
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  121 (  929),  selected  121 , name T0382.pdb
# PARAMETERS: T0382TS599_4.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      L       6           -
LGA    D       5      H       7           -
LGA    L       6      Q       8           -
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      -       -           -
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           #
LGA    D      55      T      10          1.648
LGA    G      56      T      11           #
LGA    -       -      Q      12           -
LGA    D      57      D      13          3.962
LGA    Q      58      L      14          1.662
LGA    R      59      V      15          2.604
LGA    T      60      A      16          3.078
LGA    A      61      L      17          2.311
LGA    L      62      F      18          1.010
LGA    L      63      A      19          1.045
LGA    S      64      K      20          2.174
LGA    L      65      V      21          3.945
LGA    F      66      T      22          3.659
LGA    E      67      V      23          1.742
LGA    -       -      E      24           -
LGA    Y      68      Q      25          2.729
LGA    P      69      D      26          3.243
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           #
LGA    -       -      G      42           -
LGA    -       -      V      43           -
LGA    R      74      M      44          4.530
LGA    L      75      A      45          3.266
LGA    -       -      E      46           -
LGA    Q      76      I      47          3.298
LGA    A      77      A      48          4.120
LGA    A      78      D      49           #
LGA    K      79      E      50           #
LGA    L      80      L      51          2.917
LGA    -       -      K      52           -
LGA    -       -      A      53           -
LGA    -       -      R      54           -
LGA    -       -      D      55           -
LGA    -       -      G      56           -
LGA    -       -      D      57           -
LGA    T      81      Q      58          2.159
LGA    L      82      R      59          2.993
LGA    A      83      T      60          2.331
LGA    -       -      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    V      84      T      81          2.693
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    A      85      A      85          0.731
LGA    P      86      P      86          1.254
LGA    V      87      V      87          2.066
LGA    K      88      K      88          1.842
LGA    A      89      A      89          1.474
LGA    R      90      R      90          1.628
LGA    E      91      E      91          1.440
LGA    Q      92      Q      92          0.803
LGA    L      93      L      93          0.975
LGA    E      94      E      94          1.188
LGA    A      95      A      95          0.600
LGA    I      96      I      96          0.865
LGA    V      97      V      97          1.216
LGA    S      98      S      98          0.912
LGA    S      99      S      99          1.075
LGA    K     100      K     100          1.932
LGA    W     101      W     101          2.205
LGA    F     102      F     102          3.257
LGA    -       -      P     103           -
LGA    P     103      Q     104          2.049
LGA    -       -      A     105           -
LGA    -       -      G     106           -
LGA    -       -      D     107           -
LGA    Q     104      A     108          1.899
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    G     109      F     120          5.576
LGA    M     110      K     121          4.954
LGA    C     111      P     122          4.974
LGA    L     112      -       -           -
LGA    D     113      K     123          1.976
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     47    2.65    44.68     27.501     1.712

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.273491 * X  +   0.907360 * Y  +  -0.319217 * Z  + -19.640444
  Y_new =  -0.959223 * X  +  -0.281906 * Y  +   0.020515 * Z  +  48.658279
  Z_new =  -0.071375 * X  +   0.311811 * Y  +   0.947459 * Z  +  -4.610796 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.317938   -2.823655  [ DEG:    18.2165   -161.7835 ]
  Theta =   0.071436    3.070157  [ DEG:     4.0930    175.9070 ]
  Phi   =  -1.848544    1.293048  [ DEG:  -105.9138     74.0862 ]
 
# 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                                  
REMARK     2: T0382.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_4.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   47   2.65   44.68  27.501
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_4
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -22.059  48.735  -7.032  1.00  0.00              
ATOM      2  CA  SER     2     -21.926  51.295  -4.513  1.00  0.00              
ATOM      3  CA  LYS     3     -21.351  50.728  -0.609  1.00  0.00              
ATOM      4  CA  LEU     4     -21.590  47.119  -1.054  1.00  0.00              
ATOM      5  CA  ASP     5     -23.146  45.544   2.064  1.00  0.00              
ATOM      6  CA  LEU     6     -21.632  42.101   2.629  1.00  0.00              
ATOM      7  CA  HIS     7     -24.446  40.607   4.714  1.00  0.00              
ATOM      8  CA  GLN     8     -27.043  41.182   1.958  1.00  0.00              
ATOM      9  CA  MET     9     -25.159  39.740  -0.953  1.00  0.00              
ATOM     10  CA  THR    10     -26.071  36.777  -3.087  1.00  0.00              
ATOM     11  CA  THR    11     -24.785  37.028  -6.668  1.00  0.00              
ATOM     12  CA  GLN    12     -28.215  36.864  -8.186  1.00  0.00              
ATOM     13  CA  ASP    13     -29.380  39.605  -5.785  1.00  0.00              
ATOM     14  CA  LEU    14     -26.387  41.799  -6.672  1.00  0.00              
ATOM     15  CA  VAL    15     -26.916  41.326 -10.363  1.00  0.00              
ATOM     16  CA  ALA    16     -30.575  42.226 -10.051  1.00  0.00              
ATOM     17  CA  LEU    17     -29.854  45.342  -8.027  1.00  0.00              
ATOM     18  CA  PHE    18     -27.300  46.480 -10.599  1.00  0.00              
ATOM     19  CA  ALA    19     -29.797  45.866 -13.451  1.00  0.00              
ATOM     20  CA  LYS    20     -32.403  47.878 -11.575  1.00  0.00              
ATOM     21  CA  VAL    21     -29.913  50.774 -11.284  1.00  0.00              
ATOM     22  CA  THR    22     -29.174  50.553 -15.007  1.00  0.00              
ATOM     23  CA  VAL    23     -32.901  50.605 -15.788  1.00  0.00              
ATOM     24  CA  GLU    24     -33.502  53.631 -13.533  1.00  0.00              
ATOM     25  CA  GLN    25     -30.683  55.581 -15.182  1.00  0.00              
ATOM     26  CA  ASP    26     -32.194  54.812 -18.606  1.00  0.00              
ATOM     27  CA  ASP    27     -35.587  56.277 -17.620  1.00  0.00              
ATOM     28  CA  ALA    28     -33.794  59.374 -16.322  1.00  0.00              
ATOM     29  CA  LEU    29     -32.036  59.865 -19.671  1.00  0.00              
ATOM     30  CA  LEU    30     -35.294  59.907 -21.615  1.00  0.00              
ATOM     31  CA  GLY    31     -36.642  62.529 -19.227  1.00  0.00              
ATOM     32  CA  ASN    32     -33.462  64.606 -19.348  1.00  0.00              
ATOM     33  CA  GLN    33     -33.306  65.253 -23.055  1.00  0.00              
ATOM     34  CA  ILE    34     -29.857  64.537 -24.312  1.00  0.00              
ATOM     35  CA  SER    35     -26.150  65.049 -24.144  1.00  0.00              
ATOM     36  CA  ARG    36     -25.545  64.487 -20.385  1.00  0.00              
ATOM     37  CA  PHE    37     -28.191  61.740 -20.453  1.00  0.00              
ATOM     38  CA  ASN    38     -26.216  59.792 -23.130  1.00  0.00              
ATOM     39  CA  ARG    39     -23.004  60.138 -21.092  1.00  0.00              
ATOM     40  CA  LEU    40     -24.728  58.913 -17.925  1.00  0.00              
ATOM     41  CA  PHE    41     -26.169  55.970 -19.866  1.00  0.00              
ATOM     42  CA  GLY    42     -22.772  55.016 -21.166  1.00  0.00              
ATOM     43  CA  VAL    43     -21.258  55.088 -17.653  1.00  0.00              
ATOM     44  CA  MET    44     -24.060  53.031 -16.069  1.00  0.00              
ATOM     45  CA  ALA    45     -23.892  50.545 -18.867  1.00  0.00              
ATOM     46  CA  GLU    46     -20.184  50.128 -18.422  1.00  0.00              
ATOM     47  CA  ILE    47     -20.390  49.584 -14.661  1.00  0.00              
ATOM     48  CA  ALA    48     -23.184  46.980 -14.981  1.00  0.00              
ATOM     49  CA  ASP    49     -21.338  45.114 -17.641  1.00  0.00              
ATOM     50  CA  GLU    50     -18.163  45.031 -15.621  1.00  0.00              
ATOM     51  CA  LEU    51     -19.791  43.770 -12.476  1.00  0.00              
ATOM     52  CA  LYS    52     -21.597  40.942 -14.358  1.00  0.00              
ATOM     53  CA  ALA    53     -18.468  39.828 -16.125  1.00  0.00              
ATOM     54  CA  ARG    54     -16.464  39.720 -12.841  1.00  0.00              
ATOM     55  CA  ASP    55     -15.462  36.189 -12.621  1.00  0.00              
ATOM     56  CA  GLY    56     -16.836  33.900 -10.017  1.00  0.00              
ATOM     57  CA  ASP    57     -13.365  33.722  -8.352  1.00  0.00              
ATOM     58  CA  GLN    58     -13.218  37.481  -7.797  1.00  0.00              
ATOM     59  CA  ARG    59     -16.652  37.499  -6.222  1.00  0.00              
ATOM     60  CA  THR    60     -15.661  34.661  -3.879  1.00  0.00              
ATOM     61  CA  ALA    61     -12.629  36.631  -2.699  1.00  0.00              
ATOM     62  CA  LEU    62     -15.032  39.480  -1.840  1.00  0.00              
ATOM     63  CA  LEU    63     -17.349  37.185   0.096  1.00  0.00              
ATOM     64  CA  SER    64     -14.374  35.884   2.062  1.00  0.00              
ATOM     65  CA  LEU    65     -13.248  39.428   2.841  1.00  0.00              
ATOM     66  CA  PHE    66     -16.715  40.331   4.118  1.00  0.00              
ATOM     67  CA  GLU    67     -16.442  37.564   6.705  1.00  0.00              
ATOM     68  CA  TYR    68     -13.108  38.832   7.880  1.00  0.00              
ATOM     69  CA  PRO    69     -13.082  40.380  11.310  1.00  0.00              
ATOM     70  CA  ASN    70     -10.721  43.177  10.203  1.00  0.00              
ATOM     71  CA  MET    71     -13.147  45.998   9.313  1.00  0.00              
ATOM     72  CA  GLN    72     -10.968  47.442   6.599  1.00  0.00              
ATOM     73  CA  VAL    73     -10.252  44.355   4.425  1.00  0.00              
ATOM     74  CA  ARG    74      -9.879  45.068   0.724  1.00  0.00              
ATOM     75  CA  LEU    75      -9.645  42.583  -2.145  1.00  0.00              
ATOM     76  CA  GLN    76      -8.840  44.708  -5.186  1.00  0.00              
ATOM     77  CA  ALA    77     -11.019  43.071  -7.842  1.00  0.00              
ATOM     78  CA  ALA    78     -13.858  43.264  -5.330  1.00  0.00              
ATOM     79  CA  LYS    79     -13.371  46.949  -4.489  1.00  0.00              
ATOM     80  CA  LEU    80     -12.976  47.903  -8.153  1.00  0.00              
ATOM     81  CA  THR    81     -15.963  45.881  -9.401  1.00  0.00              
ATOM     82  CA  LEU    82     -18.142  47.491  -6.656  1.00  0.00              
ATOM     83  CA  ALA    83     -17.326  51.213  -6.195  1.00  0.00              
ATOM     84  CA  VAL    84     -18.267  52.516  -2.786  1.00  0.00              
ATOM     85  CA  ALA    85     -19.443  56.118  -2.533  1.00  0.00              
ATOM     86  CA  PRO    86     -17.525  57.951   0.263  1.00  0.00              
ATOM     87  CA  VAL    87     -20.559  59.479   1.971  1.00  0.00              
ATOM     88  CA  LYS    88     -22.372  56.176   2.054  1.00  0.00              
ATOM     89  CA  ALA    89     -19.304  54.417   3.522  1.00  0.00              
ATOM     90  CA  ARG    90     -19.260  56.835   6.483  1.00  0.00              
ATOM     91  CA  GLU    91     -22.933  56.192   7.008  1.00  0.00              
ATOM     92  CA  GLN    92     -22.489  52.429   6.951  1.00  0.00              
ATOM     93  CA  LEU    93     -19.639  52.542   9.436  1.00  0.00              
ATOM     94  CA  GLU    94     -21.693  54.703  11.720  1.00  0.00              
ATOM     95  CA  ALA    95     -24.691  52.299  11.549  1.00  0.00              
ATOM     96  CA  ILE    96     -22.401  49.405  12.386  1.00  0.00              
ATOM     97  CA  VAL    97     -20.924  51.324  15.360  1.00  0.00              
ATOM     98  CA  SER    98     -24.418  52.124  16.670  1.00  0.00              
ATOM     99  CA  SER    99     -25.571  48.476  16.407  1.00  0.00              
ATOM    100  CA  LYS   100     -22.485  47.148  18.228  1.00  0.00              
ATOM    101  CA  TRP   101     -20.800  45.436  15.323  1.00  0.00              
ATOM    102  CA  PHE   102     -17.159  46.617  15.606  1.00  0.00              
ATOM    103  CA  PRO   103     -16.140  47.012  12.003  1.00  0.00              
ATOM    104  CA  GLN   104     -14.417  50.426  11.787  1.00  0.00              
ATOM    105  CA  ALA   105     -11.439  50.431   9.477  1.00  0.00              
ATOM    106  CA  GLY   106     -12.806  51.614   6.093  1.00  0.00              
ATOM    107  CA  ASP   107     -11.688  55.212   6.057  1.00  0.00              
ATOM    108  CA  ALA   108     -13.598  56.636   3.069  1.00  0.00              
ATOM    109  CA  GLY   109     -10.757  58.629   1.505  1.00  0.00              
ATOM    110  CA  MET   110      -8.147  55.970   2.122  1.00  0.00              
ATOM    111  CA  CYS   111     -10.090  52.950   0.739  1.00  0.00              
ATOM    112  CA  LEU   112     -11.181  54.805  -2.368  1.00  0.00              
ATOM    113  CA  ASP   113      -7.601  56.017  -3.017  1.00  0.00              
ATOM    114  CA  LEU   114      -6.113  52.553  -2.633  1.00  0.00              
ATOM    115  CA  LEU   115      -8.717  51.092  -5.010  1.00  0.00              
ATOM    116  CA  ASP   116      -8.094  53.684  -7.679  1.00  0.00              
ATOM    117  CA  ASP   117      -4.362  52.975  -7.436  1.00  0.00              
ATOM    118  CA  GLY   118      -4.835  49.208  -7.744  1.00  0.00              
ATOM    119  CA  THR   119      -3.427  48.189  -4.403  1.00  0.00              
ATOM    120  CA  PHE   120      -5.559  46.414  -2.026  1.00  0.00              
ATOM    121  CA  LYS   121      -4.845  42.750  -0.902  1.00  0.00              
ATOM    122  CA  PRO   122      -5.906  41.967   2.668  1.00  0.00              
ATOM    123  CA  LYS   123      -4.898  38.568   3.203  1.00  0.00              
TER                                                                             
END
