
#######################################################
#                                                     #
#                        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   37 (  148),  selected   37 , name T0363TS125_4u-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS125_4u-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N      11           -
LGA    -       -      Q      12           -
LGA    I      13      I      13          2.135
LGA    N      14      N      14          1.983
LGA    I      15      I      15          1.186
LGA    E      16      E      16          1.902
LGA    I      17      I      17          1.453
LGA    A      18      A      18          1.539
LGA    F      21      Y      19          1.425
LGA    P      22      A      20          0.556
LGA    E      23      F      21          3.488
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    R      24      Y      25          1.828
LGA    L      27      Y      26          3.888
LGA    -       -      L      27           -
LGA    K      28      K      28          1.547
LGA    S      29      S      29          1.630
LGA    F      30      F      30          2.457
LGA    Q      31      Q      31          2.596
LGA    V      32      V      32          2.138
LGA    D      33      D      33          1.753
LGA    E      34      E      34          2.354
LGA    G      35      G      35          0.860
LGA    I      36      I      36          0.683
LGA    T      37      T      37          1.993
LGA    V      38      V      38          2.194
LGA    Q      39      Q      39          2.163
LGA    T      40      T      40          1.225
LGA    A      41      A      41          1.662
LGA    I      42      I      42          2.363
LGA    T      43      T      43          1.337
LGA    Q      44      Q      44          1.881
LGA    I      47      S      45          3.760
LGA    L      48      -       -           -
LGA    S      49      G      46          2.806
LGA    Q      50      I      47          3.235
LGA    F      51      L      48          3.060
LGA    E      53      S      49          1.195
LGA    I      54      Q      50           #
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    D      55      D      55          4.882
LGA    L      56      L      56          4.182

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   37   46    5.0     35    2.37    71.43     61.606     1.418

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.824107 * X  +  -0.206231 * Y  +  -0.527557 * Z  +  28.663599
  Y_new =   0.562087 * X  +  -0.412915 * Y  +  -0.716631 * Z  +  13.347464
  Z_new =  -0.070045 * X  +  -0.887113 * Y  +   0.456206 * Z  +   8.215111 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.095807    2.045786  [ DEG:   -62.7851    117.2149 ]
  Theta =   0.070102    3.071491  [ DEG:     4.0166    175.9834 ]
  Phi   =   2.543012   -0.598581  [ DEG:   145.7038    -34.2962 ]
 
# 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: T0363TS125_4u-D1                              
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS125_4u-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   37   46   5.0   35   2.37   71.43  61.606
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS125_4u-D1
PFRMAT   TS
TARGET   T0363
MODEL    4  UNREFINED
PARENT   1wx8a   
ATOM    112  N   ILE    13      19.088   5.286   7.007    1.00  0.50
ATOM    113  CA  ILE    13      18.181   6.396   6.771    1.00  0.50
ATOM    114  C   ILE    13      18.791   7.333   5.727    1.00  0.50
ATOM    115  O   ILE    13      20.007   7.361   5.547    1.00  0.50
ATOM    120  N   ASN    14      17.917   8.078   5.064    1.00  0.50
ATOM    121  CA  ASN    14      18.355   9.014   4.043    1.00  0.50
ATOM    122  C   ASN    14      18.555  10.405   4.647    1.00  0.50
ATOM    123  O   ASN    14      17.586  11.123   4.896    1.00  0.50
ATOM    131  N   ILE    15      19.816  10.745   4.866    1.00  0.50
ATOM    132  CA  ILE    15      20.155  12.037   5.438    1.00  0.50
ATOM    133  C   ILE    15      20.684  12.955   4.333    1.00  0.50
ATOM    134  O   ILE    15      21.722  12.676   3.734    1.00  0.50
ATOM    138  N   GLU    16      19.946  14.030   4.096    1.00  0.50
ATOM    139  CA  GLU    16      20.328  14.989   3.074    1.00  0.50
ATOM    140  C   GLU    16      21.497  15.843   3.569    1.00  0.50
ATOM    141  O   GLU    16      21.332  16.665   4.469    1.00  0.50
ATOM    144  N   ILE    17      22.652  15.618   2.960    1.00  0.50
ATOM    145  CA  ILE    17      23.848  16.356   3.327    1.00  0.50
ATOM    146  C   ILE    17      23.923  17.641   2.501    1.00  0.50
ATOM    147  O   ILE    17      23.946  17.592   1.271    1.00  0.50
ATOM    151  N   ALA    18      23.959  18.761   3.208    1.00  0.50
ATOM    152  CA  ALA    18      24.031  20.057   2.554    1.00  0.50
ATOM    153  C   ALA    18      25.480  20.550   2.566    1.00  0.50
ATOM    154  O   ALA    18      26.057  20.766   3.631    1.00  0.50
ATOM    160  N   PHE    21      26.026  20.714   1.370    1.00  0.50
ATOM    161  CA  PHE    21      27.395  21.178   1.230    1.00  0.50
ATOM    162  C   PHE    21      27.422  22.597   0.660    1.00  0.50
ATOM    163  O   PHE    21      26.456  23.040   0.042    1.00  0.50
ATOM    167  N   PRO    22      28.570  23.288   0.894    1.00  0.50
ATOM    168  CA  PRO    22      28.736  24.648   0.411    1.00  0.50
ATOM    169  C   PRO    22      28.991  24.667  -1.098    1.00  0.50
ATOM    170  O   PRO    22      30.088  25.001  -1.541    1.00  0.50
ATOM    174  N   GLU    23      27.959  24.304  -1.844    1.00  0.50
ATOM    175  CA  GLU    23      28.057  24.274  -3.294    1.00  0.50
ATOM    176  C   GLU    23      26.868  23.520  -3.892    1.00  0.50
ATOM    177  O   GLU    23      26.081  24.092  -4.645    1.00  0.50
ATOM    183  N   ARG    24      26.775  22.248  -3.534    1.00  0.50
ATOM    184  CA  ARG    24      25.696  21.410  -4.026    1.00  0.50
ATOM    185  C   ARG    24      25.053  20.671  -2.850    1.00  0.50
ATOM    186  O   ARG    24      25.339  20.973  -1.692    1.00  0.50
ATOM    191  N   LEU    27      24.198  19.716  -3.188    1.00  0.50
ATOM    192  CA  LEU    27      23.514  18.932  -2.175    1.00  0.50
ATOM    193  C   LEU    27      23.717  17.449  -2.495    1.00  0.50
ATOM    194  O   LEU    27      23.754  17.063  -3.662    1.00  0.50
ATOM    197  N   LYS    28      23.844  16.661  -1.439    1.00  0.50
ATOM    198  CA  LYS    28      24.044  15.230  -1.593    1.00  0.50
ATOM    199  C   LYS    28      23.240  14.481  -0.528    1.00  0.50
ATOM    200  O   LYS    28      22.913  15.044   0.517    1.00  0.50
ATOM    207  N   SER    29      22.946  13.224  -0.828    1.00  0.50
ATOM    208  CA  SER    29      22.187  12.394   0.091    1.00  0.50
ATOM    209  C   SER    29      23.030  11.202   0.548    1.00  0.50
ATOM    210  O   SER    29      23.573  10.469  -0.276    1.00  0.50
ATOM    216  N   PHE    30      23.111  11.044   1.861    1.00  0.50
ATOM    217  CA  PHE    30      23.879   9.953   2.438    1.00  0.50
ATOM    218  C   PHE    30      22.963   8.957   3.152    1.00  0.50
ATOM    219  O   PHE    30      21.988   9.351   3.790    1.00  0.50
ATOM    227  N   GLN    31      23.310   7.685   3.021    1.00  0.50
ATOM    228  CA  GLN    31      22.530   6.629   3.646    1.00  0.50
ATOM    229  C   GLN    31      23.396   5.801   4.600    1.00  0.50
ATOM    230  O   GLN    31      24.170   4.951   4.162    1.00  0.50
ATOM    238  N   VAL    32      23.235   6.079   5.886    1.00  0.50
ATOM    239  CA  VAL    32      23.991   5.371   6.904    1.00  0.50
ATOM    240  C   VAL    32      23.054   4.982   8.051    1.00  0.50
ATOM    241  O   VAL    32      21.939   5.491   8.145    1.00  0.50
ATOM    246  N   ASP    33      23.543   4.083   8.892    1.00  0.50
ATOM    247  CA  ASP    33      22.764   3.620  10.027    1.00  0.50
ATOM    248  C   ASP    33      22.263   4.827  10.823    1.00  0.50
ATOM    249  O   ASP    33      23.047   5.694  11.203    1.00  0.50
ATOM    251  N   GLU    34      20.957   4.844  11.051    1.00  0.50
ATOM    252  CA  GLU    34      20.342   5.930  11.794    1.00  0.50
ATOM    253  C   GLU    34      20.888   5.972  13.222    1.00  0.50
ATOM    254  O   GLU    34      20.857   7.016  13.873    1.00  0.50
ATOM    260  N   GLY    35      21.375   4.823  13.670    1.00  0.50
ATOM    261  CA  GLY    35      21.929   4.716  15.009    1.00  0.50
ATOM    262  C   GLY    35      23.454   4.802  14.936    1.00  0.50
ATOM    263  O   GLY    35      24.154   4.117  15.680    1.00  0.50
ATOM    268  N   ILE    36      23.924   5.648  14.031    1.00  0.50
ATOM    269  CA  ILE    36      25.354   5.831  13.850    1.00  0.50
ATOM    270  C   ILE    36      25.796   7.152  14.484    1.00  0.50
ATOM    271  O   ILE    36      25.443   8.226  14.000    1.00  0.50
ATOM    274  N   THR    37      26.562   7.029  15.559    1.00  0.50
ATOM    275  CA  THR    37      27.055   8.199  16.264    1.00  0.50
ATOM    276  C   THR    37      27.456   9.270  15.247    1.00  0.50
ATOM    277  O   THR    37      27.874   8.951  14.136    1.00  0.50
ATOM    282  N   VAL    38      27.313  10.520  15.665    1.00  0.50
ATOM    283  CA  VAL    38      27.655  11.641  14.806    1.00  0.50
ATOM    284  C   VAL    38      28.982  11.351  14.101    1.00  0.50
ATOM    285  O   VAL    38      29.108  11.561  12.895    1.00  0.50
ATOM    289  N   GLN    39      29.939  10.872  14.883    1.00  0.50
ATOM    290  CA  GLN    39      31.251  10.551  14.349    1.00  0.50
ATOM    291  C   GLN    39      31.117   9.707  13.080    1.00  0.50
ATOM    292  O   GLN    39      31.437  10.168  11.987    1.00  0.50
ATOM    300  N   THR    40      30.641   8.485  13.270    1.00  0.50
ATOM    301  CA  THR    40      30.460   7.571  12.154    1.00  0.50
ATOM    302  C   THR    40      29.946   8.327  10.928    1.00  0.50
ATOM    303  O   THR    40      30.567   8.290   9.866    1.00  0.50
ATOM    311  N   ALA    41      28.817   8.994  11.113    1.00  0.50
ATOM    312  CA  ALA    41      28.212   9.758  10.035    1.00  0.50
ATOM    313  C   ALA    41      29.242  10.667   9.362    1.00  0.50
ATOM    314  O   ALA    41      29.270  10.780   8.138    1.00  0.50
ATOM    322  N   ILE    42      30.064  11.293  10.193    1.00  0.50
ATOM    323  CA  ILE    42      31.093  12.188   9.694    1.00  0.50
ATOM    324  C   ILE    42      32.045  11.409   8.784    1.00  0.50
ATOM    325  O   ILE    42      32.266  11.792   7.636    1.00  0.50
ATOM    331  N   THR    43      32.583  10.328   9.330    1.00  0.50
ATOM    332  CA  THR    43      33.505   9.491   8.582    1.00  0.50
ATOM    333  C   THR    43      32.963   9.281   7.167    1.00  0.50
ATOM    334  O   THR    43      33.691   9.445   6.189    1.00  0.50
ATOM    340  N   GLN    44      31.689   8.922   7.102    1.00  0.50
ATOM    341  CA  GLN    44      31.042   8.688   5.823    1.00  0.50
ATOM    342  C   GLN    44      31.319   9.851   4.868    1.00  0.50
ATOM    343  O   GLN    44      31.530   9.641   3.674    1.00  0.50
ATOM    349  N   ILE    47      31.308  11.051   5.428    1.00  0.50
ATOM    350  CA  ILE    47      31.555  12.247   4.642    1.00  0.50
ATOM    351  C   ILE    47      33.037  12.307   4.263    1.00  0.50
ATOM    352  O   ILE    47      33.376  12.548   3.106    1.00  0.50
ATOM    357  N   LEU    48      33.879  12.081   5.261    1.00  0.50
ATOM    358  CA  LEU    48      35.316  12.106   5.046    1.00  0.50
ATOM    359  C   LEU    48      35.696  11.131   3.930    1.00  0.50
ATOM    360  O   LEU    48      36.696  11.328   3.242    1.00  0.50
ATOM    363  N   SER    49      34.878  10.099   3.787    1.00  0.50
ATOM    364  CA  SER    49      35.115   9.092   2.767    1.00  0.50
ATOM    365  C   SER    49      34.887   9.708   1.385    1.00  0.50
ATOM    366  O   SER    49      35.760   9.641   0.520    1.00  0.50
ATOM    372  N   GLN    50      33.711  10.294   1.221    1.00  0.50
ATOM    373  CA  GLN    50      33.357  10.922  -0.041    1.00  0.50
ATOM    374  C   GLN    50      34.069  12.266  -0.203    1.00  0.50
ATOM    375  O   GLN    50      34.920  12.420  -1.077    1.00  0.50
ATOM    384  N   PHE    51      33.694  13.204   0.653    1.00  0.50
ATOM    385  CA  PHE    51      34.286  14.531   0.616    1.00  0.50
ATOM    386  C   PHE    51      35.805  14.404   0.487    1.00  0.50
ATOM    387  O   PHE    51      36.465  15.301  -0.034    1.00  0.50
ATOM    392  N   GLU    53      36.315  13.280   0.971    1.00  0.50
ATOM    393  CA  GLU    53      37.744  13.024   0.917    1.00  0.50
ATOM    394  C   GLU    53      38.482  14.047   1.782    1.00  0.50
ATOM    395  O   GLU    53      39.607  14.435   1.467    1.00  0.50
ATOM    402  N   ILE    54      37.821  14.455   2.855    1.00  0.50
ATOM    403  CA  ILE    54      38.400  15.425   3.768    1.00  0.50
ATOM    404  C   ILE    54      38.825  14.692   5.042    1.00  0.50
ATOM    405  O   ILE    54      39.119  13.498   5.008    1.00  0.50
ATOM    408  N   ASP    55      38.845  15.438   6.136    1.00  0.50
ATOM    409  CA  ASP    55      39.229  14.875   7.420    1.00  0.50
ATOM    410  C   ASP    55      38.050  14.975   8.390    1.00  0.50
ATOM    411  O   ASP    55      37.472  16.048   8.560    1.00  0.50
ATOM    416  N   LEU    56      37.728  13.845   9.001    1.00  0.50
ATOM    417  CA  LEU    56      36.629  13.792   9.949    1.00  0.50
ATOM    418  C   LEU    56      36.995  14.606  11.192    1.00  0.50
ATOM    419  O   LEU    56      36.137  14.893  12.026    1.00  0.50
TER
END
