
#######################################################
#                                                     #
#                        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  119 (  119),  selected  119 , name T0382TS599_3-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS599_3-D1.T0382_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L       4      L       4           #
LGA    D       5      D       5          4.774
LGA    L       6      L       6          2.657
LGA    H       7      H       7          3.031
LGA    Q       8      Q       8          2.016
LGA    M       9      M       9          0.849
LGA    T      10      T      10          0.518
LGA    T      11      T      11          0.907
LGA    Q      12      Q      12          1.016
LGA    D      13      D      13          0.657
LGA    L      14      L      14          0.864
LGA    V      15      V      15          1.148
LGA    A      16      A      16          1.145
LGA    L      17      L      17          1.253
LGA    F      18      F      18          1.964
LGA    A      19      A      19          1.625
LGA    K      20      K      20          0.902
LGA    V      21      V      21          1.477
LGA    T      22      T      22          1.766
LGA    V      23      V      23          1.252
LGA    E      24      E      24          1.401
LGA    Q      25      Q      25          3.008
LGA    D      26      D      26          2.345
LGA    D      27      D      27          0.773
LGA    A      28      A      28          2.618
LGA    L      29      L      29          3.002
LGA    L      30      L      30          1.226
LGA    G      31      G      31          2.224
LGA    N      32      N      32          3.062
LGA    Q      33      -       -           -
LGA    I      34      -       -           -
LGA    S      35      -       -           -
LGA    R      36      -       -           -
LGA    F      37      Q      33          3.021
LGA    N      38      I      34           #
LGA    R      39      S      35           #
LGA    L      40      R      36          3.383
LGA    F      41      -       -           -
LGA    G      42      -       -           -
LGA    V      43      -       -           -
LGA    M      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      -       -           -
LGA    I      47      -       -           -
LGA    A      48      -       -           -
LGA    D      49      -       -           -
LGA    E      50      -       -           -
LGA    L      51      -       -           -
LGA    K      52      -       -           -
LGA    A      53      -       -           -
LGA    R      54      -       -           -
LGA    D      55      -       -           -
LGA    G      56      -       -           -
LGA    D      57      -       -           -
LGA    Q      58      -       -           -
LGA    R      59      -       -           -
LGA    T      60      -       -           -
LGA    A      61      -       -           -
LGA    L      62      -       -           -
LGA    L      63      -       -           -
LGA    S      64      -       -           -
LGA    L      65      -       -           -
LGA    F      66      -       -           -
LGA    E      67      -       -           -
LGA    Y      68      -       -           -
LGA    P      69      -       -           -
LGA    N      70      F      37           #
LGA    M      71      N      38          3.277
LGA    Q      72      R      39          1.751
LGA    -       -      L      40           -
LGA    V      73      F      41          2.124
LGA    -       -      G      42           -
LGA    R      74      V      43           #
LGA    L      75      M      44          3.957
LGA    Q      76      -       -           -
LGA    A      77      A      45          3.595
LGA    A      78      E      46          4.186
LGA    K      79      I      47          4.475
LGA    L      80      A      48          4.132
LGA    T      81      D      49          3.545
LGA    L      82      E      50          3.295
LGA    -       -      L      51           -
LGA    A      83      K      52          2.343
LGA    V      84      A      53           #
LGA    -       -      R      54           -
LGA    -       -      D      55           -
LGA    -       -      G      56           -
LGA    -       -      D      57           -
LGA    A      85      Q      58          1.029
LGA    P      86      R      59          4.779
LGA    V      87      T      60          3.990
LGA    K      88      A      61          2.088
LGA    A      89      L      62          2.539
LGA    R      90      L      63          2.180
LGA    E      91      S      64          3.166
LGA    Q      92      -       -           -
LGA    L      93      L      65          1.975
LGA    E      94      F      66          4.643
LGA    A      95      -       -           -
LGA    I      96      -       -           -
LGA    V      97      E      67          0.791
LGA    S      98      -       -           -
LGA    S      99      -       -           -
LGA    K     100      Y      68          4.774
LGA    W     101      P      69          2.265
LGA    F     102      N      70          2.584
LGA    -       -      M      71           -
LGA    P     103      Q      72          5.502
LGA    Q     104      V      73          4.730
LGA    A     105      R      74          5.127
LGA    G     106      L      75          3.337
LGA    D     107      Q      76          1.014
LGA    A     108      A      77          2.465
LGA    G     109      A      78          2.026
LGA    M     110      K      79          1.808
LGA    C     111      L      80          2.016
LGA    L     112      T      81          2.040
LGA    D     113      L      82          1.472
LGA    L     114      A      83          1.937
LGA    L     115      V      84          1.886
LGA    D     116      A      85          3.297
LGA    D     117      P      86           #
LGA    G     118      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    -       -      Q      92           -
LGA    -       -      L      93           -
LGA    -       -      E      94           -
LGA    -       -      A      95           -
LGA    -       -      I      96           -
LGA    -       -      V      97           -
LGA    -       -      S      98           -
LGA    -       -      S      99           -
LGA    -       -      K     100           -
LGA    -       -      W     101           -
LGA    -       -      F     102           -
LGA    -       -      P     103           -
LGA    -       -      Q     104           -
LGA    -       -      A     105           -
LGA    -       -      G     106           -
LGA    -       -      D     107           -
LGA    -       -      A     108           -
LGA    -       -      G     109           -
LGA    -       -      M     110           -
LGA    -       -      C     111           -
LGA    -       -      L     112           -
LGA    -       -      D     113           -
LGA    -       -      L     114           -
LGA    -       -      L     115           -
LGA    -       -      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    T     119      P     122           #
LGA    F     120      -       -           -
LGA    K     121      -       -           -
LGA    P     122      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  119  119    5.0     68    2.78    45.59     36.654     2.363

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.232377 * X  +   0.371433 * Y  +   0.898910 * Z  +  -9.569399
  Y_new =   0.687972 * X  +  -0.716074 * Y  +   0.118037 * Z  +  40.540192
  Z_new =   0.687529 * X  +   0.590995 * Y  +  -0.421934 * Z  +  -0.829277 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.190816   -0.950777  [ DEG:   125.5245    -54.4755 ]
  Theta =  -0.758081   -2.383512  [ DEG:   -43.4348   -136.5652 ]
  Phi   =   1.245057   -1.896536  [ DEG:    71.3365   -108.6635 ]
 
# 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: T0382TS599_3-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_3-D1.T0382_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  119  119   5.0   68   2.78   45.59  36.654
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_3-D1
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      4  CA  LEU     4      -7.650  33.072  -9.749  1.00  0.00              
ATOM      5  CA  ASP     5      -6.342  34.189 -13.161  1.00  0.00              
ATOM      6  CA  LEU     6      -6.777  37.979 -13.088  1.00  0.00              
ATOM      7  CA  HIS     7      -7.677  38.469 -16.763  1.00  0.00              
ATOM      8  CA  GLN     8     -10.467  35.870 -16.648  1.00  0.00              
ATOM      9  CA  MET     9     -12.044  36.741 -13.305  1.00  0.00              
ATOM     10  CA  THR    10     -15.714  37.702 -13.542  1.00  0.00              
ATOM     11  CA  THR    11     -16.991  40.248 -10.946  1.00  0.00              
ATOM     12  CA  GLN    12     -19.185  37.686  -9.296  1.00  0.00              
ATOM     13  CA  ASP    13     -16.359  35.231  -8.966  1.00  0.00              
ATOM     14  CA  LEU    14     -13.998  37.794  -7.568  1.00  0.00              
ATOM     15  CA  VAL    15     -16.453  39.162  -5.084  1.00  0.00              
ATOM     16  CA  ALA    16     -17.318  35.753  -3.725  1.00  0.00              
ATOM     17  CA  LEU    17     -13.727  34.686  -3.356  1.00  0.00              
ATOM     18  CA  PHE    18     -12.675  37.807  -1.473  1.00  0.00              
ATOM     19  CA  ALA    19     -15.596  37.584   0.886  1.00  0.00              
ATOM     20  CA  LYS    20     -15.037  33.938   1.699  1.00  0.00              
ATOM     21  CA  VAL    21     -11.385  34.474   2.461  1.00  0.00              
ATOM     22  CA  THR    22     -12.187  37.425   4.745  1.00  0.00              
ATOM     23  CA  VAL    23     -14.853  35.507   6.611  1.00  0.00              
ATOM     24  CA  GLU    24     -12.607  32.458   7.211  1.00  0.00              
ATOM     25  CA  GLN    25      -9.629  34.398   8.507  1.00  0.00              
ATOM     26  CA  ASP    26     -11.709  36.414  10.887  1.00  0.00              
ATOM     27  CA  ASP    27     -13.334  33.388  12.509  1.00  0.00              
ATOM     28  CA  ALA    28      -9.985  31.580  13.096  1.00  0.00              
ATOM     29  CA  LEU    29      -8.203  34.465  14.714  1.00  0.00              
ATOM     30  CA  LEU    30     -11.168  35.345  16.991  1.00  0.00              
ATOM     31  CA  GLY    31     -11.548  31.866  18.411  1.00  0.00              
ATOM     32  CA  ASN    32      -7.807  31.829  19.245  1.00  0.00              
ATOM     33  CA  GLN    33      -6.739  28.712  17.444  1.00  0.00              
ATOM     34  CA  ILE    34      -2.967  29.142  17.024  1.00  0.00              
ATOM     35  CA  SER    35      -2.408  26.341  14.511  1.00  0.00              
ATOM     36  CA  ARG    36      -5.047  27.504  12.033  1.00  0.00              
ATOM     37  CA  PHE    37      -3.773  31.073  12.043  1.00  0.00              
ATOM     38  CA  ASN    38      -0.178  30.043  11.437  1.00  0.00              
ATOM     39  CA  ARG    39      -1.234  27.771   8.526  1.00  0.00              
ATOM     40  CA  LEU    40      -3.172  30.627   6.926  1.00  0.00              
ATOM     41  CA  PHE    41      -0.129  32.948   7.314  1.00  0.00              
ATOM     42  CA  GLY    42       2.191  30.373   5.677  1.00  0.00              
ATOM     43  CA  VAL    43      -0.317  30.012   2.788  1.00  0.00              
ATOM     44  CA  MET    44      -0.429  33.736   2.292  1.00  0.00              
ATOM     45  CA  ALA    45       3.419  33.791   2.163  1.00  0.00              
ATOM     46  CA  GLU    46       3.453  30.994  -0.410  1.00  0.00              
ATOM     47  CA  ILE    47       0.884  32.826  -2.611  1.00  0.00              
ATOM     48  CA  ALA    48       2.663  36.145  -2.439  1.00  0.00              
ATOM     49  CA  ASP    49       5.914  34.580  -3.399  1.00  0.00              
ATOM     50  CA  GLU    50       4.218  32.813  -6.359  1.00  0.00              
ATOM     51  CA  LEU    51       2.595  36.047  -7.401  1.00  0.00              
ATOM     52  CA  LYS    52       5.912  37.902  -7.255  1.00  0.00              
ATOM     53  CA  ALA    53       7.273  35.486  -9.846  1.00  0.00              
ATOM     54  CA  ARG    54       4.333  35.999 -12.238  1.00  0.00              
ATOM     55  CA  ASP    55       4.000  38.330 -15.088  1.00  0.00              
ATOM     56  CA  GLY    56       4.436  42.071 -14.697  1.00  0.00              
ATOM     57  CA  ASP    57       0.809  43.244 -14.184  1.00  0.00              
ATOM     58  CA  GLN    58       0.469  40.575 -11.450  1.00  0.00              
ATOM     59  CA  ARG    59       3.664  41.612  -9.710  1.00  0.00              
ATOM     60  CA  THR    60       2.479  45.151  -9.127  1.00  0.00              
ATOM     61  CA  ALA    61      -0.778  43.934  -7.582  1.00  0.00              
ATOM     62  CA  LEU    62       1.044  41.468  -5.274  1.00  0.00              
ATOM     63  CA  LEU    63       3.510  44.121  -4.090  1.00  0.00              
ATOM     64  CA  SER    64       0.556  46.326  -3.106  1.00  0.00              
ATOM     65  CA  LEU    65      -1.019  43.447  -1.185  1.00  0.00              
ATOM     66  CA  PHE    66       2.276  42.772   0.612  1.00  0.00              
ATOM     67  CA  GLU    67       2.192  46.318   1.978  1.00  0.00              
ATOM     68  CA  TYR    68      -1.182  45.546   3.610  1.00  0.00              
ATOM     69  CA  PRO    69      -0.843  45.516   7.374  1.00  0.00              
ATOM     70  CA  ASN    70      -2.835  42.352   7.956  1.00  0.00              
ATOM     71  CA  MET    71      -0.125  39.686   7.409  1.00  0.00              
ATOM     72  CA  GLN    72      -2.494  37.032   6.034  1.00  0.00              
ATOM     73  CA  VAL    73      -4.771  39.209   3.905  1.00  0.00              
ATOM     74  CA  ARG    74      -8.188  40.107   5.169  1.00  0.00              
ATOM     75  CA  LEU    75     -11.222  41.196   3.242  1.00  0.00              
ATOM     76  CA  GLN    76     -10.767  45.000   3.289  1.00  0.00              
ATOM     77  CA  ALA    77      -7.047  44.755   2.498  1.00  0.00              
ATOM     78  CA  ALA    78      -7.595  42.361  -0.411  1.00  0.00              
ATOM     79  CA  LYS    79     -10.482  44.436  -1.804  1.00  0.00              
ATOM     80  CA  LEU    80      -8.466  47.690  -1.652  1.00  0.00              
ATOM     81  CA  THR    81      -5.457  46.161  -3.433  1.00  0.00              
ATOM     82  CA  LEU    82      -7.825  44.918  -6.200  1.00  0.00              
ATOM     83  CA  ALA    83     -10.312  47.705  -7.081  1.00  0.00              
ATOM     84  CA  VAL    84     -13.765  46.760  -8.188  1.00  0.00              
ATOM     85  CA  ALA    85     -15.903  48.838 -10.501  1.00  0.00              
ATOM     86  CA  PRO    86     -18.490  51.071  -8.743  1.00  0.00              
ATOM     87  CA  VAL    87     -21.677  49.427  -9.789  1.00  0.00              
ATOM     88  CA  LYS    88     -20.483  45.928  -9.188  1.00  0.00              
ATOM     89  CA  ALA    89     -19.082  46.685  -5.708  1.00  0.00              
ATOM     90  CA  ARG    90     -22.275  48.390  -4.537  1.00  0.00              
ATOM     91  CA  GLU    91     -24.300  45.458  -5.769  1.00  0.00              
ATOM     92  CA  GLN    92     -22.027  42.972  -3.972  1.00  0.00              
ATOM     93  CA  LEU    93     -22.312  44.961  -0.674  1.00  0.00              
ATOM     94  CA  GLU    94     -26.083  45.004  -1.076  1.00  0.00              
ATOM     95  CA  ALA    95     -26.051  41.218  -1.644  1.00  0.00              
ATOM     96  CA  ILE    96     -23.937  40.694   1.478  1.00  0.00              
ATOM     97  CA  VAL    97     -26.209  42.837   3.558  1.00  0.00              
ATOM     98  CA  SER    98     -29.303  40.921   2.331  1.00  0.00              
ATOM     99  CA  SER    99     -27.843  37.445   2.875  1.00  0.00              
ATOM    100  CA  LYS   100     -26.958  37.706   6.518  1.00  0.00              
ATOM    101  CA  TRP   101     -23.111  37.700   6.154  1.00  0.00              
ATOM    102  CA  PHE   102     -22.911  41.059   7.842  1.00  0.00              
ATOM    103  CA  PRO   103     -20.806  43.583   5.986  1.00  0.00              
ATOM    104  CA  GLN   104     -18.678  44.872   8.764  1.00  0.00              
ATOM    105  CA  ALA   105     -18.041  48.591   8.741  1.00  0.00              
ATOM    106  CA  GLY   106     -14.363  48.767   7.720  1.00  0.00              
ATOM    107  CA  ASP   107     -14.904  46.829   4.499  1.00  0.00              
ATOM    108  CA  ALA   108     -18.220  48.223   3.211  1.00  0.00              
ATOM    109  CA  GLY   109     -17.844  51.921   3.892  1.00  0.00              
ATOM    110  CA  MET   110     -14.241  52.145   2.591  1.00  0.00              
ATOM    111  CA  CYS   111     -15.021  50.271  -0.597  1.00  0.00              
ATOM    112  CA  LEU   112     -18.070  52.363  -1.421  1.00  0.00              
ATOM    113  CA  ASP   113     -16.219  55.680  -0.883  1.00  0.00              
ATOM    114  CA  LEU   114     -13.438  54.387  -3.180  1.00  0.00              
ATOM    115  CA  LEU   115     -16.043  53.356  -5.819  1.00  0.00              
ATOM    116  CA  ASP   116     -17.786  56.786  -5.748  1.00  0.00              
ATOM    117  CA  ASP   117     -14.357  58.449  -6.042  1.00  0.00              
ATOM    118  CA  GLY   118     -13.329  56.463  -9.066  1.00  0.00              
ATOM    119  CA  THR   119     -10.382  54.696  -7.469  1.00  0.00              
ATOM    120  CA  PHE   120     -11.728  51.375  -8.599  1.00  0.00              
ATOM    121  CA  LYS   121      -9.931  49.280 -10.940  1.00  0.00              
ATOM    122  CA  PRO   122      -8.327  45.391 -10.675  1.00  0.00              
TER                                                                             
END
