
#######################################################
#                                                     #
#                        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_4-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS599_4-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           -
LGA    L       6      L       6           -
LGA    H       7      H       7           -
LGA    Q       8      Q       8           -
LGA    M       9      -       -           -
LGA    T      10      -       -           -
LGA    T      11      -       -           -
LGA    Q      12      -       -           -
LGA    D      13      -       -           -
LGA    L      14      -       -           -
LGA    V      15      -       -           -
LGA    A      16      -       -           -
LGA    L      17      -       -           -
LGA    F      18      -       -           -
LGA    A      19      -       -           -
LGA    K      20      -       -           -
LGA    V      21      -       -           -
LGA    T      22      -       -           -
LGA    V      23      -       -           -
LGA    E      24      -       -           -
LGA    Q      25      -       -           -
LGA    D      26      -       -           -
LGA    D      27      -       -           -
LGA    A      28      -       -           -
LGA    L      29      -       -           -
LGA    L      30      -       -           -
LGA    G      31      -       -           -
LGA    N      32      -       -           -
LGA    Q      33      -       -           -
LGA    I      34      -       -           -
LGA    S      35      -       -           -
LGA    R      36      -       -           -
LGA    F      37      -       -           -
LGA    N      38      -       -           -
LGA    R      39      -       -           -
LGA    L      40      -       -           -
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      M       9          5.380
LGA    D      55      T      10          2.039
LGA    G      56      T      11           #
LGA    -       -      Q      12           -
LGA    D      57      D      13          4.390
LGA    Q      58      L      14          2.127
LGA    R      59      V      15          3.059
LGA    T      60      A      16          3.436
LGA    A      61      L      17          2.321
LGA    L      62      F      18          0.778
LGA    L      63      A      19          1.328
LGA    S      64      K      20          2.055
LGA    L      65      V      21          3.617
LGA    F      66      T      22          3.435
LGA    E      67      V      23          1.485
LGA    -       -      E      24           -
LGA    Y      68      Q      25          2.527
LGA    P      69      D      26          3.071
LGA    N      70      D      27           -
LGA    M      71      A      28           -
LGA    Q      72      L      29           -
LGA    -       -      L      30           -
LGA    -       -      G      31           -
LGA    -       -      N      32           -
LGA    -       -      Q      33           -
LGA    -       -      I      34           -
LGA    -       -      S      35           -
LGA    -       -      R      36           -
LGA    -       -      F      37           -
LGA    -       -      N      38           -
LGA    -       -      R      39           -
LGA    -       -      L      40           -
LGA    V      73      F      41          5.172
LGA    -       -      G      42           -
LGA    -       -      V      43           -
LGA    R      74      M      44          4.148
LGA    L      75      A      45          3.285
LGA    -       -      E      46           -
LGA    Q      76      I      47          2.950
LGA    A      77      A      48          4.414
LGA    -       -      D      49           -
LGA    A      78      E      50           #
LGA    K      79      L      51          4.808
LGA    L      80      K      52          2.665
LGA    -       -      A      53           -
LGA    -       -      R      54           -
LGA    -       -      D      55           -
LGA    -       -      G      56           -
LGA    -       -      D      57           -
LGA    T      81      Q      58          2.514
LGA    L      82      R      59          2.921
LGA    A      83      T      60          2.203
LGA    V      84      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           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    -       -      V      73           -
LGA    -       -      R      74           -
LGA    -       -      L      75           -
LGA    -       -      Q      76           -
LGA    -       -      A      77           -
LGA    -       -      A      78           -
LGA    -       -      K      79           -
LGA    -       -      L      80           -
LGA    -       -      T      81           -
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    A      85      A      85          0.495
LGA    P      86      P      86          1.436
LGA    V      87      V      87          2.007
LGA    K      88      K      88          1.620
LGA    A      89      A      89          1.287
LGA    R      90      R      90          1.430
LGA    E      91      E      91          1.235
LGA    Q      92      Q      92          0.585
LGA    L      93      L      93          0.838
LGA    E      94      E      94          1.004
LGA    A      95      A      95          0.212
LGA    I      96      I      96          0.807
LGA    V      97      V      97          1.179
LGA    S      98      S      98          0.681
LGA    S      99      S      99          1.045
LGA    K     100      K     100          2.091
LGA    W     101      W     101          2.442
LGA    F     102      F     102          3.406
LGA    -       -      P     103           -
LGA    P     103      Q     104          2.177
LGA    -       -      A     105           -
LGA    -       -      G     106           -
LGA    -       -      D     107           -
LGA    Q     104      A     108          2.101
LGA    A     105      G     109           -
LGA    -       -      M     110           -
LGA    G     106      C     111           #
LGA    -       -      L     112           -
LGA    -       -      D     113           -
LGA    -       -      L     114           -
LGA    D     107      L     115           #
LGA    A     108      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    G     109      K     121          2.925
LGA    M     110      P     122          3.675
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    P     122      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  119  119    5.0     47    2.68    42.55     27.909     1.688

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.276718 * X  +   0.903169 * Y  +  -0.328196 * Z  + -19.393330
  Y_new =  -0.959000 * X  +  -0.281303 * Y  +   0.034456 * Z  +  48.284439
  Z_new =  -0.061203 * X  +   0.324275 * Y  +   0.943981 * Z  +  -4.874549 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.330889   -2.810704  [ DEG:    18.9585   -161.0415 ]
  Theta =   0.061242    3.080351  [ DEG:     3.5089    176.4911 ]
  Phi   =  -1.851714    1.289878  [ DEG:  -106.0954     73.9046 ]
 
# 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_4-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_4-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   47   2.68   42.55  27.909
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_4-D1
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      4  CA  LEU     4     -21.383  46.800  -1.316  1.00  0.00              
ATOM      5  CA  ASP     5     -22.976  45.273   1.807  1.00  0.00              
ATOM      6  CA  LEU     6     -21.481  41.832   2.433  1.00  0.00              
ATOM      7  CA  HIS     7     -24.321  40.377   4.510  1.00  0.00              
ATOM      8  CA  GLN     8     -26.889  40.926   1.721  1.00  0.00              
ATOM      9  CA  MET     9     -24.983  39.438  -1.152  1.00  0.00              
ATOM     10  CA  THR    10     -25.887  36.450  -3.254  1.00  0.00              
ATOM     11  CA  THR    11     -24.566  36.648  -6.826  1.00  0.00              
ATOM     12  CA  GLN    12     -27.981  36.477  -8.374  1.00  0.00              
ATOM     13  CA  ASP    13     -29.158  39.254  -6.021  1.00  0.00              
ATOM     14  CA  LEU    14     -26.147  41.425  -6.909  1.00  0.00              
ATOM     15  CA  VAL    15     -26.643  40.904 -10.598  1.00  0.00              
ATOM     16  CA  ALA    16     -30.302  41.823 -10.334  1.00  0.00              
ATOM     17  CA  LEU    17     -29.588  44.964  -8.344  1.00  0.00              
ATOM     18  CA  PHE    18     -27.004  46.056 -10.906  1.00  0.00              
ATOM     19  CA  ALA    19     -29.476  45.415 -13.774  1.00  0.00              
ATOM     20  CA  LYS    20     -32.092  47.462 -11.950  1.00  0.00              
ATOM     21  CA  VAL    21     -29.593  50.352 -11.674  1.00  0.00              
ATOM     22  CA  THR    22     -28.819  50.078 -15.387  1.00  0.00              
ATOM     23  CA  VAL    23     -32.538  50.134 -16.204  1.00  0.00              
ATOM     24  CA  GLU    24     -33.148  53.192 -13.996  1.00  0.00              
ATOM     25  CA  GLN    25     -30.305  55.109 -15.643  1.00  0.00              
ATOM     26  CA  ASP    26     -31.787  54.300 -19.071  1.00  0.00              
ATOM     27  CA  ASP    27     -35.183  55.791 -18.137  1.00  0.00              
ATOM     28  CA  ALA    28     -33.390  58.899 -16.864  1.00  0.00              
ATOM     29  CA  LEU    29     -31.598  59.338 -20.201  1.00  0.00              
ATOM     30  CA  LEU    30     -34.837  59.366 -22.177  1.00  0.00              
ATOM     31  CA  GLY    31     -36.197  62.025 -19.838  1.00  0.00              
ATOM     32  CA  ASN    32     -33.007  64.089 -19.956  1.00  0.00              
ATOM     33  CA  GLN    33     -32.814  64.685 -23.669  1.00  0.00              
ATOM     34  CA  ILE    34     -29.355  63.938 -24.883  1.00  0.00              
ATOM     35  CA  SER    35     -25.648  64.438 -24.687  1.00  0.00              
ATOM     36  CA  ARG    36     -25.081  63.924 -20.915  1.00  0.00              
ATOM     37  CA  PHE    37     -27.738  61.187 -20.972  1.00  0.00              
ATOM     38  CA  ASN    38     -25.746  59.195 -23.604  1.00  0.00              
ATOM     39  CA  ARG    39     -22.552  59.555 -21.539  1.00  0.00              
ATOM     40  CA  LEU    40     -24.311  58.380 -18.373  1.00  0.00              
ATOM     41  CA  PHE    41     -25.746  55.417 -20.289  1.00  0.00              
ATOM     42  CA  GLY    42     -22.340  54.432 -21.542  1.00  0.00              
ATOM     43  CA  VAL    43     -20.859  54.545 -18.017  1.00  0.00              
ATOM     44  CA  MET    44     -23.685  52.521 -16.433  1.00  0.00              
ATOM     45  CA  ALA    45     -23.501  49.997 -19.195  1.00  0.00              
ATOM     46  CA  GLU    46     -19.799  49.571 -18.709  1.00  0.00              
ATOM     47  CA  ILE    47     -20.043  49.079 -14.943  1.00  0.00              
ATOM     48  CA  ALA    48     -22.844  46.482 -15.256  1.00  0.00              
ATOM     49  CA  ASP    49     -20.980  44.573 -17.872  1.00  0.00              
ATOM     50  CA  GLU    50     -17.825  44.504 -15.821  1.00  0.00              
ATOM     51  CA  LEU    51     -19.489  43.292 -12.675  1.00  0.00              
ATOM     52  CA  LYS    52     -21.287  40.447 -14.536  1.00  0.00              
ATOM     53  CA  ALA    53     -18.146  39.297 -16.258  1.00  0.00              
ATOM     54  CA  ARG    54     -16.174  39.225 -12.954  1.00  0.00              
ATOM     55  CA  ASP    55     -15.189  35.692 -12.677  1.00  0.00              
ATOM     56  CA  GLY    56     -16.598  33.445 -10.056  1.00  0.00              
ATOM     57  CA  ASP    57     -13.144  33.275  -8.355  1.00  0.00              
ATOM     58  CA  GLN    58     -12.986  37.041  -7.849  1.00  0.00              
ATOM     59  CA  ARG    59     -16.436  37.093  -6.307  1.00  0.00              
ATOM     60  CA  THR    60     -15.478  34.282  -3.918  1.00  0.00              
ATOM     61  CA  ALA    61     -12.449  36.256  -2.735  1.00  0.00              
ATOM     62  CA  LEU    62     -14.849  39.126  -1.937  1.00  0.00              
ATOM     63  CA  LEU    63     -17.194  36.866   0.007  1.00  0.00              
ATOM     64  CA  SER    64     -14.244  35.580   2.018  1.00  0.00              
ATOM     65  CA  LEU    65     -13.110  39.129   2.761  1.00  0.00              
ATOM     66  CA  PHE    66     -16.585  40.063   3.992  1.00  0.00              
ATOM     67  CA  GLU    67     -16.349  37.330   6.619  1.00  0.00              
ATOM     68  CA  TYR    68     -13.022  38.600   7.809  1.00  0.00              
ATOM     69  CA  PRO    69     -13.022  40.194  11.218  1.00  0.00              
ATOM     70  CA  ASN    70     -10.639  42.967  10.096  1.00  0.00              
ATOM     71  CA  MET    71     -13.044  45.785   9.146  1.00  0.00              
ATOM     72  CA  GLN    72     -10.834  47.184   6.434  1.00  0.00              
ATOM     73  CA  VAL    73     -10.110  44.066   4.308  1.00  0.00              
ATOM     74  CA  ARG    74      -9.698  44.728   0.602  1.00  0.00              
ATOM     75  CA  LEU    75      -9.447  42.203  -2.232  1.00  0.00              
ATOM     76  CA  GLN    76      -8.604  44.284  -5.293  1.00  0.00              
ATOM     77  CA  ALA    77     -10.765  42.621  -7.948  1.00  0.00              
ATOM     78  CA  ALA    78     -13.626  42.858  -5.466  1.00  0.00              
ATOM     79  CA  LYS    79     -13.133  46.552  -4.670  1.00  0.00              
ATOM     80  CA  LEU    80     -12.698  47.455  -8.342  1.00  0.00              
ATOM     81  CA  THR    81     -15.682  45.429  -9.591  1.00  0.00              
ATOM     82  CA  LEU    82     -17.880  47.084  -6.889  1.00  0.00              
ATOM     83  CA  ALA    83     -17.053  50.809  -6.470  1.00  0.00              
ATOM     84  CA  VAL    84     -18.022  52.160  -3.088  1.00  0.00              
ATOM     85  CA  ALA    85     -19.185  55.771  -2.894  1.00  0.00              
ATOM     86  CA  PRO    86     -17.286  57.633  -0.105  1.00  0.00              
ATOM     87  CA  VAL    87     -20.331  59.196   1.553  1.00  0.00              
ATOM     88  CA  LYS    88     -22.158  55.902   1.663  1.00  0.00              
ATOM     89  CA  ALA    89     -19.111  54.150   3.183  1.00  0.00              
ATOM     90  CA  ARG    90     -19.086  56.607   6.112  1.00  0.00              
ATOM     91  CA  GLU    91     -22.766  55.986   6.611  1.00  0.00              
ATOM     92  CA  GLN    92     -22.338  52.221   6.608  1.00  0.00              
ATOM     93  CA  LEU    93     -19.511  52.356   9.118  1.00  0.00              
ATOM     94  CA  GLU    94     -21.577  54.556  11.354  1.00  0.00              
ATOM     95  CA  ALA    95     -24.584  52.161  11.186  1.00  0.00              
ATOM     96  CA  ILE    96     -22.314  49.269  12.083  1.00  0.00              
ATOM     97  CA  VAL    97     -20.857  51.222  15.046  1.00  0.00              
ATOM     98  CA  SER    98     -24.360  52.054  16.311  1.00  0.00              
ATOM     99  CA  SER    99     -25.526  48.407  16.086  1.00  0.00              
ATOM    100  CA  LYS   100     -22.463  47.091  17.954  1.00  0.00              
ATOM    101  CA  TRP   101     -20.757  45.334  15.088  1.00  0.00              
ATOM    102  CA  PHE   102     -17.114  46.504  15.391  1.00  0.00              
ATOM    103  CA  PRO   103     -16.059  46.847  11.793  1.00  0.00              
ATOM    104  CA  GLN   104     -14.320  50.251  11.548  1.00  0.00              
ATOM    105  CA  ALA   105     -11.320  50.213   9.267  1.00  0.00              
ATOM    106  CA  GLY   106     -12.649  51.356   5.854  1.00  0.00              
ATOM    107  CA  ASP   107     -11.517  54.949   5.781  1.00  0.00              
ATOM    108  CA  ALA   108     -13.392  56.340   2.756  1.00  0.00              
ATOM    109  CA  GLY   109     -10.528  58.301   1.193  1.00  0.00              
ATOM    110  CA  MET   110      -7.935  55.640   1.871  1.00  0.00              
ATOM    111  CA  CYS   111      -9.877  52.610   0.509  1.00  0.00              
ATOM    112  CA  LEU   112     -10.931  54.427  -2.632  1.00  0.00              
ATOM    113  CA  ASP   113      -7.339  55.616  -3.263  1.00  0.00              
ATOM    114  CA  LEU   114      -5.870  52.152  -2.818  1.00  0.00              
ATOM    115  CA  LEU   115      -8.457  50.669  -5.201  1.00  0.00              
ATOM    116  CA  ASP   116      -7.798  53.223  -7.898  1.00  0.00              
ATOM    117  CA  ASP   117      -4.071  52.502  -7.609  1.00  0.00              
ATOM    118  CA  GLY   118      -4.556  48.734  -7.872  1.00  0.00              
ATOM    119  CA  THR   119      -3.184  47.754  -4.504  1.00  0.00              
ATOM    120  CA  PHE   120      -5.346  46.019  -2.124  1.00  0.00              
ATOM    121  CA  LYS   121      -4.658  42.368  -0.945  1.00  0.00              
ATOM    122  CA  PRO   122      -5.757  41.636   2.625  1.00  0.00              
TER                                                                             
END
