
#######################################################
#                                                     #
#                        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  103 (  103),  selected  103 , name T0314TS599_3-D1
# Molecule2: number of CA atoms  103 ( 1643),  selected  103 , name T0314_D1.pdb
# PARAMETERS: T0314TS599_3-D1.T0314_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      S       2           -
LGA    M       1      I       3          0.576
LGA    S       2      T       4          2.275
LGA    I       3      S       5          2.430
LGA    T       4      T       6           -
LGA    S       5      -       -           -
LGA    T       6      D       7           #
LGA    D       7      I       8          5.169
LGA    I       8      C       9          4.656
LGA    C       9      Q      10          2.727
LGA    Q      10      A      11          2.132
LGA    A      11      A      12          2.998
LGA    A      12      D      13          4.211
LGA    D      13      A      14          3.755
LGA    A      14      L      15          3.955
LGA    L      15      K      16           -
LGA    -       -      G      17           -
LGA    -       -      F      18           -
LGA    -       -      V      19           -
LGA    -       -      G      20           -
LGA    -       -      F      21           -
LGA    -       -      N      22           -
LGA    -       -      R      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    -       -      R      27           -
LGA    -       -      Y      28           -
LGA    -       -      I      29           -
LGA    -       -      V      30           -
LGA    -       -      R      31           -
LGA    -       -      F      32           -
LGA    -       -      S      33           -
LGA    -       -      E      34           -
LGA    -       -      D      35           -
LGA    -       -      S      36           -
LGA    -       -      F      37           -
LGA    -       -      G      38           -
LGA    -       -      M      39           -
LGA    -       -      D      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      D      43           -
LGA    -       -      D      44           -
LGA    -       -      S      45           -
LGA    -       -      I      46           -
LGA    -       -      T      47           -
LGA    -       -      P      48           -
LGA    K      16      T      49           #
LGA    G      17      S      50          1.933
LGA    -       -      E      51           -
LGA    F      18      F      52          1.110
LGA    -       -      V      53           -
LGA    V      19      W      54          2.384
LGA    G      20      S      55          1.723
LGA    F      21      S      56          1.791
LGA    N      22      V      57          2.749
LGA    R      23      R      58          3.502
LGA    K      24      D      59          4.872
LGA    T      25      -       -           -
LGA    G      26      D      60          2.131
LGA    R      27      V      61          0.157
LGA    Y      28      M      62          1.111
LGA    I      29      R      63          1.809
LGA    V      30      L      64          2.100
LGA    R      31      G      65          0.855
LGA    F      32      R      66          1.164
LGA    S      33      E      67          2.477
LGA    E      34      Q      68           -
LGA    -       -      L      69           -
LGA    -       -      Q      70           -
LGA    -       -      I      71           -
LGA    -       -      L      72           -
LGA    D      35      L      73           #
LGA    -       -      E      74           -
LGA    -       -      Q      75           -
LGA    -       -      N      76           -
LGA    -       -      I      77           -
LGA    -       -      N      78           -
LGA    -       -      E      79           -
LGA    -       -      R      80           -
LGA    -       -      L      81           -
LGA    -       -      N      82           -
LGA    -       -      I      83           -
LGA    -       -      G      84           -
LGA    -       -      E      85           -
LGA    -       -      P      86           -
LGA    S      36      L      87           #
LGA    F      37      L      88          1.390
LGA    G      38      V      89          1.683
LGA    M      39      Y      90          3.960
LGA    -       -      L      91           -
LGA    -       -      R      92           -
LGA    -       -      R      93           -
LGA    D      40      Q      94          2.324
LGA    V      41      D      95          3.134
LGA    A      42      L      96          3.554
LGA    D      43      -       -           -
LGA    D      44      -       -           -
LGA    S      45      -       -           -
LGA    I      46      -       -           -
LGA    T      47      P      97          0.754
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    S      50      -       -           -
LGA    E      51      -       -           -
LGA    F      52      -       -           -
LGA    V      53      E      98          3.278
LGA    W      54      I      99          2.275
LGA    S      55      T     100          1.491
LGA    S      56      A     101          1.239
LGA    V      57      Q     102          4.289
LGA    R      58      R     103           #
LGA    D      59      -       -           -
LGA    D      60      -       -           -
LGA    V      61      -       -           -
LGA    M      62      -       -           -
LGA    R      63      -       -           -
LGA    L      64      -       -           -
LGA    G      65      -       -           -
LGA    R      66      -       -           -
LGA    E      67      -       -           -
LGA    Q      68      -       -           -
LGA    L      69      -       -           -
LGA    Q      70      -       -           -
LGA    I      71      -       -           -
LGA    L      72      -       -           -
LGA    L      73      -       -           -
LGA    E      74      -       -           -
LGA    Q      75      -       -           -
LGA    N      76      -       -           -
LGA    I      77      -       -           -
LGA    N      78      -       -           -
LGA    E      79      -       -           -
LGA    R      80      -       -           -
LGA    L      81      -       -           -
LGA    N      82      -       -           -
LGA    I      83      -       -           -
LGA    G      84      -       -           -
LGA    E      85      -       -           -
LGA    P      86      -       -           -
LGA    L      87      -       -           -
LGA    L      88      -       -           -
LGA    V      89      -       -           -
LGA    Y      90      -       -           -
LGA    L      91      -       -           -
LGA    R      92      -       -           -
LGA    R      93      -       -           -
LGA    Q      94      -       -           -
LGA    D      95      -       -           -
LGA    L      96      -       -           -
LGA    P      97      -       -           -
LGA    E      98      -       -           -
LGA    I      99      -       -           -
LGA    T     100      -       -           -
LGA    A     101      -       -           -
LGA    Q     102      -       -           -
LGA    R     103      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  103  103    5.0     39    2.76     7.69     24.583     1.363

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.241489 * X  +   0.778972 * Y  +   0.578694 * Z  +  12.623685
  Y_new =   0.833476 * X  +   0.138920 * Y  +  -0.534807 * Z  +  13.394671
  Z_new =  -0.496992 * X  +   0.611477 * Y  +  -0.615707 * Z  + -15.433893 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.359641   -0.781952  [ DEG:   135.1975    -44.8025 ]
  Theta =   0.520129    2.621464  [ DEG:    29.8012    150.1988 ]
  Phi   =   1.288782   -1.852811  [ DEG:    73.8418   -106.1582 ]
 
# 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: T0314TS599_3-D1                               
REMARK     2: T0314_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS599_3-D1.T0314_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  103  103   5.0   39   2.76    7.69  24.583
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS599_3-D1
PFRMAT TS                                                                       
TARGET T0314                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -0.201   6.098  -3.675  1.00  0.00              
ATOM      2  CA  SER     2       1.214  10.057  -3.816  1.00  0.00              
ATOM      3  CA  ILE     3       3.094  11.098  -0.857  1.00  0.00              
ATOM      4  CA  THR     4       6.031  11.253   2.091  1.00  0.00              
ATOM      5  CA  SER     5       8.837  13.506   1.000  1.00  0.00              
ATOM      6  CA  THR     6      11.160  10.542   0.646  1.00  0.00              
ATOM      7  CA  ASP     7       8.901   8.733  -1.786  1.00  0.00              
ATOM      8  CA  ILE     8       8.480  11.730  -4.038  1.00  0.00              
ATOM      9  CA  CYS     9      12.222  12.454  -4.093  1.00  0.00              
ATOM     10  CA  GLN    10      13.079   8.847  -4.974  1.00  0.00              
ATOM     11  CA  ALA    11      10.513   8.724  -7.814  1.00  0.00              
ATOM     12  CA  ALA    12      11.769  12.026  -9.076  1.00  0.00              
ATOM     13  CA  ASP    13      15.361  10.708  -9.195  1.00  0.00              
ATOM     14  CA  ALA    14      14.325   7.810 -11.445  1.00  0.00              
ATOM     15  CA  LEU    15      12.361  10.156 -13.770  1.00  0.00              
ATOM     16  CA  LYS    16      15.321  12.534 -14.007  1.00  0.00              
ATOM     17  CA  GLY    17      17.750   9.835 -15.069  1.00  0.00              
ATOM     18  CA  PHE    18      15.408   9.077 -18.043  1.00  0.00              
ATOM     19  CA  VAL    19      14.512  12.557 -19.098  1.00  0.00              
ATOM     20  CA  GLY    20      12.691  13.678 -22.180  1.00  0.00              
ATOM     21  CA  PHE    21      13.139  17.308 -22.992  1.00  0.00              
ATOM     22  CA  ASN    22      10.650  19.455 -24.787  1.00  0.00              
ATOM     23  CA  ARG    23      12.387  22.260 -26.625  1.00  0.00              
ATOM     24  CA  LYS    24       9.533  24.544 -27.448  1.00  0.00              
ATOM     25  CA  THR    25       8.020  24.707 -24.017  1.00  0.00              
ATOM     26  CA  GLY    26      10.936  24.004 -21.597  1.00  0.00              
ATOM     27  CA  ARG    27       9.086  21.122 -20.033  1.00  0.00              
ATOM     28  CA  TYR    28      10.727  17.974 -18.812  1.00  0.00              
ATOM     29  CA  ILE    29       8.986  14.715 -19.404  1.00  0.00              
ATOM     30  CA  VAL    30       9.857  11.679 -17.398  1.00  0.00              
ATOM     31  CA  ARG    31       8.146   8.456 -18.289  1.00  0.00              
ATOM     32  CA  PHE    32       7.807   5.642 -15.816  1.00  0.00              
ATOM     33  CA  SER    33       7.295   2.151 -17.094  1.00  0.00              
ATOM     34  CA  GLU    34       4.112   0.366 -16.213  1.00  0.00              
ATOM     35  CA  ASP    35       5.639  -1.888 -13.509  1.00  0.00              
ATOM     36  CA  SER    36       7.443   0.675 -11.480  1.00  0.00              
ATOM     37  CA  PHE    37       6.206   2.291  -8.300  1.00  0.00              
ATOM     38  CA  GLY    38       2.795   3.832  -8.042  1.00  0.00              
ATOM     39  CA  MET    39       2.543   7.430  -6.734  1.00  0.00              
ATOM     40  CA  ASP    40      -0.230   9.806  -7.979  1.00  0.00              
ATOM     41  CA  VAL    41       1.119  13.219  -8.684  1.00  0.00              
ATOM     42  CA  ALA    42      -1.434  15.965  -8.467  1.00  0.00              
ATOM     43  CA  ASP    43      -0.459  19.563  -8.921  1.00  0.00              
ATOM     44  CA  ASP    44      -2.383  19.968 -12.208  1.00  0.00              
ATOM     45  CA  SER    45      -0.609  17.263 -14.069  1.00  0.00              
ATOM     46  CA  ILE    46      -2.860  14.251 -13.945  1.00  0.00              
ATOM     47  CA  THR    47      -0.647  11.222 -13.991  1.00  0.00              
ATOM     48  CA  PRO    48      -2.033   7.803 -13.278  1.00  0.00              
ATOM     49  CA  THR    49      -0.016   5.700 -10.910  1.00  0.00              
ATOM     50  CA  SER    50       0.143   2.482 -12.996  1.00  0.00              
ATOM     51  CA  GLU    51       1.101   4.465 -16.125  1.00  0.00              
ATOM     52  CA  PHE    52       3.625   6.864 -14.724  1.00  0.00              
ATOM     53  CA  VAL    53       4.048  10.105 -16.378  1.00  0.00              
ATOM     54  CA  TRP    54       6.167  12.772 -14.845  1.00  0.00              
ATOM     55  CA  SER    55       5.778  16.191 -16.278  1.00  0.00              
ATOM     56  CA  SER    56       7.629  19.187 -14.966  1.00  0.00              
ATOM     57  CA  VAL    57       5.150  21.914 -15.573  1.00  0.00              
ATOM     58  CA  ARG    58       5.976  24.915 -13.477  1.00  0.00              
ATOM     59  CA  ASP    59       2.370  26.019 -12.873  1.00  0.00              
ATOM     60  CA  ASP    60       1.392  22.655 -11.259  1.00  0.00              
ATOM     61  CA  VAL    61       4.233  22.361  -8.823  1.00  0.00              
ATOM     62  CA  MET    62       7.047  20.070  -7.973  1.00  0.00              
ATOM     63  CA  ARG    63       8.033  20.126  -4.273  1.00  0.00              
ATOM     64  CA  LEU    64      11.734  19.180  -3.759  1.00  0.00              
ATOM     65  CA  GLY    65      12.738  17.646  -0.455  1.00  0.00              
ATOM     66  CA  ARG    66      15.917  19.096   1.153  1.00  0.00              
ATOM     67  CA  GLU    67      18.041  15.974   0.742  1.00  0.00              
ATOM     68  CA  GLN    68      17.105  15.799  -2.954  1.00  0.00              
ATOM     69  CA  LEU    69      17.931  19.477  -3.676  1.00  0.00              
ATOM     70  CA  GLN    70      21.391  19.225  -2.101  1.00  0.00              
ATOM     71  CA  ILE    71      22.057  16.074  -4.167  1.00  0.00              
ATOM     72  CA  LEU    72      20.876  17.802  -7.418  1.00  0.00              
ATOM     73  CA  LEU    73      23.186  20.784  -6.685  1.00  0.00              
ATOM     74  CA  GLU    74      26.422  19.061  -5.554  1.00  0.00              
ATOM     75  CA  GLN    75      26.745  16.603  -8.473  1.00  0.00              
ATOM     76  CA  ASN    76      25.787  19.337 -10.930  1.00  0.00              
ATOM     77  CA  ILE    77      22.509  18.089 -12.387  1.00  0.00              
ATOM     78  CA  ASN    78      23.912  17.835 -15.962  1.00  0.00              
ATOM     79  CA  GLU    79      26.597  15.454 -14.666  1.00  0.00              
ATOM     80  CA  ARG    80      24.189  13.131 -12.772  1.00  0.00              
ATOM     81  CA  LEU    81      21.926  12.888 -15.854  1.00  0.00              
ATOM     82  CA  ASN    82      23.786  13.042 -19.177  1.00  0.00              
ATOM     83  CA  ILE    83      22.427  15.843 -21.320  1.00  0.00              
ATOM     84  CA  GLY    84      24.954  17.204 -23.721  1.00  0.00              
ATOM     85  CA  GLU    85      23.009  17.254 -26.928  1.00  0.00              
ATOM     86  CA  PRO    86      20.020  19.340 -27.829  1.00  0.00              
ATOM     87  CA  LEU    87      16.667  18.279 -26.542  1.00  0.00              
ATOM     88  CA  LEU    88      14.273  18.881 -29.500  1.00  0.00              
ATOM     89  CA  VAL    89      16.598  17.104 -31.975  1.00  0.00              
ATOM     90  CA  TYR    90      17.211  14.073 -29.661  1.00  0.00              
ATOM     91  CA  LEU    91      13.471  13.700 -28.835  1.00  0.00              
ATOM     92  CA  ARG    92      12.152  13.984 -32.410  1.00  0.00              
ATOM     93  CA  ARG    93      14.299  11.413 -34.268  1.00  0.00              
ATOM     94  CA  GLN    94      13.654   8.688 -31.662  1.00  0.00              
ATOM     95  CA  ASP    95      17.155   7.174 -31.640  1.00  0.00              
ATOM     96  CA  LEU    96      18.843  10.313 -30.255  1.00  0.00              
ATOM     97  CA  PRO    97      20.235   8.778 -27.041  1.00  0.00              
ATOM     98  CA  GLU    98      21.926   6.057 -29.043  1.00  0.00              
ATOM     99  CA  ILE    99      23.502   8.519 -31.518  1.00  0.00              
ATOM    100  CA  THR   100      24.827  10.729 -28.675  1.00  0.00              
ATOM    101  CA  ALA   101      26.259   7.848 -26.743  1.00  0.00              
ATOM    102  CA  GLN   102      28.151   6.264 -29.677  1.00  0.00              
ATOM    103  CA  ARG   103      29.794   9.549 -30.703  1.00  0.00              
TER                                                                             
END
