
#######################################################
#                                                     #
#                        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 T0382TS599_1
# Molecule2: number of CA atoms  121 (  929),  selected  121 , name T0382.pdb
# PARAMETERS: T0382TS599_1.T0382.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      K       3           -
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    M       1      T      22          5.658
LGA    S       2      V      23          3.563
LGA    K       3      E      24          4.980
LGA    L       4      Q      25          4.744
LGA    -       -      D      26           -
LGA    D       5      D      27          1.581
LGA    L       6      A      28          3.886
LGA    -       -      L      29           -
LGA    H       7      L      30          2.453
LGA    Q       8      G      31          2.637
LGA    M       9      N      32           #
LGA    T      10      Q      33          1.721
LGA    T      11      I      34          1.692
LGA    Q      12      S      35          1.631
LGA    D      13      R      36          1.180
LGA    L      14      F      37          1.045
LGA    V      15      N      38          1.037
LGA    A      16      R      39          1.276
LGA    L      17      L      40          1.321
LGA    F      18      F      41          1.097
LGA    A      19      G      42          1.354
LGA    K      20      V      43          1.678
LGA    V      21      M      44          1.642
LGA    T      22      A      45          1.533
LGA    V      23      E      46          1.955
LGA    E      24      I      47          2.134
LGA    Q      25      A      48          1.673
LGA    D      26      D      49          1.914
LGA    D      27      E      50          3.027
LGA    A      28      L      51          3.083
LGA    L      29      K      52          2.050
LGA    L      30      A      53          2.595
LGA    G      31      R      54          3.953
LGA    N      32      D      55          1.863
LGA    Q      33      -       -           -
LGA    I      34      G      56          6.188
LGA    S      35      D      57           -
LGA    R      36      -       -           -
LGA    F      37      Q      58          2.617
LGA    N      38      -       -           -
LGA    R      39      -       -           -
LGA    L      40      R      59          4.506
LGA    F      41      T      60          2.729
LGA    G      42      A      61          2.673
LGA    V      43      L      62          2.664
LGA    M      44      -       -           -
LGA    A      45      L      63          1.037
LGA    E      46      S      64          3.552
LGA    I      47      L      65          4.002
LGA    A      48      F      66          3.901
LGA    D      49      E      67          4.586
LGA    E      50      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           -
LGA    -       -      P      86           -
LGA    -       -      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    L      51      Q      92          4.940
LGA    K      52      L      93          4.750
LGA    -       -      E      94           -
LGA    A      53      A      95          4.525
LGA    R      54      I      96          3.355
LGA    D      55      V      97           #
LGA    G      56      S      98          0.392
LGA    -       -      S      99           -
LGA    D      57      K     100          3.555
LGA    Q      58      W     101          3.809
LGA    R      59      F     102           #
LGA    -       -      P     103           -
LGA    T      60      Q     104           #
LGA    A      61      A     105          4.356
LGA    L      62      G     106          1.558
LGA    L      63      D     107          2.194
LGA    -       -      A     108           -
LGA    S      64      G     109          3.817
LGA    L      65      M     110           #
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      C     111           #
LGA    V      84      L     112           -
LGA    A      85      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      86      P     122           #
LGA    V      87      K     123          5.511
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    A     108      -       -           -
LGA    G     109      -       -           -
LGA    M     110      -       -           -
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      -       -           -
LGA    K     123      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  123  121    5.0     54    3.17    11.11     29.155     1.651

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.129983 * X  +   0.398864 * Y  +   0.907751 * Z  + -11.179603
  Y_new =   0.040224 * X  +   0.916885 * Y  +  -0.397118 * Z  +  45.079803
  Z_new =  -0.990700 * X  +  -0.015105 * Y  +  -0.135223 * Z  +   8.974454 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.030347    0.111246  [ DEG:  -173.6261      6.3739 ]
  Theta =   1.434309    1.707284  [ DEG:    82.1799     97.8201 ]
  Phi   =   2.841485   -0.300108  [ DEG:   162.8051    -17.1949 ]
 
# 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_1                                  
REMARK     2: T0382.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_1.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   54   3.17   11.11  29.155
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_1
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -17.408  40.366   8.449  1.00  0.00              
ATOM      2  CA  SER     2     -19.396  37.026   6.825  1.00  0.00              
ATOM      3  CA  LYS     3     -17.836  33.129   6.952  1.00  0.00              
ATOM      4  CA  LEU     4     -14.149  33.316   8.510  1.00  0.00              
ATOM      5  CA  ASP     5     -14.636  32.509  12.161  1.00  0.00              
ATOM      6  CA  LEU     6     -12.695  35.075  14.265  1.00  0.00              
ATOM      7  CA  HIS     7     -11.738  32.710  17.106  1.00  0.00              
ATOM      8  CA  GLN     8      -9.930  30.359  14.672  1.00  0.00              
ATOM      9  CA  MET     9      -8.099  32.896  12.583  1.00  0.00              
ATOM     10  CA  THR    10      -4.356  32.959  12.726  1.00  0.00              
ATOM     11  CA  THR    11      -2.502  36.279  12.027  1.00  0.00              
ATOM     12  CA  GLN    12      -1.066  34.864   8.868  1.00  0.00              
ATOM     13  CA  ASP    13      -4.439  33.858   7.553  1.00  0.00              
ATOM     14  CA  LEU    14      -5.982  37.217   8.300  1.00  0.00              
ATOM     15  CA  VAL    15      -3.103  39.104   6.795  1.00  0.00              
ATOM     16  CA  ALA    16      -3.132  37.137   3.575  1.00  0.00              
ATOM     17  CA  LEU    17      -6.898  37.594   3.185  1.00  0.00              
ATOM     18  CA  PHE    18      -6.733  41.276   3.782  1.00  0.00              
ATOM     19  CA  ALA    19      -3.872  41.716   1.285  1.00  0.00              
ATOM     20  CA  LYS    20      -5.739  39.777  -1.364  1.00  0.00              
ATOM     21  CA  VAL    21      -8.840  41.977  -0.988  1.00  0.00              
ATOM     22  CA  THR    22      -6.819  45.185  -1.262  1.00  0.00              
ATOM     23  CA  VAL    23      -5.048  43.817  -4.311  1.00  0.00              
ATOM     24  CA  GLU    24      -8.182  42.748  -6.149  1.00  0.00              
ATOM     25  CA  GLN    25      -9.950  46.051  -5.739  1.00  0.00              
ATOM     26  CA  ASP    26      -7.067  48.135  -6.931  1.00  0.00              
ATOM     27  CA  ASP    27      -6.256  46.136 -10.038  1.00  0.00              
ATOM     28  CA  ALA    28      -9.774  45.788 -11.327  1.00  0.00              
ATOM     29  CA  LEU    29     -10.632  49.454 -11.025  1.00  0.00              
ATOM     30  CA  LEU    30      -7.415  50.591 -12.801  1.00  0.00              
ATOM     31  CA  GLY    31      -7.968  48.294 -15.758  1.00  0.00              
ATOM     32  CA  ASN    32     -11.638  49.313 -16.165  1.00  0.00              
ATOM     33  CA  GLN    33     -13.125  45.875 -16.503  1.00  0.00              
ATOM     34  CA  ILE    34     -16.866  46.473 -16.807  1.00  0.00              
ATOM     35  CA  SER    35     -18.176  43.033 -15.773  1.00  0.00              
ATOM     36  CA  ARG    36     -15.615  42.224 -13.156  1.00  0.00              
ATOM     37  CA  PHE    37     -15.872  45.855 -11.919  1.00  0.00              
ATOM     38  CA  ASN    38     -19.577  45.522 -11.367  1.00  0.00              
ATOM     39  CA  ARG    39     -18.943  42.276  -9.400  1.00  0.00              
ATOM     40  CA  LEU    40     -16.277  44.035  -7.310  1.00  0.00              
ATOM     41  CA  PHE    41     -18.664  46.932  -6.625  1.00  0.00              
ATOM     42  CA  GLY    42     -21.476  44.602  -5.574  1.00  0.00              
ATOM     43  CA  VAL    43     -19.214  42.924  -3.009  1.00  0.00              
ATOM     44  CA  MET    44     -18.096  46.297  -1.658  1.00  0.00              
ATOM     45  CA  ALA    45     -21.718  47.450  -1.513  1.00  0.00              
ATOM     46  CA  GLU    46     -22.711  44.348   0.513  1.00  0.00              
ATOM     47  CA  ILE    47     -19.802  44.995   2.931  1.00  0.00              
ATOM     48  CA  ALA    48     -20.833  48.658   3.316  1.00  0.00              
ATOM     49  CA  ASP    49     -24.426  47.650   4.002  1.00  0.00              
ATOM     50  CA  GLU    50     -23.283  45.194   6.724  1.00  0.00              
ATOM     51  CA  LEU    51     -21.103  47.840   8.340  1.00  0.00              
ATOM     52  CA  LYS    52     -23.904  50.443   8.170  1.00  0.00              
ATOM     53  CA  ALA    53     -26.255  47.975   9.872  1.00  0.00              
ATOM     54  CA  ARG    54     -23.954  47.441  12.887  1.00  0.00              
ATOM     55  CA  ASP    55     -25.592  49.093  15.839  1.00  0.00              
ATOM     56  CA  GLY    56     -24.337  52.699  16.251  1.00  0.00              
ATOM     57  CA  ASP    57     -22.444  52.296  19.413  1.00  0.00              
ATOM     58  CA  GLN    58     -20.506  49.237  18.277  1.00  0.00              
ATOM     59  CA  ARG    59     -19.577  50.071  14.743  1.00  0.00              
ATOM     60  CA  THR    60     -18.253  53.443  15.725  1.00  0.00              
ATOM     61  CA  ALA    61     -16.115  51.917  18.524  1.00  0.00              
ATOM     62  CA  LEU    62     -14.714  49.305  16.135  1.00  0.00              
ATOM     63  CA  LEU    63     -13.836  51.920  13.519  1.00  0.00              
ATOM     64  CA  SER    64     -12.087  53.985  16.111  1.00  0.00              
ATOM     65  CA  LEU    65     -10.083  51.069  17.364  1.00  0.00              
ATOM     66  CA  PHE    66      -8.814  50.274  13.826  1.00  0.00              
ATOM     67  CA  GLU    67      -7.346  53.772  13.652  1.00  0.00              
ATOM     68  CA  TYR    68      -5.499  53.455  16.915  1.00  0.00              
ATOM     69  CA  PRO    69      -1.688  53.402  16.584  1.00  0.00              
ATOM     70  CA  ASN    70      -1.171  50.454  18.860  1.00  0.00              
ATOM     71  CA  MET    71      -2.295  51.518  22.290  1.00  0.00              
ATOM     72  CA  GLN    72      -3.768  48.132  23.175  1.00  0.00              
ATOM     73  CA  VAL    73      -4.181  46.281  19.921  1.00  0.00              
ATOM     74  CA  ARG    74      -6.441  43.527  19.057  1.00  0.00              
ATOM     75  CA  LEU    75      -6.035  41.566  15.871  1.00  0.00              
ATOM     76  CA  GLN    76      -9.088  39.279  15.429  1.00  0.00              
ATOM     77  CA  ALA    77     -11.753  41.821  16.495  1.00  0.00              
ATOM     78  CA  ALA    78     -10.464  44.508  14.105  1.00  0.00              
ATOM     79  CA  LYS    79     -10.421  41.959  11.235  1.00  0.00              
ATOM     80  CA  LEU    80     -13.929  40.666  12.079  1.00  0.00              
ATOM     81  CA  THR    81     -15.437  44.091  12.294  1.00  0.00              
ATOM     82  CA  LEU    82     -14.111  45.313   8.984  1.00  0.00              
ATOM     83  CA  ALA    83     -15.576  48.036   6.694  1.00  0.00              
ATOM     84  CA  VAL    84     -14.535  47.764   3.103  1.00  0.00              
ATOM     85  CA  ALA    85     -13.247  50.856   1.257  1.00  0.00              
ATOM     86  CA  PRO    86     -10.295  50.076  -1.012  1.00  0.00              
ATOM     87  CA  VAL    87      -7.949  52.831   0.129  1.00  0.00              
ATOM     88  CA  LYS    88      -8.577  52.331   3.876  1.00  0.00              
ATOM     89  CA  ALA    89      -8.299  48.594   3.587  1.00  0.00              
ATOM     90  CA  ARG    90      -4.908  48.897   1.816  1.00  0.00              
ATOM     91  CA  GLU    91      -3.602  51.177   4.496  1.00  0.00              
ATOM     92  CA  GLN    92      -4.696  48.940   7.376  1.00  0.00              
ATOM     93  CA  LEU    93      -3.151  45.875   5.854  1.00  0.00              
ATOM     94  CA  GLU    94       0.108  47.682   5.274  1.00  0.00              
ATOM     95  CA  ALA    95       0.192  48.942   8.832  1.00  0.00              
ATOM     96  CA  ILE    96      -0.421  45.420  10.216  1.00  0.00              
ATOM     97  CA  VAL    97       2.231  43.922   8.059  1.00  0.00              
ATOM     98  CA  SER    98       4.772  46.615   9.133  1.00  0.00              
ATOM     99  CA  SER    99       4.129  46.387  12.829  1.00  0.00              
ATOM    100  CA  LYS   100       4.939  42.634  13.025  1.00  0.00              
ATOM    101  CA  TRP   101       1.591  41.230  13.208  1.00  0.00              
ATOM    102  CA  PHE   102       1.558  40.225  16.832  1.00  0.00              
ATOM    103  CA  PRO   103      -0.889  42.624  18.383  1.00  0.00              
ATOM    104  CA  GLN   104      -2.971  40.424  20.741  1.00  0.00              
ATOM    105  CA  ALA   105      -3.416  42.311  23.992  1.00  0.00              
ATOM    106  CA  GLY   106      -7.101  42.585  24.542  1.00  0.00              
ATOM    107  CA  ASP   107      -8.660  39.296  23.489  1.00  0.00              
ATOM    108  CA  ALA   108     -11.332  39.968  20.852  1.00  0.00              
ATOM    109  CA  GLY   109     -14.337  38.640  22.782  1.00  0.00              
ATOM    110  CA  MET   110     -13.261  40.761  25.751  1.00  0.00              
ATOM    111  CA  CYS   111     -12.880  43.914  23.686  1.00  0.00              
ATOM    112  CA  LEU   112     -16.239  43.748  21.987  1.00  0.00              
ATOM    113  CA  ASP   113     -17.905  43.212  25.379  1.00  0.00              
ATOM    114  CA  LEU   114     -16.031  46.165  26.920  1.00  0.00              
ATOM    115  CA  LEU   115     -16.948  48.531  24.087  1.00  0.00              
ATOM    116  CA  ASP   116     -20.626  47.595  24.232  1.00  0.00              
ATOM    117  CA  ASP   117     -20.721  47.977  28.058  1.00  0.00              
ATOM    118  CA  GLY   118     -19.152  51.395  28.156  1.00  0.00              
ATOM    119  CA  THR   119     -15.915  50.281  29.804  1.00  0.00              
ATOM    120  CA  PHE   120     -13.216  50.157  27.200  1.00  0.00              
ATOM    121  CA  LYS   121     -10.035  51.737  27.750  1.00  0.00              
ATOM    122  CA  PRO   122      -7.896  50.822  24.251  1.00  0.00              
ATOM    123  CA  LYS   123      -6.650  54.485  22.653  1.00  0.00              
TER                                                                             
END
