
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0352TS599_3
# Molecule2: number of CA atoms  109 ( 1766),  selected  109 , name T0352.pdb
# PARAMETERS: T0352TS599_3.T0352.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    T       3      T       3           -
LGA    -       -      H       4           -
LGA    -       -      D       5           -
LGA    -       -      R       6           -
LGA    H       4      V       7           #
LGA    D       5      R       8          3.783
LGA    -       -      L       9           -
LGA    R       6      Q      10          3.457
LGA    V       7      L      11          3.185
LGA    R       8      Q      12          0.547
LGA    L       9      A      13          1.533
LGA    Q      10      L      14          2.911
LGA    L      11      E      15          3.885
LGA    Q      12      A      16          4.809
LGA    A      13      -       -           -
LGA    L      14      L      17          4.806
LGA    E      15      L      18           -
LGA    A      16      R      19           -
LGA    L      17      E      20           #
LGA    L      18      -       -           -
LGA    R      19      -       -           -
LGA    E      20      -       -           -
LGA    H      21      -       -           -
LGA    Q      22      -       -           -
LGA    H      23      -       -           -
LGA    W      24      -       -           -
LGA    R      25      -       -           -
LGA    N      26      -       -           -
LGA    D      27      -       -           -
LGA    E      28      -       -           -
LGA    P      29      -       -           -
LGA    Q      30      -       -           -
LGA    P      31      -       -           -
LGA    H      32      -       -           -
LGA    Q      33      -       -           -
LGA    F      34      -       -           -
LGA    N      35      -       -           -
LGA    S      36      -       -           -
LGA    T      37      -       -           -
LGA    Q      38      -       -           -
LGA    P      39      H      21           #
LGA    F      40      Q      22          2.509
LGA    F      41      H      23          1.536
LGA    M      42      W      24          1.129
LGA    D      43      R      25          3.158
LGA    T      44      N      26          3.189
LGA    M      45      D      27           -
LGA    -       -      E      28           -
LGA    E      46      P      29           #
LGA    P      47      Q      30           -
LGA    -       -      P      31           -
LGA    -       -      H      32           -
LGA    -       -      Q      33           -
LGA    L      48      F      34           #
LGA    E      49      N      35          3.357
LGA    W      50      S      36          4.943
LGA    L      51      T      37          3.031
LGA    Q      52      -       -           -
LGA    W      53      Q      38          1.306
LGA    V      54      P      39          0.694
LGA    L      55      F      40          3.792
LGA    I      56      F      41          0.921
LGA    P      57      M      42          4.385
LGA    R      58      -       -           -
LGA    M      59      -       -           -
LGA    H      60      -       -           -
LGA    D      61      -       -           -
LGA    L      62      -       -           -
LGA    L      63      -       -           -
LGA    D      64      -       -           -
LGA    N      65      -       -           -
LGA    K      66      -       -           -
LGA    Q      67      -       -           -
LGA    P      68      -       -           -
LGA    L      69      -       -           -
LGA    P      70      -       -           -
LGA    G      71      -       -           -
LGA    A      72      -       -           -
LGA    F      73      -       -           -
LGA    A      74      -       -           -
LGA    V      75      -       -           -
LGA    A      76      -       -           -
LGA    P      77      -       -           -
LGA    Y      78      -       -           -
LGA    Y      79      D      43          4.898
LGA    E      80      -       -           -
LGA    M      81      -       -           -
LGA    A      82      -       -           -
LGA    L      83      T      44          3.569
LGA    A      84      -       -           -
LGA    T      85      -       -           -
LGA    D      86      M      45           #
LGA    H      87      E      46          3.617
LGA    P      88      P      47          1.665
LGA    Q      89      L      48          3.108
LGA    R      90      E      49           #
LGA    A      91      W      50           #
LGA    -       -      L      51           -
LGA    L      92      Q      52          4.530
LGA    I      93      W      53          5.047
LGA    L      94      -       -           -
LGA    A      95      V      54          4.742
LGA    E      96      L      55          3.322
LGA    L      97      I      56          3.937
LGA    E      98      P      57          4.250
LGA    K      99      R      58          2.494
LGA    L     100      M      59          2.223
LGA    D     101      H      60          2.058
LGA    A     102      D      61          2.910
LGA    L     103      L      62          3.556
LGA    F     104      -       -           -
LGA    A     105      L      63          3.774
LGA    D     106      D      64           -
LGA    -       -      N      65           -
LGA    -       -      K      66           -
LGA    D     107      Q      67           #
LGA    A     108      P      68          5.048
LGA    S     109      L      69          4.493
LGA    L     110      P      70          1.540
LGA    E     111      G      71          2.339
LGA    H     112      A      72          2.066
LGA    -       -      F      73           -
LGA    H     113      A      74          4.930
LGA    H     114      V      75           -
LGA    -       -      A      76           -
LGA    -       -      P      77           -
LGA    -       -      Y      78           -
LGA    -       -      Y      79           -
LGA    -       -      E      80           -
LGA    -       -      M      81           -
LGA    -       -      A      82           -
LGA    -       -      L      83           -
LGA    -       -      A      84           -
LGA    -       -      T      85           -
LGA    -       -      D      86           -
LGA    -       -      H      87           -
LGA    -       -      P      88           -
LGA    -       -      Q      89           -
LGA    -       -      R      90           -
LGA    -       -      A      91           -
LGA    -       -      L      92           -
LGA    -       -      I      93           -
LGA    -       -      L      94           -
LGA    -       -      A      95           -
LGA    -       -      E      96           -
LGA    -       -      L      97           -
LGA    -       -      E      98           -
LGA    -       -      K      99           -
LGA    -       -      L     100           -
LGA    -       -      D     101           -
LGA    -       -      A     102           -
LGA    -       -      L     103           -
LGA    H     115      F     104          4.023
LGA    H     116      A     105          3.929
LGA    H     117      D     106          3.691
LGA    -       -      D     107           -
LGA    -       -      A     108           -
LGA    -       -      S     109           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117  109    5.0     48    3.46     6.25     23.793     1.349

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.261369 * X  +  -0.254336 * Y  +  -0.931128 * Z  + -13.394792
  Y_new =   0.696829 * X  +   0.617800 * Y  +  -0.364352 * Z  +  12.838192
  Z_new =   0.667918 * X  +  -0.744068 * Y  +   0.015755 * Z  +  -4.867353 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.549626    1.591967  [ DEG:   -88.7870     91.2130 ]
  Theta =  -0.731408   -2.410185  [ DEG:   -41.9066   -138.0934 ]
  Phi   =   1.929640   -1.211952  [ DEG:   110.5602    -69.4398 ]
 
# 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: T0352TS599_3                                  
REMARK     2: T0352.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0352TS599_3.T0352.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117  109   5.0   48   3.46    6.25  23.793
REMARK  ---------------------------------------------------------- 
MOLECULE T0352TS599_3
PFRMAT TS                                                                       
TARGET T0352                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -13.339   9.454   2.747  1.00  0.00              
ATOM      2  CA  THR     2     -12.366   6.944   0.168  1.00  0.00              
ATOM      3  CA  THR     3     -10.125   4.283  -0.699  1.00  0.00              
ATOM      4  CA  HIS     4      -7.312   5.814  -3.421  1.00  0.00              
ATOM      5  CA  ASP     5      -7.956   2.692  -5.548  1.00  0.00              
ATOM      6  CA  ARG     6     -11.695   3.277  -5.288  1.00  0.00              
ATOM      7  CA  VAL     7     -11.314   6.953  -6.304  1.00  0.00              
ATOM      8  CA  ARG     8      -9.180   6.111  -9.285  1.00  0.00              
ATOM      9  CA  LEU     9     -11.681   3.531 -10.384  1.00  0.00              
ATOM     10  CA  GLN    10     -14.575   5.987 -10.038  1.00  0.00              
ATOM     11  CA  LEU    11     -12.799   8.699 -12.027  1.00  0.00              
ATOM     12  CA  GLN    12     -12.016   6.222 -14.809  1.00  0.00              
ATOM     13  CA  ALA    13     -15.673   5.070 -14.901  1.00  0.00              
ATOM     14  CA  LEU    14     -16.873   8.628 -15.125  1.00  0.00              
ATOM     15  CA  GLU    15     -14.435   9.370 -17.910  1.00  0.00              
ATOM     16  CA  ALA    16     -15.567   6.392 -19.928  1.00  0.00              
ATOM     17  CA  LEU    17     -19.239   7.396 -19.545  1.00  0.00              
ATOM     18  CA  LEU    18     -18.565  10.985 -20.538  1.00  0.00              
ATOM     19  CA  ARG    19     -16.645   9.871 -23.634  1.00  0.00              
ATOM     20  CA  GLU    20     -19.305   7.368 -24.669  1.00  0.00              
ATOM     21  CA  HIS    21     -21.952   9.998 -24.266  1.00  0.00              
ATOM     22  CA  GLN    22     -20.105  12.694 -26.210  1.00  0.00              
ATOM     23  CA  HIS    23     -20.406  15.001 -23.310  1.00  0.00              
ATOM     24  CA  TRP    24     -17.089  14.899 -21.564  1.00  0.00              
ATOM     25  CA  ARG    25     -16.705  18.615 -20.928  1.00  0.00              
ATOM     26  CA  ASN    26     -20.379  18.890 -19.876  1.00  0.00              
ATOM     27  CA  ASP    27     -20.403  16.383 -17.015  1.00  0.00              
ATOM     28  CA  GLU    28     -22.653  17.650 -14.272  1.00  0.00              
ATOM     29  CA  PRO    29     -23.743  14.987 -11.920  1.00  0.00              
ATOM     30  CA  GLN    30     -27.399  14.200 -12.076  1.00  0.00              
ATOM     31  CA  PRO    31     -29.875  15.833  -9.737  1.00  0.00              
ATOM     32  CA  HIS    32     -30.671  12.420  -8.240  1.00  0.00              
ATOM     33  CA  GLN    33     -27.005  11.914  -7.245  1.00  0.00              
ATOM     34  CA  PHE    34     -26.872  15.330  -5.582  1.00  0.00              
ATOM     35  CA  ASN    35     -30.079  14.752  -3.584  1.00  0.00              
ATOM     36  CA  SER    36     -28.918  11.353  -2.282  1.00  0.00              
ATOM     37  CA  THR    37     -25.512  12.312  -1.005  1.00  0.00              
ATOM     38  CA  GLN    38     -23.147  10.900  -3.652  1.00  0.00              
ATOM     39  CA  PRO    39     -21.089  13.717  -5.028  1.00  0.00              
ATOM     40  CA  PHE    40     -21.006  14.083  -8.842  1.00  0.00              
ATOM     41  CA  PHE    41     -19.141  17.046 -10.333  1.00  0.00              
ATOM     42  CA  MET    42     -17.030  16.602 -13.410  1.00  0.00              
ATOM     43  CA  ASP    43     -16.709  19.637 -15.601  1.00  0.00              
ATOM     44  CA  THR    44     -13.011  19.280 -16.581  1.00  0.00              
ATOM     45  CA  MET    45     -11.877  17.591 -13.341  1.00  0.00              
ATOM     46  CA  GLU    46      -8.296  16.274 -13.612  1.00  0.00              
ATOM     47  CA  PRO    47      -7.526  12.876 -12.075  1.00  0.00              
ATOM     48  CA  LEU    48      -5.236  14.304  -9.356  1.00  0.00              
ATOM     49  CA  GLU    49      -7.817  16.943  -8.332  1.00  0.00              
ATOM     50  CA  TRP    50     -10.407  14.203  -8.122  1.00  0.00              
ATOM     51  CA  LEU    51      -8.166  12.214  -5.809  1.00  0.00              
ATOM     52  CA  GLN    52      -7.540  15.157  -3.498  1.00  0.00              
ATOM     53  CA  TRP    53     -11.282  15.798  -3.422  1.00  0.00              
ATOM     54  CA  VAL    54     -12.155  12.168  -2.581  1.00  0.00              
ATOM     55  CA  LEU    55      -9.978  12.285   0.572  1.00  0.00              
ATOM     56  CA  ILE    56     -10.903  15.721   1.800  1.00  0.00              
ATOM     57  CA  PRO    57     -12.066  16.584   5.249  1.00  0.00              
ATOM     58  CA  ARG    58     -14.012  19.733   4.297  1.00  0.00              
ATOM     59  CA  MET    59     -15.788  17.882   1.470  1.00  0.00              
ATOM     60  CA  HIS    60     -16.836  15.028   3.642  1.00  0.00              
ATOM     61  CA  ASP    61     -18.210  17.352   6.292  1.00  0.00              
ATOM     62  CA  LEU    62     -20.219  19.395   3.727  1.00  0.00              
ATOM     63  CA  LEU    63     -21.716  16.368   2.098  1.00  0.00              
ATOM     64  CA  ASP    64     -22.578  14.756   5.434  1.00  0.00              
ATOM     65  CA  ASN    65     -24.244  17.943   6.755  1.00  0.00              
ATOM     66  CA  LYS    66     -26.681  18.307   3.906  1.00  0.00              
ATOM     67  CA  GLN    67     -25.620  21.826   2.728  1.00  0.00              
ATOM     68  CA  PRO    68     -27.514  22.149  -0.486  1.00  0.00              
ATOM     69  CA  LEU    69     -25.403  22.230  -3.578  1.00  0.00              
ATOM     70  CA  PRO    70     -26.956  25.055  -5.646  1.00  0.00              
ATOM     71  CA  GLY    71     -28.672  23.697  -8.706  1.00  0.00              
ATOM     72  CA  ALA    72     -26.083  24.198 -11.382  1.00  0.00              
ATOM     73  CA  PHE    73     -22.958  23.596  -9.208  1.00  0.00              
ATOM     74  CA  ALA    74     -19.574  24.441 -10.633  1.00  0.00              
ATOM     75  CA  VAL    75     -17.296  22.265  -8.579  1.00  0.00              
ATOM     76  CA  ALA    76     -13.846  23.762  -9.371  1.00  0.00              
ATOM     77  CA  PRO    77     -14.302  27.073  -7.615  1.00  0.00              
ATOM     78  CA  TYR    78     -15.803  25.475  -4.469  1.00  0.00              
ATOM     79  CA  TYR    79     -13.020  22.937  -4.214  1.00  0.00              
ATOM     80  CA  GLU    80     -10.264  25.436  -4.666  1.00  0.00              
ATOM     81  CA  MET    81     -11.654  27.795  -2.024  1.00  0.00              
ATOM     82  CA  ALA    82     -12.095  25.129   0.593  1.00  0.00              
ATOM     83  CA  LEU    83      -8.680  23.696   0.074  1.00  0.00              
ATOM     84  CA  ALA    84      -6.891  27.061   0.317  1.00  0.00              
ATOM     85  CA  THR    85      -8.603  28.133   3.553  1.00  0.00              
ATOM     86  CA  ASP    86      -7.837  24.837   5.317  1.00  0.00              
ATOM     87  CA  HIS    87      -4.171  24.412   4.411  1.00  0.00              
ATOM     88  CA  PRO    88      -3.148  22.202   7.363  1.00  0.00              
ATOM     89  CA  GLN    89      -6.084  19.840   6.796  1.00  0.00              
ATOM     90  CA  ARG    90      -5.304  19.579   3.044  1.00  0.00              
ATOM     91  CA  ALA    91      -1.686  18.708   3.717  1.00  0.00              
ATOM     92  CA  LEU    92      -2.717  15.991   6.207  1.00  0.00              
ATOM     93  CA  ILE    93      -5.083  14.553   3.643  1.00  0.00              
ATOM     94  CA  LEU    94      -2.349  14.525   0.957  1.00  0.00              
ATOM     95  CA  ALA    95       0.032  12.792   3.386  1.00  0.00              
ATOM     96  CA  GLU    96      -2.631  10.174   4.231  1.00  0.00              
ATOM     97  CA  LEU    97      -3.285   9.565   0.489  1.00  0.00              
ATOM     98  CA  GLU    98       0.448   9.172  -0.180  1.00  0.00              
ATOM     99  CA  LYS    99       0.702   6.651   2.709  1.00  0.00              
ATOM    100  CA  LEU   100      -2.248   4.699   1.355  1.00  0.00              
ATOM    101  CA  ASP   101      -0.719   4.603  -2.129  1.00  0.00              
ATOM    102  CA  ALA   102       2.427   3.061  -0.660  1.00  0.00              
ATOM    103  CA  LEU   103       0.299   0.468   1.203  1.00  0.00              
ATOM    104  CA  PHE   104      -1.603  -0.374  -1.989  1.00  0.00              
ATOM    105  CA  ALA   105       1.634  -0.807  -3.949  1.00  0.00              
ATOM    106  CA  ASP   106       3.244  -3.023  -1.380  1.00  0.00              
ATOM    107  CA  ASP   107       0.289  -5.377  -0.930  1.00  0.00              
ATOM    108  CA  ALA   108      -0.382  -4.463   2.707  1.00  0.00              
ATOM    109  CA  SER   109      -4.158  -4.020   3.107  1.00  0.00              
ATOM    110  CA  LEU   110      -4.503  -0.624   4.782  1.00  0.00              
ATOM    111  CA  GLU   111      -8.255  -0.085   4.230  1.00  0.00              
ATOM    112  CA  HIS   112     -10.217   0.576   7.367  1.00  0.00              
ATOM    113  CA  HIS   113     -13.335  -1.473   6.545  1.00  0.00              
ATOM    114  CA  HIS   114     -10.376  -3.580   7.599  1.00  0.00              
ATOM    115  CA  HIS   115      -9.837  -5.365   3.835  1.00  0.00              
ATOM    116  CA  HIS   116      -7.098  -5.678   0.662  1.00  0.00              
ATOM    117  CA  HIS   117      -8.913  -7.849  -2.009  1.00  0.00              
TER                                                                             
END
