYS    39       0.279  -1.800 -31.152  1.00  9.99
ATOM    191  CA  LYS    39      -0.092  -0.665 -30.333  1.00  9.99
ATOM    192  C   LYS    39      -0.383   0.591 -31.143  1.00  9.99
ATOM    193  O   LYS    39      -0.223   0.628 -32.364  1.00  9.99
ATOM    194  CB  LYS    39       1.050  -0.332 -29.337  1.00  9.99
ATOM    195  N   GLY    40      -0.821   1.613 -30.419  1.00  9.99
ATOM    196  CA  GLY    40      -1.102   2.913 -30.990  1.00  9.99
ATOM    197  C   GLY    40      -0.355   3.859 -30.068  1.00  9.99
ATOM    198  O   GLY    40       0.536   3.428 -29.331  1.00  9.99
TER
END
