
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS599_1
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS599_1.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    A       3      N       5           -
LGA    M       4      L       6           -
LGA    N       5      K       7           -
LGA    L       6      R       8           -
LGA    K       7      E       9           -
LGA    R       8      Q      10          6.335
LGA    E       9      E      11           #
LGA    Q      10      -       -           -
LGA    E      11      -       -           -
LGA    F      12      F      12          2.218
LGA    V      13      V      13          2.462
LGA    S      14      -       -           -
LGA    Q      15      -       -           -
LGA    Y      16      S      14          1.803
LGA    H      17      Q      15          0.402
LGA    F      18      Y      16          0.565
LGA    D      19      H      17          0.759
LGA    A      20      F      18          2.343
LGA    R      21      D      19          2.830
LGA    N      22      A      20           #
LGA    F      23      R      21           -
LGA    E      24      N      22           -
LGA    W      25      F      23           -
LGA    E      26      E      24           -
LGA    N      27      W      25           -
LGA    E      28      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    -       -      N      29           -
LGA    -       -      G      30           -
LGA    N      29      A      31           #
LGA    G      30      P      32           -
LGA    A      31      E      33           #
LGA    P      32      T      34          4.390
LGA    E      33      K      35          1.502
LGA    T      34      V      36          0.807
LGA    K      35      D      37          1.296
LGA    V      36      V      38          1.112
LGA    D      37      N      39          1.016
LGA    V      38      F      40          1.240
LGA    N      39      Q      41          1.639
LGA    F      40      L      42          2.073
LGA    Q      41      L      43          1.899
LGA    L      42      Q      44          1.679
LGA    L      43      H      45          4.066
LGA    Q      44      -       -           -
LGA    H      45      -       -           -
LGA    D      46      -       -           -
LGA    Q      47      D      46          2.936
LGA    E      48      Q      47          2.521
LGA    N      49      -       -           -
LGA    Q      50      E      48          2.561
LGA    V      51      N      49          3.887
LGA    T      52      Q      50          3.779
LGA    S      53      V      51          3.615
LGA    L      54      T      52          1.625
LGA    I      55      S      53          0.518
LGA    V      56      L      54          2.260
LGA    I      57      I      55          1.388
LGA    L      58      V      56          0.528
LGA    S      59      I      57          0.645
LGA    F      60      L      58          0.378
LGA    M      61      S      59          0.689
LGA    I      62      F      60          0.888
LGA    V      63      M      61          1.097
LGA    F      64      I      62          2.434
LGA    D      65      V      63          4.280
LGA    -       -      F      64           -
LGA    -       -      D      65           -
LGA    -       -      K      66           -
LGA    -       -      F      67           -
LGA    K      66      V      68          4.961
LGA    F      67      I      69          3.527
LGA    V      68      S      70          1.581
LGA    I      69      G      71          2.604
LGA    S      70      T      72          1.835
LGA    G      71      I      73          2.236
LGA    T      72      S      74          1.903
LGA    I      73      Q      75          3.578
LGA    S      74      V      76          3.737
LGA    Q      75      N      77           #
LGA    V      76      H      78           -
LGA    N      77      I      79           -
LGA    H      78      D      80           -
LGA    I      79      G      81           -
LGA    D      80      R      82           -
LGA    G      81      I      83           -
LGA    R      82      V      84           -
LGA    I      83      N      85           -
LGA    V      84      E      86           -
LGA    N      85      P      87           -
LGA    E      86      S      88           -
LGA    P      87      E      89           -
LGA    S      88      L      90           -
LGA    E      89      N      91           -
LGA    L      90      Q      92           -
LGA    N      91      E      93           -
LGA    Q      92      E      94           -
LGA    E      93      -       -           -
LGA    E      94      -       -           -
LGA    V      95      -       -           -
LGA    E      96      -       -           -
LGA    T      97      -       -           -
LGA    L      98      -       -           -
LGA    A      99      -       -           -
LGA    R     100      -       -           -
LGA    P     101      -       -           -
LGA    C     102      -       -           -
LGA    L     103      -       -           -
LGA    N     104      -       -           -
LGA    M     105      -       -           -
LGA    L     106      -       -           -
LGA    N     107      -       -           -
LGA    R     108      -       -           -
LGA    L     109      -       -           -
LGA    T     110      V      95          4.534
LGA    Y     111      E      96          3.264
LGA    E     112      T      97           -
LGA    V     113      L      98           #
LGA    T     114      A      99           -
LGA    E     115      R     100           -
LGA    I     116      P     101           -
LGA    A     117      C     102           -
LGA    L     118      L     103           -
LGA    D     119      N     104           -
LGA    L     120      M     105           -
LGA    P     121      L     106           -
LGA    G     122      N     107           -
LGA    I     123      R     108           -
LGA    N     124      L     109           -
LGA    L     125      T     110           -
LGA    E     126      Y     111           -
LGA    F     127      E     112           -
LGA    -       -      V     113           -
LGA    -       -      T     114           -
LGA    -       -      E     115           -
LGA    -       -      I     116           -
LGA    -       -      A     117           -
LGA    -       -      L     118           -
LGA    -       -      D     119           -
LGA    -       -      L     120           -
LGA    -       -      P     121           -
LGA    -       -      G     122           -
LGA    -       -      I     123           -
LGA    -       -      N     124           -
LGA    -       -      L     125           -
LGA    -       -      E     126           -
LGA    -       -      F     127           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     50    2.62     8.00     28.413     1.835

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.568404 * X  +  -0.675211 * Y  +  -0.470114 * Z  +  14.213509
  Y_new =  -0.501072 * X  +  -0.169109 * Y  +   0.848722 * Z  +  31.405882
  Z_new =  -0.652567 * X  +   0.717978 * Y  +  -0.242207 * Z  +  14.751381 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.896154   -1.245439  [ DEG:   108.6416    -71.3584 ]
  Theta =   0.710967    2.430625  [ DEG:    40.7354    139.2646 ]
  Phi   =  -2.419069    0.722524  [ DEG:  -138.6024     41.3976 ]
 
# 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: T0383TS599_1                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS599_1.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   50   2.62    8.00  28.413
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS599_1
PFRMAT TS                                                                       
TARGET T0383                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  SER     1      21.036  11.991  21.159  1.00  0.00              
ATOM      2  CA  ASN     2      18.907  14.920  22.380  1.00  0.00              
ATOM      3  CA  ALA     3      20.181  12.056  19.581  1.00  0.00              
ATOM      4  CA  MET     4      19.035  15.195  21.231  1.00  0.00              
ATOM      5  CA  ASN     5      20.148  17.349  18.257  1.00  0.00              
ATOM      6  CA  LEU     6      18.415  15.157  15.709  1.00  0.00              
ATOM      7  CA  LYS     7      15.102  15.137  17.652  1.00  0.00              
ATOM      8  CA  ARG     8      14.943  18.890  18.132  1.00  0.00              
ATOM      9  CA  GLU     9      15.644  19.810  14.511  1.00  0.00              
ATOM     10  CA  GLN    10      13.263  17.562  12.519  1.00  0.00              
ATOM     11  CA  GLU    11      10.442  18.713  14.831  1.00  0.00              
ATOM     12  CA  PHE    12      11.206  22.290  13.706  1.00  0.00              
ATOM     13  CA  VAL    13      11.151  21.357   9.988  1.00  0.00              
ATOM     14  CA  SER    14       7.791  19.563  10.386  1.00  0.00              
ATOM     15  CA  GLN    15       6.373  22.568  12.320  1.00  0.00              
ATOM     16  CA  TYR    16       7.335  24.932   9.613  1.00  0.00              
ATOM     17  CA  HIS    17       6.483  23.056   6.385  1.00  0.00              
ATOM     18  CA  PHE    18       8.983  23.441   3.611  1.00  0.00              
ATOM     19  CA  ASP    19       8.156  23.105  -0.042  1.00  0.00              
ATOM     20  CA  ALA    20      10.295  25.198  -2.300  1.00  0.00              
ATOM     21  CA  ARG    21       8.702  25.118  -5.714  1.00  0.00              
ATOM     22  CA  ASN    22       8.248  28.820  -6.708  1.00  0.00              
ATOM     23  CA  PHE    23      10.810  30.576  -4.531  1.00  0.00              
ATOM     24  CA  GLU    24      12.625  33.370  -6.248  1.00  0.00              
ATOM     25  CA  TRP    25      12.217  36.530  -4.146  1.00  0.00              
ATOM     26  CA  GLU    26      11.870  38.958  -7.109  1.00  0.00              
ATOM     27  CA  ASN    27       9.311  36.906  -8.953  1.00  0.00              
ATOM     28  CA  GLU    28       7.676  39.105 -11.542  1.00  0.00              
ATOM     29  CA  ASN    29       5.118  40.826  -9.453  1.00  0.00              
ATOM     30  CA  GLY    30       7.712  42.674  -7.305  1.00  0.00              
ATOM     31  CA  ALA    31       5.976  41.717  -4.117  1.00  0.00              
ATOM     32  CA  PRO    32       8.378  40.075  -1.645  1.00  0.00              
ATOM     33  CA  GLU    33       6.130  37.760   0.346  1.00  0.00              
ATOM     34  CA  THR    34       7.388  37.842   3.844  1.00  0.00              
ATOM     35  CA  LYS    35       4.983  37.156   6.637  1.00  0.00              
ATOM     36  CA  VAL    36       6.312  37.584  10.123  1.00  0.00              
ATOM     37  CA  ASP    37       4.550  36.071  13.049  1.00  0.00              
ATOM     38  CA  VAL    38       5.605  36.859  16.576  1.00  0.00              
ATOM     39  CA  ASN    39       4.348  34.790  19.335  1.00  0.00              
ATOM     40  CA  PHE    40       4.905  35.827  22.909  1.00  0.00              
ATOM     41  CA  GLN    41       4.592  33.305  25.676  1.00  0.00              
ATOM     42  CA  LEU    42       4.427  34.429  29.184  1.00  0.00              
ATOM     43  CA  LEU    43       5.070  31.967  31.921  1.00  0.00              
ATOM     44  CA  GLN    44       3.200  32.525  35.173  1.00  0.00              
ATOM     45  CA  HIS    45       2.213  34.466  38.189  1.00  0.00              
ATOM     46  CA  ASP    46       5.569  34.647  39.936  1.00  0.00              
ATOM     47  CA  GLN    47       7.169  35.669  36.657  1.00  0.00              
ATOM     48  CA  GLU    48       4.890  38.740  36.399  1.00  0.00              
ATOM     49  CA  ASN    49       5.775  40.168  39.763  1.00  0.00              
ATOM     50  CA  GLN    50       9.478  39.379  39.489  1.00  0.00              
ATOM     51  CA  VAL    51       9.834  39.116  35.674  1.00  0.00              
ATOM     52  CA  THR    52      11.124  35.612  35.269  1.00  0.00              
ATOM     53  CA  SER    53      10.109  33.736  32.131  1.00  0.00              
ATOM     54  CA  LEU    54       9.319  35.353  28.818  1.00  0.00              
ATOM     55  CA  ILE    55       9.356  33.192  25.791  1.00  0.00              
ATOM     56  CA  VAL    56       9.415  34.672  22.440  1.00  0.00              
ATOM     57  CA  ILE    57       8.507  32.642  19.508  1.00  0.00              
ATOM     58  CA  LEU    58       9.342  33.830  16.066  1.00  0.00              
ATOM     59  CA  SER    59       7.783  32.425  13.100  1.00  0.00              
ATOM     60  CA  PHE    60       8.650  33.499   9.689  1.00  0.00              
ATOM     61  CA  MET    61       6.525  32.614   6.767  1.00  0.00              
ATOM     62  CA  ILE    62       7.550  32.949   3.372  1.00  0.00              
ATOM     63  CA  VAL    63       4.999  32.726   0.665  1.00  0.00              
ATOM     64  CA  PHE    64       6.009  32.502  -2.943  1.00  0.00              
ATOM     65  CA  ASP    65       3.460  31.938  -5.631  1.00  0.00              
ATOM     66  CA  LYS    66       2.452  28.398  -4.509  1.00  0.00              
ATOM     67  CA  PHE    67       5.523  27.387  -2.480  1.00  0.00              
ATOM     68  CA  VAL    68       5.390  27.648   1.348  1.00  0.00              
ATOM     69  CA  ILE    69       8.515  28.134   3.360  1.00  0.00              
ATOM     70  CA  SER    70       8.384  28.085   7.037  1.00  0.00              
ATOM     71  CA  GLY    71      11.267  29.555   9.028  1.00  0.00              
ATOM     72  CA  THR    72      11.371  29.350  12.733  1.00  0.00              
ATOM     73  CA  ILE    73      13.349  31.698  14.521  1.00  0.00              
ATOM     74  CA  SER    74      13.627  30.997  18.086  1.00  0.00              
ATOM     75  CA  GLN    75      14.281  27.287  17.244  1.00  0.00              
ATOM     76  CA  VAL    76      16.976  28.168  14.696  1.00  0.00              
ATOM     77  CA  ASN    77      18.718  30.479  17.192  1.00  0.00              
ATOM     78  CA  HIS    78      18.660  27.637  19.773  1.00  0.00              
ATOM     79  CA  ILE    79      20.377  25.427  17.188  1.00  0.00              
ATOM     80  CA  ASP    80      22.982  28.099  16.414  1.00  0.00              
ATOM     81  CA  GLY    81      23.845  28.681  20.058  1.00  0.00              
ATOM     82  CA  ARG    82      24.356  24.914  20.484  1.00  0.00              
ATOM     83  CA  ILE    83      26.727  24.565  17.530  1.00  0.00              
ATOM     84  CA  VAL    84      28.904  27.649  18.336  1.00  0.00              
ATOM     85  CA  ASN    85      29.315  26.633  21.960  1.00  0.00              
ATOM     86  CA  GLU    86      30.385  23.034  21.830  1.00  0.00              
ATOM     87  CA  PRO    87      34.024  23.618  21.065  1.00  0.00              
ATOM     88  CA  SER    88      34.627  20.226  19.630  1.00  0.00              
ATOM     89  CA  GLU    89      31.899  20.249  17.180  1.00  0.00              
ATOM     90  CA  LEU    90      32.217  23.391  15.406  1.00  0.00              
ATOM     91  CA  ASN    91      35.224  24.848  13.626  1.00  0.00              
ATOM     92  CA  GLN    92      35.916  28.576  14.278  1.00  0.00              
ATOM     93  CA  GLU    93      35.022  29.283  10.644  1.00  0.00              
ATOM     94  CA  GLU    94      31.783  27.330  10.802  1.00  0.00              
ATOM     95  CA  VAL    95      30.760  29.244  13.981  1.00  0.00              
ATOM     96  CA  GLU    96      31.259  32.528  12.211  1.00  0.00              
ATOM     97  CA  THR    97      29.151  31.243   9.287  1.00  0.00              
ATOM     98  CA  LEU    98      26.439  30.192  11.734  1.00  0.00              
ATOM     99  CA  ALA    99      26.223  33.493  13.672  1.00  0.00              
ATOM    100  CA  ARG   100      25.933  35.186  10.264  1.00  0.00              
ATOM    101  CA  PRO   101      23.154  32.968   8.794  1.00  0.00              
ATOM    102  CA  CYS   102      20.994  33.493  11.827  1.00  0.00              
ATOM    103  CA  LEU   103      21.444  37.285  11.687  1.00  0.00              
ATOM    104  CA  ASN   104      20.562  37.323   7.978  1.00  0.00              
ATOM    105  CA  MET   105      17.393  35.275   8.460  1.00  0.00              
ATOM    106  CA  LEU   106      16.246  37.560  11.321  1.00  0.00              
ATOM    107  CA  ASN   107      16.925  40.571   9.112  1.00  0.00              
ATOM    108  CA  ARG   108      14.773  39.249   6.239  1.00  0.00              
ATOM    109  CA  LEU   109      11.857  38.576   8.639  1.00  0.00              
ATOM    110  CA  THR   110      12.124  41.947  10.471  1.00  0.00              
ATOM    111  CA  TYR   111      12.129  41.557  14.219  1.00  0.00              
ATOM    112  CA  GLU   112      12.163  44.469  16.733  1.00  0.00              
ATOM    113  CA  VAL   113      13.971  43.519  19.948  1.00  0.00              
ATOM    114  CA  THR   114      15.175  46.863  21.162  1.00  0.00              
ATOM    115  CA  GLU   115      16.098  45.849  24.738  1.00  0.00              
ATOM    116  CA  ILE   116      16.226  42.076  25.312  1.00  0.00              
ATOM    117  CA  ALA   117      15.887  40.963  28.933  1.00  0.00              
ATOM    118  CA  LEU   118      16.830  37.482  29.941  1.00  0.00              
ATOM    119  CA  ASP   119      14.226  36.212  32.441  1.00  0.00              
ATOM    120  CA  LEU   120      14.963  33.181  34.549  1.00  0.00              
ATOM    121  CA  PRO   121      14.715  30.051  32.381  1.00  0.00              
ATOM    122  CA  GLY   122      16.863  31.650  29.672  1.00  0.00              
ATOM    123  CA  ILE   123      14.346  33.026  27.210  1.00  0.00              
ATOM    124  CA  ASN   124      13.619  36.689  27.262  1.00  0.00              
ATOM    125  CA  LEU   125      12.044  38.397  24.524  1.00  0.00              
ATOM    126  CA  GLU   126      12.166  42.162  24.390  1.00  0.00              
ATOM    127  CA  PHE   127      10.226  43.966  21.801  1.00  0.00              
TER                                                                             
END
