
#######################################################
#                                                     #
#                        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   41 (  204),  selected   41 , name T0363TS102_4-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS102_4-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    -       -      I      13           -
LGA    -       -      N      14           -
LGA    -       -      I      15           -
LGA    -       -      E      16           -
LGA    -       -      I      17           -
LGA    Q      12      A      18          4.362
LGA    I      13      Y      19          2.504
LGA    N      14      -       -           -
LGA    E      16      -       -           -
LGA    I      17      A      20          1.136
LGA    A      18      F      21          1.365
LGA    Y      19      P      22          2.645
LGA    A      20      E      23          3.566
LGA    F      21      R      24           -
LGA    P      22      Y      25           -
LGA    E      23      Y      26           -
LGA    Y      26      L      27           -
LGA    L      27      K      28           -
LGA    K      28      S      29           -
LGA    S      29      F      30           -
LGA    F      30      Q      31           -
LGA    Q      31      V      32           -
LGA    V      32      D      33           -
LGA    D      33      E      34           -
LGA    -       -      G      35           -
LGA    -       -      I      36           -
LGA    E      34      T      37          4.242
LGA    G      35      V      38          3.633
LGA    I      36      Q      39           #
LGA    T      37      -       -           -
LGA    V      38      T      40           #
LGA    Q      39      A      41          3.792
LGA    -       -      I      42           -
LGA    T      40      T      43          5.318
LGA    A      41      Q      44          3.638
LGA    I      42      S      45          4.456
LGA    T      43      -       -           -
LGA    Q      44      G      46          0.777
LGA    I      47      I      47          1.099
LGA    L      48      L      48          0.838
LGA    S      49      S      49          0.882
LGA    Q      50      Q      50          0.920
LGA    F      51      F      51          0.909
LGA    P      52      P      52          0.805
LGA    E      53      E      53          1.102
LGA    I      54      I      54          0.588
LGA    D      55      D      55          1.256
LGA    L      56      L      56          1.715

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   41   46    5.0     23    2.69    47.83     35.596     0.823

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.618662 * X  +   0.662248 * Y  +   0.422711 * Z  + -44.096729
  Y_new =   0.158567 * X  +   0.421713 * Y  +  -0.892757 * Z  +  58.742504
  Z_new =  -0.769490 * X  +   0.619342 * Y  +   0.155887 * Z  +  56.838696 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.324220   -1.817372  [ DEG:    75.8722   -104.1278 ]
  Theta =   0.878042    2.263551  [ DEG:    50.3081    129.6919 ]
  Phi   =   0.250905   -2.890687  [ DEG:    14.3758   -165.6242 ]
 
# 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: T0363TS102_4-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS102_4-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   41   46   5.0   23   2.69   47.83  35.596
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS102_4-D1
PFRMAT TS
TARGET T0363
MODEL 4
PARENT 2a7r_A
ATOM     46  N   ASN    11      26.309  15.980  -2.600  1.00  1.00
ATOM     47  CA  ASN    11      26.057  16.957  -3.651  1.00  1.00
ATOM     48  C   ASN    11      26.018  18.372  -3.115  1.00  1.00
ATOM     49  O   ASN    11      26.717  19.249  -3.621  1.00  1.00
ATOM     50  CB  ASN    11      24.723  16.694  -4.360  1.00  1.00
ATOM     51  N   GLN    12      25.191  18.601  -2.098  1.00  1.00
ATOM     52  CA  GLN    12      25.074  19.930  -1.504  1.00  1.00
ATOM     53  C   GLN    12      26.420  20.431  -1.008  1.00  1.00
ATOM     54  O   GLN    12      26.736  21.610  -1.134  1.00  1.00
ATOM     55  CB  GLN    12      24.086  19.925  -0.341  1.00  1.00
ATOM     56  N   ILE    13      27.207  19.535  -0.424  1.00  1.00
ATOM     57  CA  ILE    13      28.521  19.919   0.052  1.00  1.00
ATOM     58  C   ILE    13      29.310  20.458  -1.130  1.00  1.00
ATOM     59  O   ILE    13      29.829  21.568  -1.084  1.00  1.00
ATOM     60  CB  ILE    13      29.249  18.722   0.654  1.00  1.00
ATOM     61  N   ASN    14      29.385  19.663  -2.193  1.00  1.00
ATOM     62  CA  ASN    14      30.094  20.037  -3.419  1.00  1.00
ATOM     63  C   ASN    14      29.698  21.438  -3.833  1.00  1.00
ATOM     64  O   ASN    14      30.533  22.310  -4.046  1.00  1.00
ATOM     65  CB  ASN    14      29.708  19.084  -4.541  1.00  1.00
ATOM     66  N   GLU    16      28.394  21.617  -3.965  1.00  1.00
ATOM     67  CA  GLU    16      27.789  22.880  -4.348  1.00  1.00
ATOM     68  C   GLU    16      28.230  24.004  -3.415  1.00  1.00
ATOM     69  O   GLU    16      28.799  25.005  -3.859  1.00  1.00
ATOM     70  CB  GLU    16      26.272  22.729  -4.307  1.00  1.00
ATOM     71  N   ILE    17      27.960  23.831  -2.122  1.00  1.00
ATOM     72  CA  ILE    17      28.339  24.837  -1.134  1.00  1.00
ATOM     73  C   ILE    17      29.816  25.144  -1.267  1.00  1.00
ATOM     74  O   ILE    17      30.202  26.299  -1.429  1.00  1.00
ATOM     75  CB  ILE    17      28.064  24.352   0.294  1.00  1.00
ATOM     76  N   ALA    18      30.635  24.099  -1.188  1.00  1.00
ATOM     77  CA  ALA    18      32.080  24.242  -1.308  1.00  1.00
ATOM     78  C   ALA    18      32.392  25.038  -2.574  1.00  1.00
ATOM     79  O   ALA    18      33.291  25.882  -2.596  1.00  1.00
ATOM     80  CB  ALA    18      32.741  22.863  -1.367  1.00  1.00
ATOM     81  N   TYR    19      31.621  24.769  -3.622  1.00  1.00
ATOM     82  CA  TYR    19      31.815  25.458  -4.878  1.00  1.00
ATOM     83  C   TYR    19      31.571  26.945  -4.770  1.00  1.00
ATOM     84  O   TYR    19      32.490  27.740  -4.936  1.00  1.00
ATOM     85  CB  TYR    19      30.808  24.885  -5.893  1.00  1.00
ATOM     86  N   ALA    20      30.330  27.323  -4.479  1.00  1.00
ATOM     87  CA  ALA    20      29.962  28.729  -4.373  1.00  1.00
ATOM     88  C   ALA    20      30.625  29.504  -3.222  1.00  1.00
ATOM     89  O   ALA    20      30.603  30.730  -3.215  1.00  1.00
ATOM     90  CB  ALA    20      28.438  28.852  -4.287  1.00  1.00
ATOM     91  N   PHE    21      31.230  28.805  -2.262  1.00  1.00
ATOM     92  CA  PHE    21      31.859  29.471  -1.117  1.00  1.00
ATOM     93  C   PHE    21      33.233  28.917  -0.799  1.00  1.00
ATOM     94  O   PHE    21      33.467  28.430   0.306  1.00  1.00
ATOM     95  CB  PHE    21      30.978  29.318   0.117  1.00  1.00
ATOM     96  N   PRO    22      34.136  29.002  -1.765  1.00  1.00
ATOM     97  CA  PRO    22      35.496  28.493  -1.613  1.00  1.00
ATOM     98  C   PRO    22      36.144  28.779  -0.254  1.00  1.00
ATOM     99  O   PRO    22      36.515  27.864   0.475  1.00  1.00
ATOM    100  CB  PRO    22      36.366  29.050  -2.728  1.00  1.00
ATOM    101  N   GLU    23      36.275  30.057   0.067  1.00  1.00
ATOM    102  CA  GLU    23      36.892  30.526   1.305  1.00  1.00
ATOM    103  C   GLU    23      36.343  29.983   2.630  1.00  1.00
ATOM    104  O   GLU    23      37.102  29.681   3.552  1.00  1.00
ATOM    105  CB  GLU    23      36.816  32.048   1.321  1.00  1.00
ATOM    106  N   TYR    26      35.026  29.863   2.723  1.00  1.00
ATOM    107  CA  TYR    26      34.384  29.391   3.944  1.00  1.00
ATOM    108  C   TYR    26      34.478  27.899   4.243  1.00  1.00
ATOM    109  O   TYR    26      33.586  27.353   4.892  1.00  1.00
ATOM    110  CB  TYR    26      32.912  29.784   3.919  1.00  1.00
ATOM    111  N   LEU    27      35.538  27.229   3.805  1.00  1.00
ATOM    112  CA  LEU    27      35.623  25.798   4.066  1.00  1.00
ATOM    113  C   LEU    27      36.409  25.484   5.314  1.00  1.00
ATOM    114  O   LEU    27      36.250  24.419   5.925  1.00  1.00
ATOM    115  CB  LEU    27      36.193  25.057   2.860  1.00  1.00
ATOM    116  N   LYS    28      37.286  26.399   5.691  1.00  1.00
ATOM    117  CA  LYS    28      38.012  26.202   6.930  1.00  1.00
ATOM    118  C   LYS    28      36.937  26.672   7.882  1.00  1.00
ATOM    119  O   LYS    28      35.989  27.337   7.457  1.00  1.00
ATOM    120  CB  LYS    28      39.227  27.117   7.020  1.00  1.00
ATOM    121  N   SER    29      37.042  26.339   9.154  1.00  1.00
ATOM    122  CA  SER    29      36.005  26.788  10.072  1.00  1.00
ATOM    123  C   SER    29      34.677  26.126   9.735  1.00  1.00
ATOM    124  O   SER    29      33.616  26.723   9.853  1.00  1.00
ATOM    125  CB  SER    29      35.859  28.302   9.984  1.00  1.00
ATOM    126  N   PHE    30      34.757  24.879   9.312  1.00  1.00
ATOM    127  CA  PHE    30      33.584  24.116   8.962  1.00  1.00
ATOM    128  C   PHE    30      33.922  22.686   9.360  1.00  1.00
ATOM    129  O   PHE    30      35.046  22.231   9.143  1.00  1.00
ATOM    130  CB  PHE    30      33.360  24.222   7.463  1.00  1.00
ATOM    131  N   GLN    31      32.976  21.983   9.969  1.00  1.00
ATOM    132  CA  GLN    31      33.225  20.605  10.366  1.00  1.00
ATOM    133  C   GLN    31      32.143  19.673   9.829  1.00  1.00
ATOM    134  O   GLN    31      30.977  20.059   9.724  1.00  1.00
ATOM    135  CB  GLN    31      33.298  20.500  11.874  1.00  1.00
ATOM    136  N   VAL    32      32.540  18.457   9.468  1.00  1.00
ATOM    137  CA  VAL    32      31.607  17.464   8.972  1.00  1.00
ATOM    138  C   VAL    32      31.234  16.616  10.176  1.00  1.00
ATOM    139  O   VAL    32      32.102  16.114  10.874  1.00  1.00
ATOM    140  CB  VAL    32      32.271  16.628   7.925  1.00  1.00
ATOM    141  N   ASP    33      29.939  16.460  10.428  1.00  1.00
ATOM    142  CA  ASP    33      29.488  15.697  11.593  1.00  1.00
ATOM    143  C   ASP    33      29.254  14.225  11.309  1.00  1.00
ATOM    144  O   ASP    33      29.170  13.816  10.159  1.00  1.00
ATOM    145  CB  ASP    33      28.192  16.299  12.152  1.00  1.00
ATOM    146  N   GLU    34      29.135  13.427  12.362  1.00  1.00
ATOM    147  CA  GLU    34      28.890  11.999  12.191  1.00  1.00
ATOM    148  C   GLU    34      28.654  11.252  13.488  1.00  1.00
ATOM    149  O   GLU    34      29.171  11.626  14.541  1.00  1.00
ATOM    150  CB  GLU    34      30.067  11.335  11.463  1.00  1.00
ATOM    151  N   GLY    35      27.868  10.185  13.392  1.00  1.00
ATOM    152  CA  GLY    35      27.601   9.351  14.546  1.00  1.00
ATOM    153  C   GLY    35      28.506   8.136  14.474  1.00  1.00
ATOM    154  O   GLY    35      29.378   8.046  13.605  1.00  1.00
ATOM    155  N   ILE    36      28.302   7.195  15.384  1.00  1.00
ATOM    156  CA  ILE    36      29.108   5.980  15.409  1.00  1.00
ATOM    157  C   ILE    36      28.638   4.988  14.338  1.00  1.00
ATOM    158  O   ILE    36      29.371   4.070  13.955  1.00  1.00
ATOM    159  CB  ILE    36      29.022   5.292  16.781  1.00  1.00
ATOM    160  N   THR    37      27.413   5.185  13.857  1.00  1.00
ATOM    161  CA  THR    37      26.863   4.309  12.836  1.00  1.00
ATOM    162  C   THR    37      27.678   4.182  11.560  1.00  1.00
ATOM    163  O   THR    37      28.243   5.160  11.063  1.00  1.00
ATOM    164  CB  THR    37      25.489   4.880  12.442  1.00  1.00
ATOM    165  N   VAL    38      27.726   2.960  11.026  1.00  1.00
ATOM    166  CA  VAL    38      28.460   2.658   9.796  1.00  1.00
ATOM    167  C   VAL    38      28.042   3.579   8.655  1.00  1.00
ATOM    168  O   VAL    38      28.882   4.141   7.955  1.00  1.00
ATOM    169  CB  VAL    38      28.226   1.208   9.401  1.00  1.00
ATOM    170  N   GLN    39      29.552   7.019   9.246  1.00  1.00
ATOM    171  CA  GLN    39      30.985   7.035   8.994  1.00  1.00
ATOM    172  C   GLN    39      31.303   6.937   7.512  1.00  1.00
ATOM    173  O   GLN    39      32.230   7.576   7.009  1.00  1.00
ATOM    174  CB  GLN    39      31.658   5.890   9.736  1.00  1.00
ATOM    175  N   THR    40      30.521   6.118   6.826  1.00  1.00
ATOM    176  CA  THR    40      30.667   5.899   5.405  1.00  1.00
ATOM    177  C   THR    40      30.447   7.225   4.698  1.00  1.00
ATOM    178  O   THR    40      31.209   7.617   3.814  1.00  1.00
ATOM    179  CB  THR    40      29.623   4.878   4.973  1.00  1.00
ATOM    180  N   ALA    41      29.394   7.919   5.107  1.00  1.00
ATOM    181  CA  ALA    41      29.065   9.204   4.528  1.00  1.00
ATOM    182  C   ALA    41      30.113  10.253   4.861  1.00  1.00
ATOM    183  O   ALA    41      30.444  11.094   4.027  1.00  1.00
ATOM    184  CB  ALA    41      27.702   9.641   5.025  1.00  1.00
ATOM    185  N   ILE    42      30.635  10.191   6.083  1.00  1.00
ATOM    186  CA  ILE    42      31.660  11.120   6.554  1.00  1.00
ATOM    187  C   ILE    42      32.895  11.051   5.669  1.00  1.00
ATOM    188  O   ILE    42      33.388  12.081   5.201  1.00  1.00
ATOM    189  CB  ILE    42      32.036  10.789   7.996  1.00  1.00
ATOM    190  N   THR    43      33.396   9.831   5.452  1.00  1.00
ATOM    191  CA  THR    43      34.561   9.613   4.597  1.00  1.00
ATOM    192  C   THR    43      34.300  10.299   3.263  1.00  1.00
ATOM    193  O   THR    43      35.019  11.202   2.835  1.00  1.00
ATOM    194  CB  THR    43      34.761   8.122   4.332  1.00  1.00
ATOM    195  N   GLN    44      33.239   9.847   2.624  1.00  1.00
ATOM    196  CA  GLN    44      32.840  10.355   1.339  1.00  1.00
ATOM    197  C   GLN    44      32.916  11.870   1.196  1.00  1.00
ATOM    198  O   GLN    44      33.278  12.375   0.136  1.00  1.00
ATOM    199  CB  GLN    44      31.451   9.802   1.043  1.00  1.00
ATOM    200  N   ILE    47      32.592  12.588   2.269  1.00  1.00
ATOM    201  CA  ILE    47      32.634  14.051   2.275  1.00  1.00
ATOM    202  C   ILE    47      34.054  14.568   2.498  1.00  1.00
ATOM    203  O   ILE    47      34.488  15.518   1.848  1.00  1.00
ATOM    204  CB  ILE    47      31.720  14.633   3.384  1.00  1.00
ATOM    205  N   LEU    48      34.776  13.947   3.421  1.00  1.00
ATOM    206  CA  LEU    48      36.132  14.380   3.701  1.00  1.00
ATOM    207  C   LEU    48      37.053  14.134   2.514  1.00  1.00
ATOM    208  O   LEU    48      37.978  14.919   2.265  1.00  1.00
ATOM    209  CB  LEU    48      36.671  13.674   4.945  1.00  1.00
ATOM    210  N   SER    49      36.803  13.044   1.787  1.00  1.00
ATOM    211  CA  SER    49      37.602  12.711   0.614  1.00  1.00
ATOM    212  C   SER    49      37.317  13.715  -0.496  1.00  1.00
ATOM    213  O   SER    49      38.236  14.282  -1.080  1.00  1.00
ATOM    214  CB  SER    49      37.279  11.297   0.131  1.00  1.00
ATOM    215  N   GLN    50      36.036  13.932  -0.769  1.00  1.00
ATOM    216  CA  GLN    50      35.604  14.860  -1.804  1.00  1.00
ATOM    217  C   GLN    50      36.028  16.296  -1.522  1.00  1.00
ATOM    218  O   GLN    50      36.558  16.978  -2.405  1.00  1.00
ATOM    219  CB  GLN    50      34.093  14.787  -1.953  1.00  1.00
ATOM    220  N   PHE    51      35.774  16.758  -0.301  1.00  1.00
ATOM    221  CA  PHE    51      36.145  18.110   0.089  1.00  1.00
ATOM    222  C   PHE    51      37.275  18.048   1.111  1.00  1.00
ATOM    223  O   PHE    51      37.039  17.982   2.311  1.00  1.00
ATOM    224  CB  PHE    51      34.959  18.886   0.720  1.00  1.00
ATOM    225  N   PRO    52      38.524  18.039   0.645  1.00  1.00
ATOM    226  CA  PRO    52      39.634  17.983   1.594  1.00  1.00
ATOM    227  C   PRO    52      39.884  19.331   2.269  1.00  1.00
ATOM    228  O   PRO    52      40.708  19.431   3.184  1.00  1.00
ATOM    229  CB  PRO    52      40.800  17.532   0.723  1.00  1.00
ATOM    230  N   GLU    53      39.181  20.363   1.812  1.00  1.00
ATOM    231  CA  GLU    53      39.326  21.690   2.397  1.00  1.00
ATOM    232  C   GLU    53      38.620  21.693   3.757  1.00  1.00
ATOM    233  O   GLU    53      38.785  22.625   4.548  1.00  1.00
ATOM    234  CB  GLU    53      38.703  22.749   1.493  1.00  1.00
ATOM    235  N   ILE    54      37.821  20.651   4.005  1.00  1.00
ATOM    236  CA  ILE    54      37.101  20.480   5.268  1.00  1.00
ATOM    237  C   ILE    54      38.056  19.691   6.140  1.00  1.00
ATOM    238  O   ILE    54      38.182  18.482   5.977  1.00  1.00
ATOM    239  CB  ILE    54      35.816  19.646   5.091  1.00  1.00
ATOM    240  N   ASP    55      38.718  20.380   7.063  1.00  1.00
ATOM    241  CA  ASP    55      39.706  19.755   7.934  1.00  1.00
ATOM    242  C   ASP    55      39.291  19.477   9.400  1.00  1.00
ATOM    243  O   ASP    55      40.144  19.305  10.281  1.00  1.00
ATOM    244  CB  ASP    55      40.987  20.587   7.880  1.00  1.00
ATOM    245  N   LEU    56      37.985  19.431   9.654  1.00  1.00
ATOM    246  CA  LEU    56      37.446  19.149  10.989  1.00  1.00
ATOM    247  C   LEU    56      36.331  18.106  10.963  1.00  1.00
ATOM    248  O   LEU    56      35.499  18.084  10.060  1.00  1.00
ATOM    249  CB  LEU    56      36.883  20.410  11.643  1.00  1.00
TER
END
