
#######################################################
#                                                     #
#                        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_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS035_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      N      11           -
LGA    -       -      Q      12           -
LGA    Q      12      I      13          5.493
LGA    I      13      N      14           #
LGA    -       -      I      15           -
LGA    N      14      E      16          2.856
LGA    I      15      I      17          2.308
LGA    E      16      A      18          1.197
LGA    I      17      Y      19          1.641
LGA    A      18      A      20          1.611
LGA    Y      19      F      21          0.920
LGA    A      20      P      22          1.348
LGA    F      21      -       -           -
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      E      23          2.710
LGA    Y      26      R      24          1.429
LGA    L      27      Y      25          2.271
LGA    K      28      Y      26          1.580
LGA    S      29      L      27          1.133
LGA    F      30      K      28          3.262
LGA    Q      31      S      29          2.995
LGA    V      32      F      30          4.454
LGA    D      33      Q      31          3.292
LGA    E      34      V      32          4.391
LGA    G      35      D      33          1.316
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    I      36      I      36          3.973
LGA    T      37      T      37          3.759
LGA    V      38      V      38          3.077
LGA    Q      39      Q      39          2.728
LGA    T      40      T      40          3.004
LGA    A      41      A      41          2.697
LGA    I      42      I      42          2.516
LGA    T      43      T      43          2.758
LGA    Q      44      Q      44          2.730
LGA    S      45      S      45          2.410
LGA    G      46      G      46          1.230
LGA    I      47      I      47          0.599
LGA    L      48      L      48          1.659
LGA    S      49      S      49          2.435
LGA    Q      50      Q      50          2.049
LGA    F      51      F      51          2.104
LGA    P      52      P      52          3.395
LGA    E      53      E      53          3.298
LGA    I      54      I      54          3.240
LGA    -       -      D      55           -
LGA    D      55      L      56          4.370
LGA    L      56      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     39    2.79    53.85     61.612     1.348

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.304630 * X  +   0.155648 * Y  +  -0.939667 * Z  +  27.345179
  Y_new =  -0.784756 * X  +   0.600109 * Y  +  -0.155006 * Z  +  20.429443
  Z_new =   0.539777 * X  +   0.784629 * Y  +   0.304957 * Z  +   2.452618 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.200101   -1.941492  [ DEG:    68.7607   -111.2393 ]
  Theta =  -0.570172   -2.571421  [ DEG:   -32.6684   -147.3316 ]
  Phi   =  -1.200518    1.941075  [ DEG:   -68.7846    111.2154 ]
 
# 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_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS035_1-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   39   2.79   53.85  61.612
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS035_1-D1
PFRMAT TS
TARGET T0363
MODEL  1  REFINED
PARENT N/A
ATOM     41  N   ASN    11      16.714   9.937  15.523  1.00  0.00
ATOM     42  CA  ASN    11      16.704   8.782  14.646  1.00  0.00
ATOM     43  C   ASN    11      17.620   8.981  13.449  1.00  0.00
ATOM     44  O   ASN    11      18.455   8.133  13.141  1.00  0.00
ATOM     45  N   GLN    12      17.484  10.105  12.751  1.00  0.00
ATOM     46  CA  GLN    12      18.217  10.282  11.513  1.00  0.00
ATOM     47  C   GLN    12      18.837  11.668  11.424  1.00  0.00
ATOM     48  O   GLN    12      18.412  12.599  12.106  1.00  0.00
ATOM     49  N   ILE    13      19.853  11.834  10.582  1.00  0.00
ATOM     50  CA  ILE    13      20.407  13.156  10.364  1.00  0.00
ATOM     51  C   ILE    13      20.638  13.431   8.887  1.00  0.00
ATOM     52  O   ILE    13      20.800  12.511   8.088  1.00  0.00
ATOM     53  N   ASN    14      20.657  14.702   8.495  1.00  0.00
ATOM     54  CA  ASN    14      20.918  15.028   7.106  1.00  0.00
ATOM     55  C   ASN    14      21.936  16.148   6.977  1.00  0.00
ATOM     56  O   ASN    14      21.964  17.078   7.782  1.00  0.00
ATOM     57  N   ILE    15      22.793  16.085   5.962  1.00  0.00
ATOM     58  CA  ILE    15      23.774  17.136   5.774  1.00  0.00
ATOM     59  C   ILE    15      23.944  17.487   4.306  1.00  0.00
ATOM     60  O   ILE    15      24.002  16.610   3.444  1.00  0.00
ATOM     61  N   GLU    16      24.027  18.776   3.988  1.00  0.00
ATOM     62  CA  GLU    16      24.238  19.171   2.608  1.00  0.00
ATOM     63  C   GLU    16      25.535  19.946   2.440  1.00  0.00
ATOM     64  O   GLU    16      25.725  21.004   3.038  1.00  0.00
ATOM     65  N   ILE    17      26.452  19.437   1.622  1.00  0.00
ATOM     66  CA  ILE    17      27.672  20.175   1.353  1.00  0.00
ATOM     67  C   ILE    17      27.518  21.090   0.149  1.00  0.00
ATOM     68  O   ILE    17      26.964  20.702  -0.878  1.00  0.00
ATOM     69  N   ALA    18      28.004  22.324   0.251  1.00  0.00
ATOM     70  CA  ALA    18      27.977  23.210  -0.897  1.00  0.00
ATOM     71  C   ALA    18      29.268  24.002  -1.023  1.00  0.00
ATOM     72  O   ALA    18      29.874  24.392  -0.027  1.00  0.00
ATOM     73  N   TYR    19      29.716  24.255  -2.250  1.00  0.00
ATOM     74  CA  TYR    19      30.929  25.027  -2.434  1.00  0.00
ATOM     75  C   TYR    19      30.842  25.921  -3.661  1.00  0.00
ATOM     76  O   TYR    19      30.032  25.692  -4.557  1.00  0.00
ATOM     77  N   ALA    20      31.673  26.957  -3.726  1.00  0.00
ATOM     78  CA  ALA    20      31.746  27.754  -4.935  1.00  0.00
ATOM     79  C   ALA    20      33.163  28.231  -5.206  1.00  0.00
ATOM     80  O   ALA    20      33.918  28.540  -4.286  1.00  0.00
ATOM     81  N   PHE    21      33.555  28.300  -6.475  1.00  0.00
ATOM     82  CA  PHE    21      34.866  28.829  -6.802  1.00  0.00
ATOM     83  C   PHE    21      34.772  30.005  -7.759  1.00  0.00
ATOM     84  O   PHE    21      33.820  30.124  -8.529  1.00  0.00
ATOM     85  N   PRO    22      35.757  30.898  -7.733  1.00  0.00
ATOM     86  CA  PRO    22      35.700  32.067  -8.590  1.00  0.00
ATOM     87  C   PRO    22      35.525  31.682 -10.050  1.00  0.00
ATOM     88  O   PRO    22      34.867  32.383 -10.818  1.00  0.00
ATOM     89  N   GLU    23      36.109  30.560 -10.463  1.00  0.00
ATOM     90  CA  GLU    23      36.010  30.162 -11.853  1.00  0.00
ATOM     91  C   GLU    23      35.255  28.851 -12.007  1.00  0.00
ATOM     92  O   GLU    23      34.815  28.496 -13.099  1.00  0.00
ATOM     93  N   ARG    24      35.091  28.105 -10.918  1.00  0.00
ATOM     94  CA  ARG    24      34.390  26.839 -11.005  1.00  0.00
ATOM     95  C   ARG    24      33.242  26.767 -10.010  1.00  0.00
ATOM     96  O   ARG    24      33.224  27.481  -9.008  1.00  0.00
ATOM     97  N   TYR    25      32.262  25.904 -10.265  1.00  0.00
ATOM     98  CA  TYR    25      31.150  25.779  -9.343  1.00  0.00
ATOM     99  C   TYR    25      30.775  24.323  -9.114  1.00  0.00
ATOM    100  O   TYR    25      30.744  23.521 -10.046  1.00  0.00
ATOM    101  N   TYR    26      30.483  23.952  -7.871  1.00  0.00
ATOM    102  CA  TYR    26      30.102  22.581  -7.595  1.00  0.00
ATOM    103  C   TYR    26      28.895  22.511  -6.672  1.00  0.00
ATOM    104  O   TYR    26      28.666  23.403  -5.857  1.00  0.00
ATOM    105  N   LEU    27      28.099  21.452  -6.782  1.00  0.00
ATOM    106  CA  LEU    27      26.958  21.308  -5.899  1.00  0.00
ATOM    107  C   LEU    27      26.810  19.878  -5.404  1.00  0.00
ATOM    108  O   LEU    27      26.396  18.988  -6.145  1.00  0.00
ATOM    109  N   LYS    28      27.146  19.628  -4.141  1.00  0.00
ATOM    110  CA  LYS    28      27.134  18.265  -3.645  1.00  0.00
ATOM    111  C   LYS    28      26.456  18.170  -2.287  1.00  0.00
ATOM    112  O   LYS    28      26.836  18.855  -1.339  1.00  0.00
ATOM    113  N   SER    29      25.441  17.322  -2.166  1.00  0.00
ATOM    114  CA  SER    29      24.781  17.157  -0.884  1.00  0.00
ATOM    115  C   SER    29      25.013  15.769  -0.309  1.00  0.00
ATOM    116  O   SER    29      24.791  14.760  -0.976  1.00  0.00
ATOM    117  N   PHE    30      25.462  15.689   0.940  1.00  0.00
ATOM    118  CA  PHE    30      25.664  14.392   1.556  1.00  0.00
ATOM    119  C   PHE    30      24.583  14.084   2.579  1.00  0.00
ATOM    120  O   PHE    30      24.499  14.723   3.627  1.00  0.00
ATOM    121  N   GLN    31      23.733  13.100   2.298  1.00  0.00
ATOM    122  CA  GLN    31      22.689  12.752   3.241  1.00  0.00
ATOM    123  C   GLN    31      23.019  11.473   3.994  1.00  0.00
ATOM    124  O   GLN    31      23.337  10.447   3.395  1.00  0.00
ATOM    125  N   VAL    32      22.948  11.506   5.322  1.00  0.00
ATOM    126  CA  VAL    32      23.282  10.326   6.096  1.00  0.00
ATOM    127  C   VAL    32      22.047   9.498   6.413  1.00  0.00
ATOM    128  O   VAL    32      21.065  10.004   6.953  1.00  0.00
ATOM    129  N   ASP    33      22.071   8.210   6.086  1.00  0.00
ATOM    130  CA  ASP    33      20.924   7.369   6.367  1.00  0.00
ATOM    131  C   ASP    33      20.680   7.235   7.861  1.00  0.00
ATOM    132  O   ASP    33      21.506   7.640   8.678  1.00  0.00
ATOM    133  N   GLU    34      19.543   6.666   8.249  1.00  0.00
ATOM    134  CA  GLU    34      19.242   6.537   9.661  1.00  0.00
ATOM    135  C   GLU    34      20.016   5.393  10.296  1.00  0.00
ATOM    136  O   GLU    34      20.030   5.235  11.517  1.00  0.00
ATOM    137  N   GLY    35      20.674   4.571   9.484  1.00  0.00
ATOM    138  CA  GLY    35      21.410   3.447  10.030  1.00  0.00
ATOM    139  C   GLY    35      22.895   3.549   9.726  1.00  0.00
ATOM    140  O   GLY    35      23.598   2.544   9.645  1.00  0.00
ATOM    141  N   ILE    36      23.404   4.766   9.549  1.00  0.00
ATOM    142  CA  ILE    36      24.837   4.941   9.423  1.00  0.00
ATOM    143  C   ILE    36      25.356   6.012  10.369  1.00  0.00
ATOM    144  O   ILE    36      24.711   7.038  10.582  1.00  0.00
ATOM    145  N   THR    37      26.531   5.799  10.953  1.00  0.00
ATOM    146  CA  THR    37      27.156   6.851  11.731  1.00  0.00
ATOM    147  C   THR    37      27.549   8.033  10.860  1.00  0.00
ATOM    148  O   THR    37      27.913   7.872   9.695  1.00  0.00
ATOM    149  N   VAL    38      27.484   9.246  11.403  1.00  0.00
ATOM    150  CA  VAL    38      27.851  10.411  10.623  1.00  0.00
ATOM    151  C   VAL    38      29.285  10.320  10.124  1.00  0.00
ATOM    152  O   VAL    38      29.570  10.593   8.959  1.00  0.00
ATOM    153  N   GLN    39      30.215   9.937  10.994  1.00  0.00
ATOM    154  CA  GLN    39      31.594   9.804  10.569  1.00  0.00
ATOM    155  C   GLN    39      31.753   8.717   9.518  1.00  0.00
ATOM    156  O   GLN    39      32.480   8.882   8.539  1.00  0.00
ATOM    157  N   THR    40      31.079   7.585   9.698  1.00  0.00
ATOM    158  CA  THR    40      31.171   6.522   8.716  1.00  0.00
ATOM    159  C   THR    40      30.584   6.945   7.379  1.00  0.00
ATOM    160  O   THR    40      31.066   6.545   6.319  1.00  0.00
ATOM    161  N   ALA    41      29.532   7.759   7.399  1.00  0.00
ATOM    162  CA  ALA    41      28.940   8.209   6.154  1.00  0.00
ATOM    163  C   ALA    41      29.885   9.115   5.381  1.00  0.00
ATOM    164  O   ALA    41      30.010   9.010   4.162  1.00  0.00
ATOM    165  N   ILE    42      30.569  10.023   6.072  1.00  0.00
ATOM    166  CA  ILE    42      31.522  10.882   5.396  1.00  0.00
ATOM    167  C   ILE    42      32.691  10.088   4.838  1.00  0.00
ATOM    168  O   ILE    42      33.149  10.330   3.722  1.00  0.00
ATOM    169  N   THR    43      33.199   9.123   5.600  1.00  0.00
ATOM    170  CA  THR    43      34.292   8.307   5.107  1.00  0.00
ATOM    171  C   THR    43      33.852   7.424   3.950  1.00  0.00
ATOM    172  O   THR    43      34.448   7.439   2.876  1.00  0.00
ATOM    173  N   GLN    44      32.798   6.635   4.147  1.00  0.00
ATOM    174  CA  GLN    44      32.347   5.752   3.089  1.00  0.00
ATOM    175  C   GLN    44      32.068   6.514   1.804  1.00  0.00
ATOM    176  O   GLN    44      32.362   6.041   0.708  1.00  0.00
ATOM    177  N   SER    45      31.497   7.711   1.912  1.00  0.00
ATOM    178  CA  SER    45      31.193   8.479   0.720  1.00  0.00
ATOM    179  C   SER    45      32.387   9.305   0.266  1.00  0.00
ATOM    180  O   SER    45      32.377   9.896  -0.811  1.00  0.00
ATOM    181  N   GLY    46      33.439   9.361   1.079  1.00  0.00
ATOM    182  CA  GLY    46      34.591  10.164   0.718  1.00  0.00
ATOM    183  C   GLY    46      34.285  11.651   0.805  1.00  0.00
ATOM    184  O   GLY    46      34.994  12.479   0.235  1.00  0.00
ATOM    185  N   ILE    47      33.224  12.019   1.517  1.00  0.00
ATOM    186  CA  ILE    47      32.874  13.422   1.622  1.00  0.00
ATOM    187  C   ILE    47      33.917  14.203   2.404  1.00  0.00
ATOM    188  O   ILE    47      34.313  15.301   2.015  1.00  0.00
ATOM    189  N   LEU    48      34.384  13.655   3.522  1.00  0.00
ATOM    190  CA  LEU    48      35.393  14.346   4.302  1.00  0.00
ATOM    191  C   LEU    48      36.689  14.505   3.526  1.00  0.00
ATOM    192  O   LEU    48      37.330  15.554   3.567  1.00  0.00
ATOM    193  N   SER    49      37.103  13.469   2.801  1.00  0.00
ATOM    194  CA  SER    49      38.324  13.568   2.026  1.00  0.00
ATOM    195  C   SER    49      38.210  14.621   0.935  1.00  0.00
ATOM    196  O   SER    49      39.152  15.369   0.675  1.00  0.00
ATOM    197  N   GLN    50      37.058  14.702   0.277  1.00  0.00
ATOM    198  CA  GLN    50      36.890  15.689  -0.772  1.00  0.00
ATOM    199  C   GLN    50      36.911  17.104  -0.216  1.00  0.00
ATOM    200  O   GLN    50      37.390  18.033  -0.864  1.00  0.00
ATOM    201  N   PHE    51      36.393  17.298   0.993  1.00  0.00
ATOM    202  CA  PHE    51      36.389  18.625   1.576  1.00  0.00
ATOM    203  C   PHE    51      36.986  18.623   2.974  1.00  0.00
ATOM    204  O   PHE    51      36.265  18.632   3.972  1.00  0.00
ATOM    205  N   PRO    52      38.311  18.612   3.077  1.00  0.00
ATOM    206  CA  PRO    52      38.938  18.607   4.385  1.00  0.00
ATOM    207  C   PRO    52      38.626  19.878   5.158  1.00  0.00
ATOM    208  O   PRO    52      38.625  19.889   6.389  1.00  0.00
ATOM    209  N   GLU    53      38.357  20.975   4.456  1.00  0.00
ATOM    210  CA  GLU    53      38.066  22.221   5.138  1.00  0.00
ATOM    211  C   GLU    53      36.684  22.204   5.768  1.00  0.00
ATOM    212  O   GLU    53      36.412  22.931   6.723  1.00  0.00
ATOM    213  N   ILE    54      35.783  21.375   5.249  1.00  0.00
ATOM    214  CA  ILE    54      34.441  21.326   5.799  1.00  0.00
ATOM    215  C   ILE    54      34.287  20.196   6.802  1.00  0.00
ATOM    216  O   ILE    54      35.029  19.215   6.773  1.00  0.00
ATOM    217  N   ASP    55      33.322  20.307   7.711  1.00  0.00
ATOM    218  CA  ASP    55      33.127  19.260   8.694  1.00  0.00
ATOM    219  C   ASP    55      31.836  18.495   8.448  1.00  0.00
ATOM    220  O   ASP    55      30.757  19.080   8.362  1.00  0.00
ATOM    221  N   LEU    56      31.918  17.173   8.329  1.00  0.00
ATOM    222  CA  LEU    56      30.719  16.390   8.101  1.00  0.00
ATOM    223  C   LEU    56      29.918  16.210   9.379  1.00  0.00
ATOM    224  O   LEU    56      28.759  15.796   9.351  1.00  0.00
TER
END
