
#######################################################
#                                                     #
#                        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  123 (  123),  selected  123 , name T0382TS393_5
# Molecule2: number of CA atoms  121 (  929),  selected  121 , name T0382.pdb
# PARAMETERS: T0382TS393_5.T0382.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      K       3           -
LGA    S       2      L       4           -
LGA    K       3      D       5           -
LGA    L       4      -       -           -
LGA    D       5      -       -           -
LGA    L       6      -       -           -
LGA    H       7      -       -           -
LGA    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      L       6           #
LGA    -       -      H       7           -
LGA    -       -      Q       8           -
LGA    -       -      M       9           -
LGA    -       -      T      10           -
LGA    -       -      T      11           -
LGA    E      46      Q      12           #
LGA    I      47      D      13          0.460
LGA    A      48      L      14          2.844
LGA    D      49      -       -           -
LGA    E      50      -       -           -
LGA    L      51      V      15           #
LGA    K      52      A      16           -
LGA    A      53      -       -           -
LGA    R      54      -       -           -
LGA    D      55      -       -           -
LGA    G      56      L      17           #
LGA    D      57      F      18          4.703
LGA    -       -      A      19           -
LGA    -       -      K      20           -
LGA    Q      58      V      21          1.840
LGA    R      59      T      22          2.406
LGA    T      60      V      23          3.438
LGA    A      61      E      24          2.116
LGA    L      62      Q      25          1.027
LGA    L      63      D      26          2.582
LGA    S      64      D      27          1.545
LGA    L      65      A      28          0.866
LGA    F      66      L      29          3.022
LGA    E      67      L      30          2.929
LGA    Y      68      G      31          3.744
LGA    P      69      -       -           -
LGA    N      70      N      32          2.013
LGA    M      71      -       -           -
LGA    Q      72      -       -           -
LGA    V      73      -       -           -
LGA    R      74      Q      33          1.218
LGA    L      75      I      34          0.546
LGA    Q      76      S      35          1.444
LGA    A      77      R      36          0.879
LGA    A      78      F      37          0.340
LGA    K      79      N      38          1.255
LGA    L      80      R      39          1.104
LGA    T      81      L      40          0.344
LGA    L      82      F      41          1.106
LGA    A      83      G      42          1.484
LGA    V      84      V      43          0.831
LGA    A      85      M      44          0.476
LGA    P      86      A      45          1.241
LGA    V      87      E      46          1.149
LGA    K      88      I      47          0.192
LGA    A      89      A      48          0.756
LGA    R      90      D      49          1.082
LGA    E      91      E      50          0.481
LGA    Q      92      L      51          0.427
LGA    L      93      K      52          0.996
LGA    E      94      A      53          0.709
LGA    A      95      R      54          0.895
LGA    I      96      D      55          3.250
LGA    V      97      -       -           -
LGA    S      98      -       -           -
LGA    S      99      G      56          4.825
LGA    K     100      D      57           #
LGA    W     101      Q      58           #
LGA    -       -      R      59           -
LGA    F     102      T      60          4.355
LGA    P     103      A      61           #
LGA    Q     104      L      62           -
LGA    A     105      L      63           #
LGA    G     106      S      64          5.148
LGA    D     107      L      65          4.748
LGA    A     108      F      66          2.158
LGA    -       -      E      67           -
LGA    G     109      Y      68           #
LGA    M     110      P      69           -
LGA    C     111      N      70           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    L     112      V      73           #
LGA    -       -      R      74           -
LGA    D     113      L      75          3.895
LGA    L     114      Q      76          3.991
LGA    L     115      A      77           #
LGA    -       -      A      78           -
LGA    D     116      K      79          3.413
LGA    D     117      L      80           -
LGA    -       -      T      81           -
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    -       -      A      85           -
LGA    -       -      P      86           -
LGA    -       -      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    -       -      Q      92           -
LGA    -       -      L      93           -
LGA    -       -      E      94           -
LGA    -       -      A      95           -
LGA    -       -      I      96           -
LGA    -       -      V      97           -
LGA    -       -      S      98           -
LGA    -       -      S      99           -
LGA    -       -      K     100           -
LGA    -       -      W     101           -
LGA    -       -      F     102           -
LGA    -       -      P     103           -
LGA    -       -      Q     104           -
LGA    -       -      A     105           -
LGA    -       -      G     106           -
LGA    -       -      D     107           -
LGA    G     118      A     108          4.450
LGA    T     119      G     109          2.522
LGA    F     120      M     110          2.208
LGA    -       -      C     111           -
LGA    -       -      L     112           -
LGA    -       -      D     113           -
LGA    K     121      L     114          4.138
LGA    P     122      L     115           -
LGA    K     123      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    -       -      P     122           -
LGA    -       -      K     123           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  123  121    5.0     50    2.53     8.00     32.340     1.903

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.218108 * X  +   0.949166 * Y  +   0.226963 * Z  +  -9.232495
  Y_new =  -0.128864 * X  +  -0.202515 * Y  +   0.970763 * Z  +  35.762482
  Z_new =   0.967379 * X  +  -0.240978 * Y  +   0.078143 * Z  +   2.298657 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.257220    1.884373  [ DEG:   -72.0334    107.9666 ]
  Theta =  -1.314673   -1.826919  [ DEG:   -75.3252   -104.6748 ]
  Phi   =  -0.533648    2.607944  [ DEG:   -30.5758    149.4242 ]
 
# 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: T0382TS393_5                                  
REMARK     2: T0382.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS393_5.T0382.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  123  121   5.0   50   2.53    8.00  32.340
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS393_5
PFRMAT TS
TARGET T0382
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      12.037  34.524  -4.987  1.00 25.00           C
ATOM      2  CA  SER     2      11.627  31.120  -6.485  1.00 25.00           C
ATOM      3  CA  LYS     3      10.641  27.967  -8.360  1.00 25.00           C
ATOM      4  CA  LEU     4       7.107  26.958  -7.245  1.00 25.00           C
ATOM      5  CA  ASP     5       3.709  28.453  -6.354  1.00 25.00           C
ATOM      6  CA  LEU     6       1.902  25.086  -6.086  1.00 25.00           C
ATOM      7  CA  HIS     7       4.586  23.810  -3.670  1.00 25.00           C
ATOM      8  CA  GLN     8       4.216  26.976  -1.548  1.00 25.00           C
ATOM      9  CA  MET     9       0.415  26.510  -1.470  1.00 25.00           C
ATOM     10  CA  THR    10       0.860  22.863  -0.390  1.00 25.00           C
ATOM     11  CA  THR    11       3.261  23.953   2.388  1.00 25.00           C
ATOM     12  CA  GLN    12       0.737  26.579   3.572  1.00 25.00           C
ATOM     13  CA  ASP    13      -2.032  23.934   3.614  1.00 25.00           C
ATOM     14  CA  LEU    14       0.209  21.584   5.644  1.00 25.00           C
ATOM     15  CA  VAL    15       0.956  24.401   8.129  1.00 25.00           C
ATOM     16  CA  ALA    16      -2.789  25.129   8.465  1.00 25.00           C
ATOM     17  CA  LEU    17      -3.480  21.415   9.095  1.00 25.00           C
ATOM     18  CA  PHE    18      -0.741  21.334  11.769  1.00 25.00           C
ATOM     19  CA  ALA    19      -2.245  24.434  13.441  1.00 25.00           C
ATOM     20  CA  LYS    20      -5.707  22.796  13.415  1.00 25.00           C
ATOM     21  CA  VAL    21      -4.244  19.622  14.983  1.00 25.00           C
ATOM     22  CA  THR    22      -5.797  17.883  17.985  1.00 25.00           C
ATOM     23  CA  VAL    23      -7.969  15.788  20.223  1.00 25.00           C
ATOM     24  CA  GLU    24      -8.690  13.769  17.049  1.00 25.00           C
ATOM     25  CA  GLN    25     -12.187  15.315  16.831  1.00 25.00           C
ATOM     26  CA  ASP    26     -10.690  18.817  17.230  1.00 25.00           C
ATOM     27  CA  ASP    27      -8.152  18.075  14.460  1.00 25.00           C
ATOM     28  CA  ALA    28     -10.969  16.850  12.172  1.00 25.00           C
ATOM     29  CA  LEU    29     -12.967  20.038  12.886  1.00 25.00           C
ATOM     30  CA  LEU    30      -9.895  22.175  12.076  1.00 25.00           C
ATOM     31  CA  GLY    31      -9.402  20.265   8.794  1.00 25.00           C
ATOM     32  CA  ASN    32     -13.085  20.811   7.894  1.00 25.00           C
ATOM     33  CA  GLN    33     -12.737  24.553   8.638  1.00 25.00           C
ATOM     34  CA  ILE    34      -9.614  24.728   6.429  1.00 25.00           C
ATOM     35  CA  SER    35     -11.485  22.946   3.602  1.00 25.00           C
ATOM     36  CA  ARG    36     -14.397  25.410   3.943  1.00 25.00           C
ATOM     37  CA  PHE    37     -11.954  28.355   3.802  1.00 25.00           C
ATOM     38  CA  ASN    38     -10.329  26.889   0.659  1.00 25.00           C
ATOM     39  CA  ARG    39     -13.776  26.472  -0.958  1.00 25.00           C
ATOM     40  CA  LEU    40     -14.642  30.105  -0.104  1.00 25.00           C
ATOM     41  CA  PHE    41     -11.334  31.280  -1.633  1.00 25.00           C
ATOM     42  CA  GLY    42     -12.055  29.260  -4.806  1.00 25.00           C
ATOM     43  CA  VAL    43     -15.551  30.806  -5.026  1.00 25.00           C
ATOM     44  CA  MET    44     -14.055  34.309  -4.627  1.00 25.00           C
ATOM     45  CA  ALA    45     -11.517  33.566  -7.396  1.00 25.00           C
ATOM     46  CA  GLU    46     -14.334  32.342  -9.683  1.00 25.00           C
ATOM     47  CA  ILE    47     -16.332  35.530  -8.969  1.00 25.00           C
ATOM     48  CA  ALA    48     -13.259  37.667  -9.781  1.00 25.00           C
ATOM     49  CA  ASP    49     -12.767  35.757 -13.063  1.00 25.00           C
ATOM     50  CA  GLU    50     -16.449  36.303 -13.962  1.00 25.00           C
ATOM     51  CA  LEU    51     -16.102  40.044 -13.218  1.00 25.00           C
ATOM     52  CA  LYS    52     -12.979  40.218 -15.427  1.00 25.00           C
ATOM     53  CA  ALA    53     -10.007  39.658 -13.181  1.00 25.00           C
ATOM     54  CA  ARG    54      -7.933  37.292 -11.042  1.00 25.00           C
ATOM     55  CA  ASP    55      -5.776  36.384  -8.042  1.00 25.00           C
ATOM     56  CA  GLY    56      -7.861  36.750  -4.939  1.00 25.00           C
ATOM     57  CA  ASP    57     -10.455  36.293  -2.137  1.00 25.00           C
ATOM     58  CA  GLN    58     -10.832  35.104   1.484  1.00 25.00           C
ATOM     59  CA  ARG    59     -13.979  36.593   3.081  1.00 25.00           C
ATOM     60  CA  THR    60     -14.780  33.219   4.706  1.00 25.00           C
ATOM     61  CA  ALA    61     -11.205  32.995   6.062  1.00 25.00           C
ATOM     62  CA  LEU    62     -11.495  36.541   7.482  1.00 25.00           C
ATOM     63  CA  LEU    63     -14.819  35.627   9.150  1.00 25.00           C
ATOM     64  CA  SER    64     -13.224  32.492  10.667  1.00 25.00           C
ATOM     65  CA  LEU    65     -10.303  34.588  11.988  1.00 25.00           C
ATOM     66  CA  PHE    66     -12.761  37.087  13.529  1.00 25.00           C
ATOM     67  CA  GLU    67     -14.678  34.217  15.190  1.00 25.00           C
ATOM     68  CA  TYR    68     -12.068  34.886  17.936  1.00 25.00           C
ATOM     69  CA  PRO    69      -9.062  37.160  18.164  1.00 25.00           C
ATOM     70  CA  ASN    70      -5.750  35.206  18.498  1.00 25.00           C
ATOM     71  CA  MET    71      -3.207  32.340  18.332  1.00 25.00           C
ATOM     72  CA  GLN    72      -0.338  34.164  16.568  1.00 25.00           C
ATOM     73  CA  VAL    73      -0.652  31.806  13.567  1.00 25.00           C
ATOM     74  CA  ARG    74      -4.426  32.443  13.429  1.00 25.00           C
ATOM     75  CA  LEU    75      -3.816  36.223  13.534  1.00 25.00           C
ATOM     76  CA  GLN    76      -1.269  35.915  10.691  1.00 25.00           C
ATOM     77  CA  ALA    77      -3.778  33.885   8.630  1.00 25.00           C
ATOM     78  CA  ALA    78      -6.469  36.539   9.244  1.00 25.00           C
ATOM     79  CA  LYS    79      -4.040  39.290   8.147  1.00 25.00           C
ATOM     80  CA  LEU    80      -3.208  37.323   4.969  1.00 25.00           C
ATOM     81  CA  THR    81      -6.940  36.898   4.225  1.00 25.00           C
ATOM     82  CA  LEU    82      -7.491  40.655   4.717  1.00 25.00           C
ATOM     83  CA  ALA    83      -4.581  41.417   2.346  1.00 25.00           C
ATOM     84  CA  VAL    84      -6.056  39.038  -0.267  1.00 25.00           C
ATOM     85  CA  ALA    85      -9.468  40.745   0.067  1.00 25.00           C
ATOM     86  CA  PRO    86      -7.824  44.175  -0.380  1.00 25.00           C
ATOM     87  CA  VAL    87      -5.997  42.919  -3.503  1.00 25.00           C
ATOM     88  CA  LYS    88      -9.290  41.568  -4.916  1.00 25.00           C
ATOM     89  CA  ALA    89     -10.987  44.935  -4.246  1.00 25.00           C
ATOM     90  CA  ARG    90      -8.119  46.760  -6.011  1.00 25.00           C
ATOM     91  CA  GLU    91      -8.433  44.401  -9.012  1.00 25.00           C
ATOM     92  CA  GLN    92     -12.207  45.038  -9.150  1.00 25.00           C
ATOM     93  CA  LEU    93     -11.597  48.818  -9.045  1.00 25.00           C
ATOM     94  CA  GLU    94      -9.050  48.510 -11.888  1.00 25.00           C
ATOM     95  CA  ALA    95     -11.559  46.481 -13.950  1.00 25.00           C
ATOM     96  CA  ILE    96     -14.250  49.136 -13.335  1.00 25.00           C
ATOM     97  CA  VAL    97     -11.821  51.886 -14.432  1.00 25.00           C
ATOM     98  CA  SER    98     -10.988  49.919 -17.610  1.00 25.00           C
ATOM     99  CA  SER    99     -14.721  49.493 -18.355  1.00 25.00           C
ATOM    100  CA  LYS   100     -17.534  51.534 -16.948  1.00 25.00           C
ATOM    101  CA  TRP   101     -20.098  51.777 -14.091  1.00 25.00           C
ATOM    102  CA  PHE   102     -20.663  49.717 -10.945  1.00 25.00           C
ATOM    103  CA  PRO   103     -23.900  51.031  -9.437  1.00 25.00           C
ATOM    104  CA  GLN   104     -26.715  50.480  -7.028  1.00 25.00           C
ATOM    105  CA  ALA   105     -27.082  47.704  -4.481  1.00 25.00           C
ATOM    106  CA  GLY   106     -28.033  47.128  -0.814  1.00 25.00           C
ATOM    107  CA  ASP   107     -26.268  45.186   1.964  1.00 25.00           C
ATOM    108  CA  ALA   108     -22.739  43.977   2.965  1.00 25.00           C
ATOM    109  CA  GLY   109     -18.999  43.253   2.826  1.00 25.00           C
ATOM    110  CA  MET   110     -15.541  41.635   2.528  1.00 25.00           C
ATOM    111  CA  CYS   111     -14.057  44.965   1.356  1.00 25.00           C
ATOM    112  CA  LEU   112     -15.684  46.762   4.321  1.00 25.00           C
ATOM    113  CA  ASP   113     -14.256  44.143   6.724  1.00 25.00           C
ATOM    114  CA  LEU   114     -10.779  44.591   5.185  1.00 25.00           C
ATOM    115  CA  LEU   115     -11.067  48.390   5.577  1.00 25.00           C
ATOM    116  CA  ASP   116     -12.299  51.868   6.509  1.00 25.00           C
ATOM    117  CA  ASP   117     -13.266  55.184   8.050  1.00 25.00           C
ATOM    118  CA  GLY   118     -14.489  56.325  11.483  1.00 25.00           C
ATOM    119  CA  THR   119     -14.100  56.741  15.230  1.00 25.00           C
ATOM    120  CA  PHE   120     -10.370  55.927  15.385  1.00 25.00           C
ATOM    121  CA  LYS   121      -8.011  57.732  12.935  1.00 25.00           C
ATOM    122  CA  PRO   122      -4.344  56.901  13.714  1.00 25.00           C
ATOM    123  CA  LYS   123      -2.230  53.931  14.601  1.00 25.00           C
TER
END
