
#######################################################
#                                                     #
#                        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  133 (  133),  selected  133 , name T0307TS599_3
# Molecule2: number of CA atoms  132 ( 1005),  selected  132 , name T0307.pdb
# PARAMETERS: T0307TS599_3.T0307.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    G       2      G       2           -
LGA    L       3      L       3           -
LGA    -       -      G       4           -
LGA    -       -      R       5           -
LGA    -       -      Q       6           -
LGA    -       -      S       7           -
LGA    -       -      L       8           -
LGA    -       -      N       9           -
LGA    G       4      I      10          4.673
LGA    R       5      M      11          1.316
LGA    Q       6      -       -           -
LGA    S       7      -       -           -
LGA    L       8      T      12           #
LGA    N       9      F      13           #
LGA    -       -      S      14           -
LGA    -       -      G      15           -
LGA    -       -      Q      16           -
LGA    I      10      E      17          3.600
LGA    M      11      L      18          2.301
LGA    T      12      T      19          3.114
LGA    F      13      A      20          4.938
LGA    S      14      I      21           -
LGA    G      15      I      22           -
LGA    Q      16      -       -           -
LGA    E      17      -       -           -
LGA    L      18      K      23          3.195
LGA    T      19      -       -           -
LGA    A      20      M      24           #
LGA    I      21      A      25          4.249
LGA    I      22      K      26          2.731
LGA    K      23      S      27          3.709
LGA    M      24      M      28          1.716
LGA    A      25      V      29          1.431
LGA    K      26      M      30          2.873
LGA    -       -      A      31           -
LGA    S      27      D      32          3.727
LGA    M      28      G      33           -
LGA    V      29      K      34           #
LGA    -       -      I      35           -
LGA    M      30      K      36          4.954
LGA    A      31      P      37          3.591
LGA    D      32      A      38          4.070
LGA    -       -      E      39           -
LGA    -       -      I      40           -
LGA    G      33      A      41          0.912
LGA    K      34      V      42          0.418
LGA    I      35      M      43          1.225
LGA    K      36      T      44          3.555
LGA    P      37      R      45           -
LGA    -       -      E      46           -
LGA    -       -      F      47           -
LGA    -       -      M      48           -
LGA    -       -      R      49           -
LGA    -       -      F      50           -
LGA    -       -      G      51           -
LGA    -       -      I      52           -
LGA    -       -      L      53           -
LGA    -       -      Q      54           -
LGA    -       -      D      55           -
LGA    -       -      Q      56           -
LGA    -       -      V      57           -
LGA    -       -      D      58           -
LGA    -       -      L      59           -
LGA    -       -      L      60           -
LGA    A      38      L      61          3.211
LGA    E      39      K      62           -
LGA    -       -      A      63           -
LGA    I      40      S      64           #
LGA    A      41      D      65           -
LGA    -       -      S      66           -
LGA    -       -      I      67           -
LGA    -       -      E      68           -
LGA    -       -      A      69           -
LGA    -       -      S      70           -
LGA    -       -      Q      71           -
LGA    V      42      A      72          2.094
LGA    M      43      V      73          3.653
LGA    T      44      A      74          3.308
LGA    R      45      L      75          3.644
LGA    E      46      I      76          4.862
LGA    F      47      A      77           #
LGA    M      48      R      78           #
LGA    R      49      -       -           -
LGA    F      50      -       -           -
LGA    G      51      -       -           -
LGA    I      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    V      57      M      79          4.921
LGA    D      58      D      80          1.154
LGA    L      59      E      81          0.932
LGA    L      60      E      82          1.284
LGA    L      61      R      83          1.421
LGA    K      62      K      84          1.010
LGA    A      63      K      85          0.467
LGA    S      64      Y      86          0.476
LGA    D      65      V      87          1.685
LGA    S      66      A      88          1.754
LGA    I      67      S      89          1.784
LGA    E      68      Y      90          1.769
LGA    A      69      L      91          1.626
LGA    S      70      G      92          1.660
LGA    Q      71      V      93          1.544
LGA    A      72      I      94          1.492
LGA    V      73      M      95          0.182
LGA    A      74      A      96          0.970
LGA    L      75      S      97          3.011
LGA    I      76      -       -           -
LGA    A      77      -       -           -
LGA    R      78      D      98          4.982
LGA    M      79      G      99           -
LGA    D      80      D     100           -
LGA    E      81      I     101           -
LGA    E      82      D     102           -
LGA    R      83      D     103           -
LGA    K      84      N     104           -
LGA    K      85      E     105           -
LGA    Y      86      L     106           -
LGA    V      87      A     107           -
LGA    A      88      L     108           -
LGA    S      89      W     109           -
LGA    Y      90      T     110           -
LGA    L      91      L     111           -
LGA    G      92      I     112           -
LGA    V      93      S     113           -
LGA    I      94      T     114           -
LGA    M      95      L     115           -
LGA    A      96      C     116           -
LGA    S      97      G     117           -
LGA    D      98      L     118           -
LGA    G      99      P     119           -
LGA    D     100      T     120           -
LGA    I     101      M     121           -
LGA    D     102      T     122           -
LGA    D     103      V     123           -
LGA    N     104      M     124           -
LGA    E     105      E     125           -
LGA    L     106      A     126           -
LGA    A     107      I     127           -
LGA    L     108      N     128           -
LGA    W     109      N     129           -
LGA    T     110      M     130           -
LGA    L     111      K     131           -
LGA    I     112      N     132           -
LGA    S     113      -       -           -
LGA    T     114      -       -           -
LGA    L     115      -       -           -
LGA    C     116      -       -           -
LGA    G     117      -       -           -
LGA    L     118      -       -           -
LGA    P     119      -       -           -
LGA    T     120      -       -           -
LGA    M     121      -       -           -
LGA    T     122      -       -           -
LGA    V     123      -       -           -
LGA    M     124      -       -           -
LGA    E     125      -       -           -
LGA    A     126      -       -           -
LGA    I     127      -       -           -
LGA    N     128      -       -           -
LGA    N     129      -       -           -
LGA    M     130      -       -           -
LGA    K     131      -       -           -
LGA    N     132      -       -           -
LGA    L     133      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  133  132    5.0     47    2.87    10.64     23.058     1.584

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.635198 * X  +   0.691299 * Y  +  -0.344427 * Z  +  19.807583
  Y_new =  -0.758578 * X  +  -0.474565 * Y  +   0.446484 * Z  +  14.793731
  Z_new =   0.145201 * X  +   0.544880 * Y  +   0.825847 * Z  +  13.666070 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.583222   -2.558371  [ DEG:    33.4162   -146.5838 ]
  Theta =  -0.145716   -2.995876  [ DEG:    -8.3489   -171.6511 ]
  Phi   =  -2.267902    0.873690  [ DEG:  -129.9412     50.0588 ]
 
# 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: T0307TS599_3                                  
REMARK     2: T0307.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS599_3.T0307.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  133  132   5.0   47   2.87   10.64  23.058
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS599_3
PFRMAT TS                                                                       
TARGET T0307                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      20.488  16.686  34.604  1.00  0.00              
ATOM      2  CA  GLY     2      17.305  17.607  36.541  1.00  0.00              
ATOM      3  CA  LEU     3      13.323  17.137  35.263  1.00  0.00              
ATOM      4  CA  GLY     4       9.771  16.664  36.566  1.00  0.00              
ATOM      5  CA  ARG     5       9.243  13.754  38.933  1.00  0.00              
ATOM      6  CA  GLN     6       7.581  11.569  36.279  1.00  0.00              
ATOM      7  CA  SER     7      10.374  12.224  33.745  1.00  0.00              
ATOM      8  CA  LEU     8      13.553  12.466  35.838  1.00  0.00              
ATOM      9  CA  ASN     9      16.515  13.496  33.639  1.00  0.00              
ATOM     10  CA  ILE    10      19.742  12.429  35.264  1.00  0.00              
ATOM     11  CA  MET    11      23.277  13.204  34.363  1.00  0.00              
ATOM     12  CA  THR    12      25.872  11.380  36.495  1.00  0.00              
ATOM     13  CA  PHE    13      29.342  10.646  35.129  1.00  0.00              
ATOM     14  CA  SER    14      31.031   7.638  36.710  1.00  0.00              
ATOM     15  CA  GLY    15      33.844   6.503  34.360  1.00  0.00              
ATOM     16  CA  GLN    16      32.061   3.489  32.906  1.00  0.00              
ATOM     17  CA  GLU    17      28.621   5.098  32.381  1.00  0.00              
ATOM     18  CA  LEU    18      29.408   8.373  30.527  1.00  0.00              
ATOM     19  CA  THR    19      31.774   6.487  28.157  1.00  0.00              
ATOM     20  CA  ALA    20      29.057   3.925  27.331  1.00  0.00              
ATOM     21  CA  ILE    21      26.591   6.762  26.674  1.00  0.00              
ATOM     22  CA  ILE    22      29.042   8.557  24.345  1.00  0.00              
ATOM     23  CA  LYS    23      29.577   5.333  22.301  1.00  0.00              
ATOM     24  CA  MET    24      25.772   4.959  22.089  1.00  0.00              
ATOM     25  CA  ALA    25      25.429   8.614  20.954  1.00  0.00              
ATOM     26  CA  LYS    26      27.770   8.041  18.057  1.00  0.00              
ATOM     27  CA  SER    27      25.835   4.911  16.943  1.00  0.00              
ATOM     28  CA  MET    28      22.494   6.861  17.103  1.00  0.00              
ATOM     29  CA  VAL    29      23.433  10.195  15.487  1.00  0.00              
ATOM     30  CA  MET    30      21.455  13.319  16.449  1.00  0.00              
ATOM     31  CA  ALA    31      21.204  16.023  13.718  1.00  0.00              
ATOM     32  CA  ASP    32      18.577  18.407  15.163  1.00  0.00              
ATOM     33  CA  GLY    33      20.176  18.409  18.594  1.00  0.00              
ATOM     34  CA  LYS    34      17.868  15.964  20.261  1.00  0.00              
ATOM     35  CA  ILE    35      20.510  13.764  22.004  1.00  0.00              
ATOM     36  CA  LYS    36      23.230  15.568  23.807  1.00  0.00              
ATOM     37  CA  PRO    37      26.834  14.996  24.200  1.00  0.00              
ATOM     38  CA  ALA    38      26.712  15.361  28.019  1.00  0.00              
ATOM     39  CA  GLU    39      24.198  12.659  28.778  1.00  0.00              
ATOM     40  CA  ILE    40      25.726  10.544  31.610  1.00  0.00              
ATOM     41  CA  ALA    41      23.892   8.455  34.144  1.00  0.00              
ATOM     42  CA  VAL    42      25.125   7.112  37.429  1.00  0.00              
ATOM     43  CA  MET    43      23.342   4.039  38.667  1.00  0.00              
ATOM     44  CA  THR    44      24.527   3.879  42.303  1.00  0.00              
ATOM     45  CA  ARG    45      23.964   7.631  42.735  1.00  0.00              
ATOM     46  CA  GLU    46      20.378   7.317  41.479  1.00  0.00              
ATOM     47  CA  PHE    47      19.455   4.463  43.741  1.00  0.00              
ATOM     48  CA  MET    48      20.785   6.148  46.877  1.00  0.00              
ATOM     49  CA  ARG    49      18.847   9.292  45.931  1.00  0.00              
ATOM     50  CA  PHE    50      15.552   7.416  45.714  1.00  0.00              
ATOM     51  CA  GLY    51      16.166   5.816  49.115  1.00  0.00              
ATOM     52  CA  ILE    52      16.739   2.168  48.434  1.00  0.00              
ATOM     53  CA  LEU    53      14.247   1.676  45.615  1.00  0.00              
ATOM     54  CA  GLN    54      11.204   3.341  47.055  1.00  0.00              
ATOM     55  CA  ASP    55       8.584   2.315  44.442  1.00  0.00              
ATOM     56  CA  GLN    56       8.199   5.916  43.224  1.00  0.00              
ATOM     57  CA  VAL    57      11.903   6.876  42.838  1.00  0.00              
ATOM     58  CA  ASP    58      12.998   3.860  40.835  1.00  0.00              
ATOM     59  CA  LEU    59       9.832   3.895  38.651  1.00  0.00              
ATOM     60  CA  LEU    60       9.484   7.478  37.328  1.00  0.00              
ATOM     61  CA  LEU    61      13.252   7.425  36.575  1.00  0.00              
ATOM     62  CA  LYS    62      13.125   4.111  34.696  1.00  0.00              
ATOM     63  CA  ALA    63      10.121   5.014  32.539  1.00  0.00              
ATOM     64  CA  SER    64      11.585   8.399  31.535  1.00  0.00              
ATOM     65  CA  ASP    65      14.667   6.766  30.108  1.00  0.00              
ATOM     66  CA  SER    66      12.984   4.182  27.963  1.00  0.00              
ATOM     67  CA  ILE    67      10.550   6.348  25.963  1.00  0.00              
ATOM     68  CA  GLU    68      13.205   9.062  25.559  1.00  0.00              
ATOM     69  CA  ALA    69      15.968   6.866  24.133  1.00  0.00              
ATOM     70  CA  SER    70      13.887   5.258  21.455  1.00  0.00              
ATOM     71  CA  GLN    71      12.504   8.624  20.290  1.00  0.00              
ATOM     72  CA  ALA    72      15.932  10.244  20.066  1.00  0.00              
ATOM     73  CA  VAL    73      17.778   7.860  17.787  1.00  0.00              
ATOM     74  CA  ALA    74      14.725   7.805  15.492  1.00  0.00              
ATOM     75  CA  LEU    75      14.389  11.580  15.295  1.00  0.00              
ATOM     76  CA  ILE    76      18.093  12.030  14.404  1.00  0.00              
ATOM     77  CA  ALA    77      17.790   9.370  11.657  1.00  0.00              
ATOM     78  CA  ARG    78      14.825  11.241  10.119  1.00  0.00              
ATOM     79  CA  MET    79      16.663  14.591  10.180  1.00  0.00              
ATOM     80  CA  ASP    80      19.805  13.269   8.411  1.00  0.00              
ATOM     81  CA  GLU    81      17.914  11.580   5.595  1.00  0.00              
ATOM     82  CA  GLU    82      15.884  14.741   4.935  1.00  0.00              
ATOM     83  CA  ARG    83      19.044  16.853   4.801  1.00  0.00              
ATOM     84  CA  LYS    84      20.666  14.445   2.366  1.00  0.00              
ATOM     85  CA  LYS    85      17.582  14.499   0.137  1.00  0.00              
ATOM     86  CA  TYR    86      17.382  18.311   0.079  1.00  0.00              
ATOM     87  CA  VAL    87      21.086  18.481  -0.616  1.00  0.00              
ATOM     88  CA  ALA    88      20.889  15.968  -3.518  1.00  0.00              
ATOM     89  CA  SER    89      18.058  17.966  -5.058  1.00  0.00              
ATOM     90  CA  TYR    90      20.009  21.239  -4.741  1.00  0.00              
ATOM     91  CA  LEU    91      23.138  19.841  -6.297  1.00  0.00              
ATOM     92  CA  GLY    92      21.063  18.469  -9.174  1.00  0.00              
ATOM     93  CA  VAL    93      19.542  21.935  -9.780  1.00  0.00              
ATOM     94  CA  ILE    94      22.489  24.412  -9.547  1.00  0.00              
ATOM     95  CA  MET    95      21.368  27.935 -10.238  1.00  0.00              
ATOM     96  CA  ALA    96      23.106  31.194  -9.512  1.00  0.00              
ATOM     97  CA  SER    97      22.756  34.126 -11.925  1.00  0.00              
ATOM     98  CA  ASP    98      26.456  34.544 -12.679  1.00  0.00              
ATOM     99  CA  GLY    99      27.090  30.798 -12.615  1.00  0.00              
ATOM    100  CA  ASP   100      28.930  30.591  -9.327  1.00  0.00              
ATOM    101  CA  ILE   101      26.794  28.226  -7.339  1.00  0.00              
ATOM    102  CA  ASP   102      26.220  29.006  -3.718  1.00  0.00              
ATOM    103  CA  ASP   103      26.000  25.554  -2.145  1.00  0.00              
ATOM    104  CA  ASN   104      22.344  26.021  -1.080  1.00  0.00              
ATOM    105  CA  GLU   105      21.091  27.206  -4.467  1.00  0.00              
ATOM    106  CA  LEU   106      18.413  25.086  -6.094  1.00  0.00              
ATOM    107  CA  ALA   107      17.788  25.703  -9.762  1.00  0.00              
ATOM    108  CA  LEU   108      14.896  24.942 -12.011  1.00  0.00              
ATOM    109  CA  TRP   109      16.000  24.509 -15.645  1.00  0.00              
ATOM    110  CA  THR   110      13.883  27.271 -17.242  1.00  0.00              
ATOM    111  CA  LEU   111      14.988  29.622 -14.438  1.00  0.00              
ATOM    112  CA  ILE   112      18.624  28.651 -14.419  1.00  0.00              
ATOM    113  CA  SER   113      19.022  28.781 -18.161  1.00  0.00              
ATOM    114  CA  THR   114      17.404  32.216 -18.228  1.00  0.00              
ATOM    115  CA  LEU   115      19.585  33.681 -15.433  1.00  0.00              
ATOM    116  CA  CYS   116      22.813  32.390 -16.954  1.00  0.00              
ATOM    117  CA  GLY   117      22.008  33.137 -20.579  1.00  0.00              
ATOM    118  CA  LEU   118      22.098  29.422 -21.492  1.00  0.00              
ATOM    119  CA  PRO   119      19.656  28.231 -24.073  1.00  0.00              
ATOM    120  CA  THR   120      16.687  26.566 -22.280  1.00  0.00              
ATOM    121  CA  MET   121      17.283  23.123 -23.753  1.00  0.00              
ATOM    122  CA  THR   122      21.011  22.949 -23.028  1.00  0.00              
ATOM    123  CA  VAL   123      20.949  23.685 -19.315  1.00  0.00              
ATOM    124  CA  MET   124      17.851  21.475 -18.856  1.00  0.00              
ATOM    125  CA  GLU   125      19.584  18.549 -20.616  1.00  0.00              
ATOM    126  CA  ALA   126      22.591  19.010 -18.294  1.00  0.00              
ATOM    127  CA  ILE   127      20.220  19.005 -15.282  1.00  0.00              
ATOM    128  CA  ASN   128      18.589  15.749 -16.517  1.00  0.00              
ATOM    129  CA  ASN   129      22.016  14.173 -16.810  1.00  0.00              
ATOM    130  CA  MET   130      23.052  15.227 -13.254  1.00  0.00              
ATOM    131  CA  LYS   131      19.533  13.205 -12.083  1.00  0.00              
ATOM    132  CA  ASN   132      22.799  14.799 -11.622  1.00  0.00              
ATOM    133  CA  LEU   133      26.478  13.310 -12.684  1.00  0.00              
TER                                                                             
END
