
#######################################################
#                                                     #
#                        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_2-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS599_2-D1.T0382_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
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    L       4      E      24          2.584
LGA    -       -      Q      25           -
LGA    D       5      D      26          4.901
LGA    L       6      D      27          3.302
LGA    H       7      -       -           -
LGA    Q       8      A      28          4.591
LGA    M       9      L      29          4.493
LGA    -       -      L      30           -
LGA    -       -      G      31           -
LGA    -       -      N      32           -
LGA    T      10      Q      33          1.299
LGA    T      11      I      34          1.354
LGA    Q      12      S      35          1.571
LGA    D      13      R      36          1.146
LGA    L      14      F      37          0.911
LGA    V      15      N      38          0.953
LGA    A      16      R      39          1.209
LGA    L      17      L      40          1.233
LGA    F      18      F      41          1.108
LGA    A      19      G      42          1.086
LGA    K      20      V      43          1.340
LGA    V      21      M      44          1.472
LGA    T      22      A      45          1.287
LGA    V      23      E      46          1.458
LGA    E      24      I      47          1.661
LGA    Q      25      A      48          1.547
LGA    D      26      D      49          1.549
LGA    D      27      E      50          2.431
LGA    A      28      L      51          2.765
LGA    L      29      K      52          2.092
LGA    L      30      A      53          2.088
LGA    G      31      R      54          3.510
LGA    N      32      D      55          1.673
LGA    Q      33      -       -           -
LGA    I      34      G      56           #
LGA    S      35      D      57           -
LGA    R      36      -       -           -
LGA    F      37      Q      58          2.722
LGA    N      38      R      59           #
LGA    R      39      -       -           -
LGA    L      40      -       -           -
LGA    F      41      T      60          2.653
LGA    G      42      A      61          2.945
LGA    V      43      L      62          2.616
LGA    M      44      L      63          3.918
LGA    A      45      S      64          4.179
LGA    E      46      L      65          1.724
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    I      47      R      74          2.767
LGA    -       -      L      75           -
LGA    -       -      Q      76           -
LGA    -       -      A      77           -
LGA    A      48      A      78          3.215
LGA    D      49      K      79           -
LGA    E      50      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          4.627
LGA    K      52      L      93          4.356
LGA    -       -      E      94           -
LGA    A      53      A      95          3.813
LGA    R      54      I      96          2.932
LGA    -       -      V      97           -
LGA    D      55      S      98          2.867
LGA    G      56      S      99          4.679
LGA    D      57      K     100          4.264
LGA    Q      58      W     101          4.434
LGA    R      59      F     102           #
LGA    -       -      P     103           -
LGA    -       -      Q     104           -
LGA    T      60      A     105          4.699
LGA    A      61      G     106          2.906
LGA    L      62      D     107          3.456
LGA    L      63      A     108          2.638
LGA    S      64      G     109          4.077
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    P      86      L     114           -
LGA    -       -      L     115           -
LGA    -       -      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    V      87      P     122          5.582
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      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  119  119    5.0     51    3.01    11.76     27.814     1.639

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.635979 * X  +  -0.208503 * Y  +   0.743006 * Z  + -11.284228
  Y_new =   0.767805 * X  +   0.267663 * Y  +  -0.582093 * Z  +  45.151188
  Z_new =  -0.077508 * X  +   0.940682 * Y  +   0.330318 * Z  +   8.993701 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.233100   -1.908492  [ DEG:    70.6514   -109.3486 ]
  Theta =   0.077585    3.064007  [ DEG:     4.4453    175.5547 ]
  Phi   =   0.879031   -2.262561  [ DEG:    50.3648   -129.6352 ]
 
# 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_2-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_2-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   51   3.01   11.76  27.814
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_2-D1
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      4  CA  LEU     4     -14.735  33.517   8.822  1.00  0.00              
ATOM      5  CA  ASP     5     -15.181  32.807  12.500  1.00  0.00              
ATOM      6  CA  LEU     6     -13.109  35.334  14.512  1.00  0.00              
ATOM      7  CA  HIS     7     -12.195  32.989  17.381  1.00  0.00              
ATOM      8  CA  GLN     8     -10.524  30.521  14.971  1.00  0.00              
ATOM      9  CA  MET     9      -8.639  32.940  12.805  1.00  0.00              
ATOM     10  CA  THR    10      -4.855  32.872  12.868  1.00  0.00              
ATOM     11  CA  THR    11      -2.916  36.025  12.087  1.00  0.00              
ATOM     12  CA  GLN    12      -1.594  34.523   8.901  1.00  0.00              
ATOM     13  CA  ASP    13      -5.033  33.649   7.683  1.00  0.00              
ATOM     14  CA  LEU    14      -6.410  37.069   8.391  1.00  0.00              
ATOM     15  CA  VAL    15      -3.494  38.820   6.801  1.00  0.00              
ATOM     16  CA  ALA    16      -3.671  36.802   3.617  1.00  0.00              
ATOM     17  CA  LEU    17      -7.411  37.382   3.279  1.00  0.00              
ATOM     18  CA  PHE    18      -7.095  41.096   3.784  1.00  0.00              
ATOM     19  CA  ALA    19      -4.265  41.334   1.249  1.00  0.00              
ATOM     20  CA  LYS    20      -6.248  39.457  -1.322  1.00  0.00              
ATOM     21  CA  VAL    21      -9.248  41.770  -0.951  1.00  0.00              
ATOM     22  CA  THR    22      -7.086  44.892  -1.299  1.00  0.00              
ATOM     23  CA  VAL    23      -5.446  43.411  -4.371  1.00  0.00              
ATOM     24  CA  GLU    24      -8.662  42.405  -6.123  1.00  0.00              
ATOM     25  CA  GLN    25     -10.277  45.798  -5.770  1.00  0.00              
ATOM     26  CA  ASP    26      -7.335  47.725  -7.047  1.00  0.00              
ATOM     27  CA  ASP    27      -6.665  45.636 -10.115  1.00  0.00              
ATOM     28  CA  ALA    28     -10.223  45.424 -11.340  1.00  0.00              
ATOM     29  CA  LEU    29     -10.905  49.107 -11.100  1.00  0.00              
ATOM     30  CA  LEU    30      -7.682  50.077 -12.949  1.00  0.00              
ATOM     31  CA  GLY    31      -8.404  47.756 -15.862  1.00  0.00              
ATOM     32  CA  ASN    32     -12.007  48.900 -16.219  1.00  0.00              
ATOM     33  CA  GLN    33     -13.666  45.542 -16.459  1.00  0.00              
ATOM     34  CA  ILE    34     -17.375  46.303 -16.706  1.00  0.00              
ATOM     35  CA  SER    35     -18.804  42.931 -15.580  1.00  0.00              
ATOM     36  CA  ARG    36     -16.232  42.058 -13.001  1.00  0.00              
ATOM     37  CA  PHE    37     -16.315  45.717 -11.817  1.00  0.00              
ATOM     38  CA  ASN    38     -20.015  45.551 -11.200  1.00  0.00              
ATOM     39  CA  ARG    39     -19.493  42.343  -9.194  1.00  0.00              
ATOM     40  CA  LEU    40     -16.710  44.009  -7.166  1.00  0.00              
ATOM     41  CA  PHE    41     -18.956  47.023  -6.515  1.00  0.00              
ATOM     42  CA  GLY    42     -21.851  44.830  -5.355  1.00  0.00              
ATOM     43  CA  VAL    43     -19.620  43.093  -2.797  1.00  0.00              
ATOM     44  CA  MET    44     -18.324  46.460  -1.532  1.00  0.00              
ATOM     45  CA  ALA    45     -21.905  47.762  -1.339  1.00  0.00              
ATOM     46  CA  GLU    46     -22.988  44.745   0.750  1.00  0.00              
ATOM     47  CA  ILE    47     -20.009  45.317   3.112  1.00  0.00              
ATOM     48  CA  ALA    48     -20.878  49.023   3.437  1.00  0.00              
ATOM     49  CA  ASP    49     -24.491  48.182   4.207  1.00  0.00              
ATOM     50  CA  GLU    50     -23.400  45.737   6.963  1.00  0.00              
ATOM     51  CA  LEU    51     -21.079  48.307   8.489  1.00  0.00              
ATOM     52  CA  LYS    52     -23.776  51.023   8.316  1.00  0.00              
ATOM     53  CA  ALA    53     -26.206  48.694  10.096  1.00  0.00              
ATOM     54  CA  ARG    54     -23.882  48.112  13.079  1.00  0.00              
ATOM     55  CA  ASP    55     -25.397  49.900  16.023  1.00  0.00              
ATOM     56  CA  GLY    56     -24.006  53.434  16.361  1.00  0.00              
ATOM     57  CA  ASP    57     -22.084  53.045  19.491  1.00  0.00              
ATOM     58  CA  GLN    58     -20.277  49.839  18.383  1.00  0.00              
ATOM     59  CA  ARG    59     -19.354  50.585  14.825  1.00  0.00              
ATOM     60  CA  THR    60     -17.889  53.937  15.724  1.00  0.00              
ATOM     61  CA  ALA    61     -15.786  52.348  18.533  1.00  0.00              
ATOM     62  CA  LEU    62     -14.528  49.670  16.159  1.00  0.00              
ATOM     63  CA  LEU    63     -13.557  52.170  13.478  1.00  0.00              
ATOM     64  CA  SER    64     -11.715  54.190  16.039  1.00  0.00              
ATOM     65  CA  LEU    65      -9.825  51.201  17.319  1.00  0.00              
ATOM     66  CA  PHE    66      -8.583  50.309  13.765  1.00  0.00              
ATOM     67  CA  GLU    67      -7.068  53.770  13.414  1.00  0.00              
ATOM     68  CA  TYR    68      -5.056  53.421  16.559  1.00  0.00              
ATOM     69  CA  PRO    69      -1.307  53.315  16.250  1.00  0.00              
ATOM     70  CA  ASN    70      -0.802  50.372  18.586  1.00  0.00              
ATOM     71  CA  MET    71      -1.959  51.595  22.000  1.00  0.00              
ATOM     72  CA  GLN    72      -3.525  48.181  22.933  1.00  0.00              
ATOM     73  CA  VAL    73      -3.933  46.335  19.692  1.00  0.00              
ATOM     74  CA  ARG    74      -6.415  43.655  18.988  1.00  0.00              
ATOM     75  CA  LEU    75      -6.148  41.609  15.829  1.00  0.00              
ATOM     76  CA  GLN    76      -9.294  39.438  15.562  1.00  0.00              
ATOM     77  CA  ALA    77     -11.826  42.053  16.580  1.00  0.00              
ATOM     78  CA  ALA    78     -10.506  44.637  14.140  1.00  0.00              
ATOM     79  CA  LYS    79     -10.622  42.053  11.319  1.00  0.00              
ATOM     80  CA  LEU    80     -14.111  40.919  12.264  1.00  0.00              
ATOM     81  CA  THR    81     -15.492  44.424  12.415  1.00  0.00              
ATOM     82  CA  LEU    82     -14.197  45.526   9.061  1.00  0.00              
ATOM     83  CA  ALA    83     -15.594  48.260   6.728  1.00  0.00              
ATOM     84  CA  VAL    84     -14.638  47.859   3.124  1.00  0.00              
ATOM     85  CA  ALA    85     -13.263  50.871   1.189  1.00  0.00              
ATOM     86  CA  PRO    86     -10.385  49.917  -1.122  1.00  0.00              
ATOM     87  CA  VAL    87      -7.905  52.582  -0.063  1.00  0.00              
ATOM     88  CA  LYS    88      -8.477  52.210   3.680  1.00  0.00              
ATOM     89  CA  ALA    89      -8.377  48.461   3.480  1.00  0.00              
ATOM     90  CA  ARG    90      -4.990  48.541   1.669  1.00  0.00              
ATOM     91  CA  GLU    91      -3.551  50.899   4.237  1.00  0.00              
ATOM     92  CA  GLN    92      -4.689  48.732   7.216  1.00  0.00              
ATOM     93  CA  LEU    93      -3.313  45.568   5.691  1.00  0.00              
ATOM     94  CA  GLU    94       0.012  47.253   5.069  1.00  0.00              
ATOM     95  CA  ALA    95       0.214  48.543   8.573  1.00  0.00              
ATOM     96  CA  ILE    96      -0.512  45.101  10.034  1.00  0.00              
ATOM     97  CA  VAL    97       2.066  43.478   7.888  1.00  0.00              
ATOM     98  CA  SER    98       4.683  46.035   8.847  1.00  0.00              
ATOM     99  CA  SER    99       4.114  45.913  12.553  1.00  0.00              
ATOM    100  CA  LYS   100       4.812  42.154  12.796  1.00  0.00              
ATOM    101  CA  TRP   101       1.425  40.826  13.079  1.00  0.00              
ATOM    102  CA  PHE   102       1.394  39.939  16.716  1.00  0.00              
ATOM    103  CA  PRO   103      -0.919  42.494  18.226  1.00  0.00              
ATOM    104  CA  GLN   104      -3.078  40.517  20.687  1.00  0.00              
ATOM    105  CA  ALA   105      -3.366  42.461  23.915  1.00  0.00              
ATOM    106  CA  GLY   106      -7.020  42.891  24.479  1.00  0.00              
ATOM    107  CA  ASP   107      -8.685  39.650  23.606  1.00  0.00              
ATOM    108  CA  ALA   108     -11.372  40.295  20.960  1.00  0.00              
ATOM    109  CA  GLY   109     -14.426  39.091  22.997  1.00  0.00              
ATOM    110  CA  MET   110     -13.205  41.280  25.884  1.00  0.00              
ATOM    111  CA  CYS   111     -12.774  44.384  23.709  1.00  0.00              
ATOM    112  CA  LEU   112     -16.206  44.258  22.102  1.00  0.00              
ATOM    113  CA  ASP   113     -17.798  43.848  25.563  1.00  0.00              
ATOM    114  CA  LEU   114     -15.801  46.777  27.003  1.00  0.00              
ATOM    115  CA  LEU   115     -16.648  49.134  24.147  1.00  0.00              
ATOM    116  CA  ASP   116     -20.359  48.328  24.376  1.00  0.00              
ATOM    117  CA  ASP   117     -20.404  48.754  28.188  1.00  0.00              
ATOM    118  CA  GLY   118     -18.679  52.117  28.222  1.00  0.00              
ATOM    119  CA  THR   119     -15.475  50.845  29.853  1.00  0.00              
ATOM    120  CA  PHE   120     -12.819  50.563  27.203  1.00  0.00              
ATOM    121  CA  LYS   121      -9.542  51.976  27.590  1.00  0.00              
ATOM    122  CA  PRO   122      -7.513  50.668  24.143  1.00  0.00              
TER                                                                             
END
