
#######################################################
#                                                     #
#                        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   46 (  184),  selected   46 , name T0363TS035_3-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS035_3-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      11      N      11          4.267
LGA    Q      12      Q      12          3.786
LGA    I      13      I      13          2.871
LGA    N      14      N      14          1.693
LGA    I      15      I      15          1.852
LGA    E      16      E      16          1.717
LGA    I      17      I      17          3.328
LGA    A      18      A      18          3.455
LGA    Y      19      Y      19          2.965
LGA    A      20      A      20          2.506
LGA    F      21      F      21          1.533
LGA    P      22      P      22          2.643
LGA    E      23      E      23          1.899
LGA    R      24      R      24          2.124
LGA    Y      25      Y      25          2.420
LGA    Y      26      Y      26          2.591
LGA    L      27      L      27          1.561
LGA    K      28      K      28          2.432
LGA    S      29      S      29          2.642
LGA    F      30      F      30          3.480
LGA    Q      31      Q      31          3.172
LGA    V      32      V      32          2.504
LGA    D      33      D      33          1.464
LGA    E      34      E      34          4.100
LGA    G      35      G      35          4.847
LGA    I      36      I      36          3.702
LGA    T      37      T      37          3.211
LGA    V      38      V      38          3.865
LGA    Q      39      Q      39          2.145
LGA    T      40      T      40          1.882
LGA    A      41      A      41          3.207
LGA    I      42      I      42          2.751
LGA    T      43      T      43          0.954
LGA    Q      44      Q      44          2.039
LGA    S      45      S      45          2.595
LGA    G      46      G      46          1.933
LGA    I      47      I      47          2.532
LGA    L      48      L      48          3.850
LGA    S      49      S      49          4.465
LGA    Q      50      Q      50          3.966
LGA    F      51      F      51           #
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    P      52      I      54          2.696
LGA    -       -      D      55           -
LGA    E      53      L      56           #
LGA    I      54      -       -           -
LGA    D      55      -       -           -
LGA    L      56      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     41    2.92    97.56     61.546     1.359

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.473597 * X  +  -0.293745 * Y  +  -0.830313 * Z  +  23.986023
  Y_new =  -0.868148 * X  +   0.003158 * Y  +  -0.496295 * Z  +  13.326786
  Z_new =   0.148406 * X  +   0.955879 * Y  +  -0.253518 * Z  +   3.029751 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.830048   -1.311545  [ DEG:   104.8540    -75.1460 ]
  Theta =  -0.148957   -2.992636  [ DEG:    -8.5346   -171.4654 ]
  Phi   =  -1.071395    2.070198  [ DEG:   -61.3864    118.6136 ]
 
# 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: T0363TS035_3-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS035_3-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   46   46   5.0   41   2.92   97.56  61.546
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS035_3-D1
PFRMAT TS
TARGET T0363
MODEL  3  REFINED
PARENT N/A
ATOM     41  N   ASN    11      14.098   3.916  14.115  1.00  0.00
ATOM     42  CA  ASN    11      15.096   2.905  13.827  1.00  0.00
ATOM     43  C   ASN    11      16.047   3.353  12.729  1.00  0.00
ATOM     44  O   ASN    11      17.121   2.783  12.547  1.00  0.00
ATOM     45  N   GLN    12      15.673   4.383  11.976  1.00  0.00
ATOM     46  CA  GLN    12      16.546   4.868  10.924  1.00  0.00
ATOM     47  C   GLN    12      16.423   6.372  10.742  1.00  0.00
ATOM     48  O   GLN    12      15.497   7.000  11.254  1.00  0.00
ATOM     49  N   ILE    13      17.352   6.980  10.012  1.00  0.00
ATOM     50  CA  ILE    13      17.293   8.415   9.813  1.00  0.00
ATOM     51  C   ILE    13      17.995   8.831   8.530  1.00  0.00
ATOM     52  O   ILE    13      19.113   8.401   8.249  1.00  0.00
ATOM     53  N   ASN    14      17.357   9.677   7.726  1.00  0.00
ATOM     54  CA  ASN    14      17.985  10.125   6.499  1.00  0.00
ATOM     55  C   ASN    14      18.343  11.602   6.560  1.00  0.00
ATOM     56  O   ASN    14      17.476  12.459   6.722  1.00  0.00
ATOM     57  N   ILE    15      19.626  11.928   6.432  1.00  0.00
ATOM     58  CA  ILE    15      20.027  13.320   6.482  1.00  0.00
ATOM     59  C   ILE    15      20.634  13.774   5.164  1.00  0.00
ATOM     60  O   ILE    15      21.577  13.170   4.658  1.00  0.00
ATOM     61  N   GLU    16      20.106  14.848   4.583  1.00  0.00
ATOM     62  CA  GLU    16      20.669  15.353   3.346  1.00  0.00
ATOM     63  C   GLU    16      21.116  16.800   3.485  1.00  0.00
ATOM     64  O   GLU    16      20.307  17.694   3.726  1.00  0.00
ATOM     65  N   ILE    17      22.412  17.059   3.337  1.00  0.00
ATOM     66  CA  ILE    17      22.896  18.422   3.444  1.00  0.00
ATOM     67  C   ILE    17      23.161  19.031   2.077  1.00  0.00
ATOM     68  O   ILE    17      23.592  18.347   1.149  1.00  0.00
ATOM     69  N   ALA    18      22.908  20.327   1.923  1.00  0.00
ATOM     70  CA  ALA    18      23.205  20.979   0.662  1.00  0.00
ATOM     71  C   ALA    18      24.375  21.940   0.791  1.00  0.00
ATOM     72  O   ALA    18      24.334  22.890   1.571  1.00  0.00
ATOM     73  N   TYR    19      25.442  21.715   0.029  1.00  0.00
ATOM     74  CA  TYR    19      26.611  22.564   0.150  1.00  0.00
ATOM     75  C   TYR    19      26.964  23.223  -1.174  1.00  0.00
ATOM     76  O   TYR    19      26.848  22.615  -2.237  1.00  0.00
ATOM     77  N   ALA    20      27.399  24.479  -1.138  1.00  0.00
ATOM     78  CA  ALA    20      27.791  25.146  -2.364  1.00  0.00
ATOM     79  C   ALA    20      29.300  25.127  -2.553  1.00  0.00
ATOM     80  O   ALA    20      30.059  25.433  -1.635  1.00  0.00
ATOM     81  N   PHE    21      29.764  24.766  -3.746  1.00  0.00
ATOM     82  CA  PHE    21      31.195  24.692  -3.975  1.00  0.00
ATOM     83  C   PHE    21      31.613  25.523  -5.177  1.00  0.00
ATOM     84  O   PHE    21      31.537  25.072  -6.319  1.00  0.00
ATOM     85  N   PRO    22      32.063  26.753  -4.946  1.00  0.00
ATOM     86  CA  PRO    22      32.431  27.610  -6.056  1.00  0.00
ATOM     87  C   PRO    22      31.222  27.985  -6.897  1.00  0.00
ATOM     88  O   PRO    22      30.207  28.448  -6.381  1.00  0.00
ATOM     89  N   GLU    23      31.305  27.791  -8.211  1.00  0.00
ATOM     90  CA  GLU    23      30.198  28.164  -9.070  1.00  0.00
ATOM     91  C   GLU    23      29.212  27.020  -9.243  1.00  0.00
ATOM     92  O   GLU    23      28.335  27.061 -10.103  1.00  0.00
ATOM     93  N   ARG    24      29.336  25.976  -8.428  1.00  0.00
ATOM     94  CA  ARG    24      28.432  24.848  -8.554  1.00  0.00
ATOM     95  C   ARG    24      27.845  24.450  -7.208  1.00  0.00
ATOM     96  O   ARG    24      28.415  24.736  -6.157  1.00  0.00
ATOM     97  N   TYR    25      26.695  23.781  -7.214  1.00  0.00
ATOM     98  CA  TYR    25      26.142  23.280  -5.972  1.00  0.00
ATOM     99  C   TYR    25      26.206  21.763  -5.901  1.00  0.00
ATOM    100  O   TYR    25      25.753  21.066  -6.807  1.00  0.00
ATOM    101  N   TYR    26      26.771  21.222  -4.825  1.00  0.00
ATOM    102  CA  TYR    26      26.868  19.781  -4.706  1.00  0.00
ATOM    103  C   TYR    26      26.050  19.258  -3.536  1.00  0.00
ATOM    104  O   TYR    26      26.110  19.793  -2.430  1.00  0.00
ATOM    105  N   LEU    27      25.270  18.204  -3.754  1.00  0.00
ATOM    106  CA  LEU    27      24.446  17.678  -2.683  1.00  0.00
ATOM    107  C   LEU    27      24.959  16.336  -2.188  1.00  0.00
ATOM    108  O   LEU    27      25.190  15.417  -2.972  1.00  0.00
ATOM    109  N   LYS    28      25.148  16.195  -0.880  1.00  0.00
ATOM    110  CA  LYS    28      25.636  14.937  -0.349  1.00  0.00
ATOM    111  C   LYS    28      24.504  14.083   0.196  1.00  0.00
ATOM    112  O   LYS    28      23.569  14.587   0.816  1.00  0.00
ATOM    113  N   SER    29      24.563  12.772  -0.023  1.00  0.00
ATOM    114  CA  SER    29      23.525  11.903   0.496  1.00  0.00
ATOM    115  C   SER    29      23.962  11.213   1.778  1.00  0.00
ATOM    116  O   SER    29      24.936  10.462   1.794  1.00  0.00
ATOM    117  N   PHE    30      23.253  11.452   2.877  1.00  0.00
ATOM    118  CA  PHE    30      23.638  10.845   4.135  1.00  0.00
ATOM    119  C   PHE    30      22.654   9.769   4.563  1.00  0.00
ATOM    120  O   PHE    30      21.465  10.031   4.744  1.00  0.00
ATOM    121  N   GLN    31      23.125   8.538   4.735  1.00  0.00
ATOM    122  CA  GLN    31      22.237   7.475   5.165  1.00  0.00
ATOM    123  C   GLN    31      22.691   6.865   6.481  1.00  0.00
ATOM    124  O   GLN    31      23.820   6.393   6.608  1.00  0.00
ATOM    125  N   VAL    32      21.823   6.862   7.489  1.00  0.00
ATOM    126  CA  VAL    32      22.180   6.249   8.753  1.00  0.00
ATOM    127  C   VAL    32      22.033   4.737   8.704  1.00  0.00
ATOM    128  O   VAL    32      21.044   4.211   8.196  1.00  0.00
ATOM    129  N   ASP    33      23.013   4.007   9.229  1.00  0.00
ATOM    130  CA  ASP    33      22.915   2.560   9.235  1.00  0.00
ATOM    131  C   ASP    33      22.613   2.026  10.625  1.00  0.00
ATOM    132  O   ASP    33      22.935   2.656  11.632  1.00  0.00
ATOM    133  N   GLU    34      21.990   0.854  10.712  1.00  0.00
ATOM    134  CA  GLU    34      21.683   0.290  12.012  1.00  0.00
ATOM    135  C   GLU    34      22.946  -0.063  12.781  1.00  0.00
ATOM    136  O   GLU    34      23.865  -0.681  12.244  1.00  0.00
ATOM    137  N   GLY    35      23.019   0.320  14.052  1.00  0.00
ATOM    138  CA  GLY    35      24.196   0.006  14.837  1.00  0.00
ATOM    139  C   GLY    35      25.412   0.779  14.355  1.00  0.00
ATOM    140  O   GLY    35      26.542   0.499  14.756  1.00  0.00
ATOM    141  N   ILE    36      25.210   1.765  13.486  1.00  0.00
ATOM    142  CA  ILE    36      26.333   2.533  12.986  1.00  0.00
ATOM    143  C   ILE    36      26.153   4.020  13.241  1.00  0.00
ATOM    144  O   ILE    36      25.096   4.588  12.968  1.00  0.00
ATOM    145  N   THR    37      27.177   4.681  13.770  1.00  0.00
ATOM    146  CA  THR    37      27.049   6.092  14.080  1.00  0.00
ATOM    147  C   THR    37      27.056   6.944  12.821  1.00  0.00
ATOM    148  O   THR    37      27.648   6.575  11.808  1.00  0.00
ATOM    149  N   VAL    38      26.400   8.100  12.858  1.00  0.00
ATOM    150  CA  VAL    38      26.431   8.988  11.712  1.00  0.00
ATOM    151  C   VAL    38      27.856   9.337  11.313  1.00  0.00
ATOM    152  O   VAL    38      28.189   9.390  10.130  1.00  0.00
ATOM    153  N   GLN    39      28.725   9.582  12.289  1.00  0.00
ATOM    154  CA  GLN    39      30.093   9.939  11.970  1.00  0.00
ATOM    155  C   GLN    39      30.799   8.827  11.209  1.00  0.00
ATOM    156  O   GLN    39      31.480   9.071  10.215  1.00  0.00
ATOM    157  N   THR    40      30.651   7.585  11.660  1.00  0.00
ATOM    158  CA  THR    40      31.276   6.480  10.960  1.00  0.00
ATOM    159  C   THR    40      30.667   6.274   9.583  1.00  0.00
ATOM    160  O   THR    40      31.360   5.931   8.626  1.00  0.00
ATOM    161  N   ALA    41      29.359   6.481   9.452  1.00  0.00
ATOM    162  CA  ALA    41      28.725   6.315   8.159  1.00  0.00
ATOM    163  C   ALA    41      29.230   7.335   7.152  1.00  0.00
ATOM    164  O   ALA    41      29.599   6.992   6.030  1.00  0.00
ATOM    165  N   ILE    42      29.260   8.610   7.531  1.00  0.00
ATOM    166  CA  ILE    42      29.762   9.625   6.625  1.00  0.00
ATOM    167  C   ILE    42      31.244   9.439   6.342  1.00  0.00
ATOM    168  O   ILE    42      31.702   9.610   5.214  1.00  0.00
ATOM    169  N   THR    43      32.024   9.086   7.360  1.00  0.00
ATOM    170  CA  THR    43      33.452   8.935   7.162  1.00  0.00
ATOM    171  C   THR    43      33.766   7.810   6.190  1.00  0.00
ATOM    172  O   THR    43      34.676   7.916   5.368  1.00  0.00
ATOM    173  N   GLN    44      33.021   6.710   6.262  1.00  0.00
ATOM    174  CA  GLN    44      33.284   5.597   5.370  1.00  0.00
ATOM    175  C   GLN    44      33.021   5.970   3.920  1.00  0.00
ATOM    176  O   GLN    44      33.668   5.460   3.006  1.00  0.00
ATOM    177  N   SER    45      32.067   6.864   3.679  1.00  0.00
ATOM    178  CA  SER    45      31.792   7.282   2.317  1.00  0.00
ATOM    179  C   SER    45      32.712   8.412   1.883  1.00  0.00
ATOM    180  O   SER    45      32.709   8.824   0.723  1.00  0.00
ATOM    181  N   GLY    46      33.517   8.936   2.801  1.00  0.00
ATOM    182  CA  GLY    46      34.405  10.027   2.450  1.00  0.00
ATOM    183  C   GLY    46      33.681  11.363   2.463  1.00  0.00
ATOM    184  O   GLY    46      34.133  12.338   1.862  1.00  0.00
ATOM    185  N   ILE    47      32.543  11.438   3.146  1.00  0.00
ATOM    186  CA  ILE    47      31.816  12.692   3.209  1.00  0.00
ATOM    187  C   ILE    47      32.572  13.738   4.011  1.00  0.00
ATOM    188  O   ILE    47      32.636  14.906   3.631  1.00  0.00
ATOM    189  N   LEU    48      33.160  13.342   5.136  1.00  0.00
ATOM    190  CA  LEU    48      33.901  14.294   5.941  1.00  0.00
ATOM    191  C   LEU    48      35.018  14.949   5.143  1.00  0.00
ATOM    192  O   LEU    48      35.226  16.159   5.217  1.00  0.00
ATOM    193  N   SER    49      35.761  14.164   4.367  1.00  0.00
ATOM    194  CA  SER    49      36.840  14.732   3.585  1.00  0.00
ATOM    195  C   SER    49      36.328  15.745   2.573  1.00  0.00
ATOM    196  O   SER    49      36.887  16.829   2.421  1.00  0.00
ATOM    197  N   GLN    50      35.253  15.414   1.863  1.00  0.00
ATOM    198  CA  GLN    50      34.706  16.346   0.898  1.00  0.00
ATOM    199  C   GLN    50      34.255  17.638   1.561  1.00  0.00
ATOM    200  O   GLN    50      34.525  18.733   1.068  1.00  0.00
ATOM    201  N   PHE    51      33.561  17.539   2.691  1.00  0.00
ATOM    202  CA  PHE    51      33.103  18.736   3.368  1.00  0.00
ATOM    203  C   PHE    51      33.475  18.723   4.842  1.00  0.00
ATOM    204  O   PHE    51      32.625  18.530   5.710  1.00  0.00
ATOM    205  N   PRO    52      34.752  18.927   5.154  1.00  0.00
ATOM    206  CA  PRO    52      35.168  18.919   6.544  1.00  0.00
ATOM    207  C   PRO    52      34.408  19.951   7.361  1.00  0.00
ATOM    208  O   PRO    52      34.283  19.829   8.579  1.00  0.00
ATOM    209  N   GLU    53      33.884  20.986   6.711  1.00  0.00
ATOM    210  CA  GLU    53      33.168  22.014   7.440  1.00  0.00
ATOM    211  C   GLU    53      31.686  21.693   7.549  1.00  0.00
ATOM    212  O   GLU    53      30.964  22.288   8.349  1.00  0.00
ATOM    213  N   ILE    54      31.201  20.748   6.748  1.00  0.00
ATOM    214  CA  ILE    54      29.785  20.439   6.767  1.00  0.00
ATOM    215  C   ILE    54      29.450  19.412   7.837  1.00  0.00
ATOM    216  O   ILE    54      30.266  18.556   8.173  1.00  0.00
ATOM    217  N   ASP    55      28.244  19.477   8.393  1.00  0.00
ATOM    218  CA  ASP    55      27.822  18.455   9.331  1.00  0.00
ATOM    219  C   ASP    55      26.620  17.681   8.815  1.00  0.00
ATOM    220  O   ASP    55      25.527  18.225   8.677  1.00  0.00
ATOM    221  N   LEU    56      26.798  16.397   8.519  1.00  0.00
ATOM    222  CA  LEU    56      25.657  15.563   8.196  1.00  0.00
ATOM    223  C   LEU    56      24.786  15.307   9.415  1.00  0.00
ATOM    224  O   LEU    56      23.574  15.135   9.305  1.00  0.00
TER
END
