
#######################################################
#                                                     #
#                        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   50 (  200),  selected   50 , name T0348TS383_1
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS383_1.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    D       2      A       3          3.861
LGA    A       3      K       4          3.944
LGA    K       4      F       5          2.167
LGA    F       5      L       6          1.095
LGA    L       6      E       7          3.862
LGA    E       7      -       -           -
LGA    I       8      I       8          2.660
LGA    L       9      L       9          3.037
LGA    V      10      V      10          1.862
LGA    C      11      C      11          1.761
LGA    P      12      P      12          3.332
LGA    L      13      L      13          2.360
LGA    C      14      C      14          1.645
LGA    K      15      K      15          3.474
LGA    G      16      G      16          3.281
LGA    P      17      P      17          1.426
LGA    L      18      L      18          1.397
LGA    V      19      V      19          0.818
LGA    F      20      F      20          0.666
LGA    D      21      D      21          0.927
LGA    K      22      K      22          1.993
LGA    S      23      S      23          3.612
LGA    K      24      K      24          3.011
LGA    D      25      D      25          3.140
LGA    E      26      E      26          0.662
LGA    L      27      L      27          0.481
LGA    I      28      I      28          1.360
LGA    C      29      C      29          0.761
LGA    K      30      K      30          1.080
LGA    G      31      G      31          2.219
LGA    D      32      D      32          2.463
LGA    R      33      R      33          2.574
LGA    L      34      L      34          2.593
LGA    A      35      A      35          2.325
LGA    F      36      F      36          2.197
LGA    -       -      P      37           -
LGA    -       -      I      38           -
LGA    P      37      K      39          2.245
LGA    I      38      D      40          4.151
LGA    K      39      G      41          3.913
LGA    D      40      I      42           -
LGA    G      41      P      43           -
LGA    S      48      M      44           -
LGA    E      49      M      45           -
LGA    A      50      L      46           -
LGA    R      51      E      47           -
LGA    E      52      S      48           -
LGA    L      53      E      49           -
LGA    A      54      A      50           -
LGA    P      55      R      51           -
LGA    E      56      E      52           -
LGA    E      57      L      53           -
LGA    -       -      A      54           -
LGA    -       -      P      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      E      58           -
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    -       -      E      62           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   50   61    5.0     37    2.52    78.38     47.870     1.413

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.507252 * X  +  -0.073013 * Y  +   0.858700 * Z  +  10.822569
  Y_new =  -0.768469 * X  +   0.489313 * Y  +  -0.412345 * Z  +  34.050400
  Z_new =  -0.390066 * X  +  -0.869047 * Y  +  -0.304313 * Z  +  48.584740 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.907621    1.233971  [ DEG:  -109.2986     70.7014 ]
  Theta =   0.400703    2.740889  [ DEG:    22.9586    157.0414 ]
  Phi   =  -2.154226    0.987367  [ DEG:  -123.4280     56.5720 ]
 
# 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: T0348TS383_1                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS383_1.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   50   61   5.0   37   2.52   78.38  47.870
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS383_1
PFRMAT TS
TARGET T0348
MODEL 1
PARENT 1dl6A
ATOM      1  N   ASP     2      -2.874  45.535  47.796  1.00  0.00
ATOM      2  CA  ASP     2      -3.516  44.309  48.256  1.00  0.00
ATOM      3  C   ASP     2      -2.687  43.638  49.347  1.00  0.00
ATOM      4  O   ASP     2      -3.149  43.465  50.475  1.00  0.00
ATOM      5  N   ALA     3      -1.460  43.261  49.003  1.00  0.00
ATOM      6  CA  ALA     3      -0.566  42.608  49.953  1.00  0.00
ATOM      7  C   ALA     3       0.893  42.921  49.630  1.00  0.00
ATOM      8  O   ALA     3       1.355  42.693  48.513  1.00  0.00
ATOM      9  N   LYS     4       1.613  43.446  50.617  1.00  0.00
ATOM     10  CA  LYS     4       3.018  43.790  50.438  1.00  0.00
ATOM     11  C   LYS     4       3.917  42.860  51.248  1.00  0.00
ATOM     12  O   LYS     4       5.056  42.594  50.864  1.00  0.00
ATOM     13  N   PHE     5       3.399  42.371  52.370  1.00  0.00
ATOM     14  CA  PHE     5       4.156  41.471  53.232  1.00  0.00
ATOM     15  C   PHE     5       4.473  40.162  52.519  1.00  0.00
ATOM     16  O   PHE     5       3.792  39.155  52.717  1.00  0.00
ATOM     17  N   LEU     6       5.509  40.182  51.687  1.00  0.00
ATOM     18  CA  LEU     6       5.916  38.996  50.943  1.00  0.00
ATOM     19  C   LEU     6       6.684  38.024  51.838  1.00  0.00
ATOM     20  O   LEU     6       6.261  36.885  52.037  1.00  0.00
ATOM     21  N   GLU     7       7.830  38.460  52.389  1.00  0.00
ATOM     22  CA  GLU     7       8.656  37.622  53.262  1.00  0.00
ATOM     23  C   GLU     7       8.039  37.437  54.645  1.00  0.00
ATOM     24  O   GLU     7       7.634  38.403  55.289  1.00  0.00
ATOM     25  N   ILE     8       7.973  36.187  55.095  1.00  0.00
ATOM     26  CA  ILE     8       7.408  35.874  56.402  1.00  0.00
ATOM     27  C   ILE     8       8.499  35.828  57.466  1.00  0.00
ATOM     28  O   ILE     8       9.422  35.017  57.390  1.00  0.00
ATOM     29  N   LEU     9       8.389  36.709  58.456  1.00  0.00
ATOM     30  CA  LEU     9       9.363  36.775  59.532  1.00  0.00
ATOM     31  C   LEU     9       9.222  35.593  60.486  1.00  0.00
ATOM     32  O   LEU     9       8.339  35.575  61.342  1.00  0.00
ATOM     33  N   VAL    10      10.106  34.611  60.337  1.00  0.00
ATOM     34  CA  VAL    10      10.085  33.427  61.191  1.00  0.00
ATOM     35  C   VAL    10       8.776  32.658  61.039  1.00  0.00
ATOM     36  O   VAL    10       7.881  33.071  60.302  1.00  0.00
ATOM     37  N   CYS    11       8.677  31.537  61.745  1.00  0.00
ATOM     38  CA  CYS    11       7.484  30.699  61.700  1.00  0.00
ATOM     39  C   CYS    11       6.424  31.216  62.675  1.00  0.00
ATOM     40  O   CYS    11       6.726  31.504  63.833  1.00  0.00
ATOM     41  N   PRO    12       5.164  31.343  62.220  1.00  0.00
ATOM     42  CA  PRO    12       4.066  31.832  63.064  1.00  0.00
ATOM     43  C   PRO    12       3.900  31.014  64.338  1.00  0.00
ATOM     44  O   PRO    12       3.591  31.555  65.400  1.00  0.00
ATOM     45  N   LEU    13       4.102  29.707  64.224  1.00  0.00
ATOM     46  CA  LEU    13       3.967  28.810  65.368  1.00  0.00
ATOM     47  C   LEU    13       5.329  28.413  65.938  1.00  0.00
ATOM     48  O   LEU    13       5.421  27.507  66.765  1.00  0.00
ATOM     49  N   CYS    14       6.386  29.091  65.497  1.00  0.00
ATOM     50  CA  CYS    14       7.732  28.797  65.976  1.00  0.00
ATOM     51  C   CYS    14       8.627  30.031  65.883  1.00  0.00
ATOM     52  O   CYS    14       9.298  30.246  64.874  1.00  0.00
ATOM     53  N   LYS    15       8.652  30.858  66.943  1.00  0.00
ATOM     54  CA  LYS    15       9.472  32.073  66.976  1.00  0.00
ATOM     55  C   LYS    15      10.963  31.760  67.061  1.00  0.00
ATOM     56  O   LYS    15      11.771  32.337  66.335  1.00  0.00
ATOM     57  N   GLY    16      12.415  28.988  66.224  1.00  0.00
ATOM     58  CA  GLY    16      12.808  28.294  65.004  1.00  0.00
ATOM     59  C   GLY    16      12.423  29.101  63.769  1.00  0.00
ATOM     60  O   GLY    16      11.255  29.436  63.576  1.00  0.00
ATOM     61  N   PRO    17      13.411  29.411  62.939  1.00  0.00
ATOM     62  CA  PRO    17      13.174  30.180  61.725  1.00  0.00
ATOM     63  C   PRO    17      13.213  29.290  60.489  1.00  0.00
ATOM     64  O   PRO    17      14.106  28.456  60.340  1.00  0.00
ATOM     65  N   LEU    18      12.240  29.477  59.603  1.00  0.00
ATOM     66  CA  LEU    18      12.166  28.693  58.374  1.00  0.00
ATOM     67  C   LEU    18      13.431  28.883  57.540  1.00  0.00
ATOM     68  O   LEU    18      13.685  29.971  57.024  1.00  0.00
ATOM     69  N   VAL    19      14.220  27.822  57.412  1.00  0.00
ATOM     70  CA  VAL    19      15.456  27.881  56.640  1.00  0.00
ATOM     71  C   VAL    19      15.160  27.863  55.147  1.00  0.00
ATOM     72  O   VAL    19      14.099  27.409  54.724  1.00  0.00
ATOM     73  N   PHE    20      16.102  28.359  54.352  1.00  0.00
ATOM     74  CA  PHE    20      15.934  28.398  52.903  1.00  0.00
ATOM     75  C   PHE    20      17.069  27.662  52.201  1.00  0.00
ATOM     76  O   PHE    20      18.213  27.683  52.657  1.00  0.00
ATOM     77  N   ASP    21      16.746  27.012  51.088  1.00  0.00
ATOM     78  CA  ASP    21      17.738  26.268  50.320  1.00  0.00
ATOM     79  C   ASP    21      18.541  27.204  49.420  1.00  0.00
ATOM     80  O   ASP    21      18.529  28.420  49.607  1.00  0.00
ATOM     81  N   LYS    22      19.241  26.630  48.447  1.00  0.00
ATOM     82  CA  LYS    22      20.052  27.414  47.522  1.00  0.00
ATOM     83  C   LYS    22      19.266  27.758  46.261  1.00  0.00
ATOM     84  O   LYS    22      19.507  28.789  45.632  1.00  0.00
ATOM     85  N   SER    23      18.323  26.890  45.898  1.00  0.00
ATOM     86  CA  SER    23      17.495  27.095  44.718  1.00  0.00
ATOM     87  C   SER    23      16.650  25.860  44.442  1.00  0.00
ATOM     88  O   SER    23      17.170  24.759  44.258  1.00  0.00
ATOM     89  N   LYS    24      15.344  26.059  44.416  1.00  0.00
ATOM     90  CA  LYS    24      14.394  24.977  44.165  1.00  0.00
ATOM     91  C   LYS    24      14.240  24.083  45.391  1.00  0.00
ATOM     92  O   LYS    24      13.925  22.899  45.272  1.00  0.00
ATOM     93  N   ASP    25      14.462  24.658  46.569  1.00  0.00
ATOM     94  CA  ASP    25      14.339  23.898  47.800  1.00  0.00
ATOM     95  C   ASP    25      13.266  24.444  48.724  1.00  0.00
ATOM     96  O   ASP    25      12.835  23.762  49.653  1.00  0.00
ATOM     97  N   GLU    26      12.831  25.676  48.471  1.00  0.00
ATOM     98  CA  GLU    26      11.801  26.310  49.288  1.00  0.00
ATOM     99  C   GLU    26      12.318  26.589  50.695  1.00  0.00
ATOM    100  O   GLU    26      13.502  26.406  50.980  1.00  0.00
ATOM    101  N   LEU    27      11.422  27.034  51.571  1.00  0.00
ATOM    102  CA  LEU    27      11.785  27.337  52.950  1.00  0.00
ATOM    103  C   LEU    27      11.033  26.429  53.918  1.00  0.00
ATOM    104  O   LEU    27       9.803  26.444  53.966  1.00  0.00
ATOM    105  N   ILE    28      11.775  25.629  54.678  1.00  0.00
ATOM    106  CA  ILE    28      11.180  24.710  55.624  1.00  0.00
ATOM    107  C   ILE    28      11.461  25.122  57.066  1.00  0.00
ATOM    108  O   ILE    28      12.438  25.814  57.344  1.00  0.00
ATOM    109  N   CYS    29      10.599  24.686  57.982  1.00  0.00
ATOM    110  CA  CYS    29      10.762  25.007  59.397  1.00  0.00
ATOM    111  C   CYS    29      11.382  23.827  60.148  1.00  0.00
ATOM    112  O   CYS    29      11.000  22.679  59.930  1.00  0.00
ATOM    113  N   LYS    30      12.357  24.092  61.038  1.00  0.00
ATOM    114  CA  LYS    30      13.028  23.038  61.807  1.00  0.00
ATOM    115  C   LYS    30      12.172  22.491  62.949  1.00  0.00
ATOM    116  O   LYS    30      12.615  21.624  63.703  1.00  0.00
ATOM    117  N   GLY    31      10.947  22.996  63.076  1.00  0.00
ATOM    118  CA  GLY    31      10.044  22.550  64.130  1.00  0.00
ATOM    119  C   GLY    31       8.820  21.847  63.542  1.00  0.00
ATOM    120  O   GLY    31       8.743  20.619  63.550  1.00  0.00
ATOM    121  N   ASP    32       7.865  22.623  63.028  1.00  0.00
ATOM    122  CA  ASP    32       6.662  22.040  62.437  1.00  0.00
ATOM    123  C   ASP    32       6.994  21.299  61.146  1.00  0.00
ATOM    124  O   ASP    32       6.172  20.541  60.628  1.00  0.00
ATOM    125  N   ARG    33       8.199  21.519  60.625  1.00  0.00
ATOM    126  CA  ARG    33       8.602  20.862  59.399  1.00  0.00
ATOM    127  C   ARG    33       7.704  21.224  58.236  1.00  0.00
ATOM    128  O   ARG    33       7.157  20.346  57.568  1.00  0.00
ATOM    129  N   LEU    34       7.549  22.522  57.991  1.00  0.00
ATOM    130  CA  LEU    34       6.707  22.990  56.899  1.00  0.00
ATOM    131  C   LEU    34       7.553  23.311  55.673  1.00  0.00
ATOM    132  O   LEU    34       8.776  23.182  55.707  1.00  0.00
ATOM    133  N   ALA    35       6.894  23.726  54.597  1.00  0.00
ATOM    134  CA  ALA    35       7.582  24.063  53.357  1.00  0.00
ATOM    135  C   ALA    35       6.875  25.203  52.631  1.00  0.00
ATOM    136  O   ALA    35       5.957  24.975  51.844  1.00  0.00
ATOM    137  N   PHE    36       7.309  26.431  52.898  1.00  0.00
ATOM    138  CA  PHE    36       6.715  27.603  52.266  1.00  0.00
ATOM    139  C   PHE    36       7.551  28.073  51.079  1.00  0.00
ATOM    140  O   PHE    36       8.767  28.230  51.186  1.00  0.00
ATOM    141  N   PRO    37       6.688  27.338  44.611  1.00  0.00
ATOM    142  CA  PRO    37       6.749  27.890  43.262  1.00  0.00
ATOM    143  C   PRO    37       8.070  28.617  43.032  1.00  0.00
ATOM    144  O   PRO    37       8.837  28.843  43.967  1.00  0.00
ATOM    145  N   ILE    38       8.329  28.979  41.779  1.00  0.00
ATOM    146  CA  ILE    38       9.557  29.680  41.425  1.00  0.00
ATOM    147  C   ILE    38       9.290  30.765  40.387  1.00  0.00
ATOM    148  O   ILE    38       9.121  30.476  39.202  1.00  0.00
ATOM    149  N   LYS    39       9.253  32.013  40.839  1.00  0.00
ATOM    150  CA  LYS    39       9.006  33.141  39.949  1.00  0.00
ATOM    151  C   LYS    39      10.070  33.221  38.857  1.00  0.00
ATOM    152  O   LYS    39      11.129  33.818  39.048  1.00  0.00
ATOM    153  N   ASP    40       9.780  32.611  37.712  1.00  0.00
ATOM    154  CA  ASP    40      10.710  32.612  36.589  1.00  0.00
ATOM    155  C   ASP    40      10.292  33.633  35.536  1.00  0.00
ATOM    156  O   ASP    40       9.514  33.326  34.633  1.00  0.00
ATOM    157  N   GLY    41      12.012  35.562  32.862  1.00  0.00
ATOM    158  CA  GLY    41      13.160  35.859  32.025  1.00  0.00
ATOM    159  C   GLY    41      12.849  36.891  30.961  1.00  0.00
ATOM    160  O   GLY    41      12.382  36.551  29.874  1.00  0.00
ATOM    161  N   SER    48      13.106  38.156  31.273  1.00  0.00
ATOM    162  CA  SER    48      12.850  39.242  30.334  1.00  0.00
ATOM    163  C   SER    48      13.605  40.504  30.739  1.00  0.00
ATOM    164  O   SER    48      13.131  41.619  30.526  1.00  0.00
ATOM    165  N   GLU    49      14.784  40.320  31.325  1.00  0.00
ATOM    166  CA  GLU    49      15.606  41.445  31.760  1.00  0.00
ATOM    167  C   GLU    49      17.016  41.362  31.176  1.00  0.00
ATOM    168  O   GLU    49      17.906  42.104  31.589  1.00  0.00
ATOM    169  N   ALA    50      17.212  40.460  30.214  1.00  0.00
ATOM    170  CA  ALA    50      18.513  40.283  29.575  1.00  0.00
ATOM    171  C   ALA    50      19.540  39.726  30.558  1.00  0.00
ATOM    172  O   ALA    50      20.013  38.601  30.404  1.00  0.00
ATOM    173  N   ARG    51      19.880  40.522  31.568  1.00  0.00
ATOM    174  CA  ARG    51      20.851  40.110  32.576  1.00  0.00
ATOM    175  C   ARG    51      22.249  40.003  31.973  1.00  0.00
ATOM    176  O   ARG    51      22.668  38.931  31.538  1.00  0.00
ATOM    177  N   GLU    52      22.963  41.123  31.951  1.00  0.00
ATOM    178  CA  GLU    52      24.314  41.157  31.401  1.00  0.00
ATOM    179  C   GLU    52      25.100  42.337  31.964  1.00  0.00
ATOM    180  O   GLU    52      24.530  43.243  32.571  1.00  0.00
ATOM    181  N   LEU    53      26.413  42.319  31.756  1.00  0.00
ATOM    182  CA  LEU    53      27.277  43.390  32.242  1.00  0.00
ATOM    183  C   LEU    53      27.415  44.492  31.196  1.00  0.00
ATOM    184  O   LEU    53      28.517  44.797  30.739  1.00  0.00
ATOM    185  N   ALA    54      26.286  45.087  30.822  1.00  0.00
ATOM    186  CA  ALA    54      26.276  46.157  29.831  1.00  0.00
ATOM    187  C   ALA    54      26.778  45.653  28.482  1.00  0.00
ATOM    188  O   ALA    54      27.621  44.758  28.415  1.00  0.00
ATOM    189  N   PRO    55      26.253  46.234  27.407  1.00  0.00
ATOM    190  CA  PRO    55      26.648  45.844  26.059  1.00  0.00
ATOM    191  C   PRO    55      28.045  46.362  25.730  1.00  0.00
ATOM    192  O   PRO    55      28.512  47.336  26.321  1.00  0.00
ATOM    193  N   GLU    56      28.707  45.703  24.784  1.00  0.00
ATOM    194  CA  GLU    56      30.050  46.097  24.376  1.00  0.00
ATOM    195  C   GLU    56      29.999  47.154  23.279  1.00  0.00
ATOM    196  O   GLU    56      30.869  48.021  23.195  1.00  0.00
ATOM    197  N   GLU    57      28.971  47.079  22.439  1.00  0.00
ATOM    198  CA  GLU    57      28.805  48.029  21.346  1.00  0.00
ATOM    199  C   GLU    57      27.933  49.204  21.775  1.00  0.00
ATOM    200  O   GLU    57      27.099  49.075  22.672  1.00  0.00
TER
END
