
#######################################################
#                                                     #
#                        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 T0382TS168_3-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS168_3-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      -       -           -
LGA    L       6      -       -           -
LGA    H       7      -       -           -
LGA    Q       8      -       -           -
LGA    M       9      -       -           -
LGA    T      10      -       -           -
LGA    T      11      D       5           #
LGA    Q      12      -       -           -
LGA    D      13      -       -           -
LGA    L      14      -       -           -
LGA    V      15      L       6           #
LGA    A      16      H       7           -
LGA    L      17      Q       8           #
LGA    F      18      M       9          2.507
LGA    A      19      T      10          4.935
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      T      11          3.166
LGA    N      32      Q      12          2.683
LGA    Q      33      D      13          1.995
LGA    I      34      L      14          1.832
LGA    S      35      V      15          1.668
LGA    R      36      A      16          1.084
LGA    F      37      L      17          0.786
LGA    N      38      F      18          1.083
LGA    R      39      A      19          1.028
LGA    L      40      K      20          0.383
LGA    F      41      V      21          0.651
LGA    G      42      T      22          1.347
LGA    V      43      V      23          1.349
LGA    M      44      E      24          0.892
LGA    A      45      Q      25          1.012
LGA    E      46      D      26          1.585
LGA    I      47      D      27          1.535
LGA    A      48      A      28          1.153
LGA    D      49      L      29          1.762
LGA    E      50      L      30          2.250
LGA    L      51      G      31          1.598
LGA    K      52      N      32          1.613
LGA    A      53      Q      33          2.029
LGA    R      54      I      34          2.376
LGA    -       -      S      35           -
LGA    -       -      R      36           -
LGA    D      55      F      37          3.646
LGA    G      56      N      38          1.306
LGA    D      57      R      39          3.227
LGA    Q      58      L      40          4.032
LGA    R      59      F      41          3.263
LGA    T      60      G      42          1.815
LGA    A      61      V      43          2.965
LGA    -       -      M      44           -
LGA    L      62      A      45          1.768
LGA    L      63      E      46          4.450
LGA    -       -      I      47           -
LGA    -       -      A      48           -
LGA    S      64      D      49          5.139
LGA    L      65      E      50          2.932
LGA    F      66      L      51           -
LGA    E      67      -       -           -
LGA    Y      68      -       -           -
LGA    P      69      -       -           -
LGA    N      70      -       -           -
LGA    M      71      -       -           -
LGA    Q      72      -       -           -
LGA    V      73      -       -           -
LGA    R      74      K      52          0.875
LGA    L      75      A      53           #
LGA    -       -      R      54           -
LGA    -       -      D      55           -
LGA    -       -      G      56           -
LGA    Q      76      D      57          4.147
LGA    A      77      Q      58          3.769
LGA    A      78      R      59          4.095
LGA    K      79      T      60           #
LGA    L      80      A      61          4.123
LGA    T      81      L      62          3.823
LGA    L      82      L      63           #
LGA    -       -      S      64           -
LGA    A      83      L      65          3.994
LGA    V      84      F      66          5.006
LGA    -       -      E      67           -
LGA    A      85      Y      68           #
LGA    -       -      P      69           -
LGA    -       -      N      70           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    -       -      V      73           -
LGA    P      86      R      74          0.519
LGA    V      87      L      75           -
LGA    K      88      Q      76           -
LGA    A      89      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    -       -      Q      92           -
LGA    -       -      L      93           -
LGA    -       -      E      94           -
LGA    -       -      A      95           -
LGA    R      90      I      96           #
LGA    E      91      V      97           -
LGA    Q      92      S      98           -
LGA    L      93      S      99           #
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      K     100           #
LGA    G     106      W     101           #
LGA    D     107      F     102          3.511
LGA    A     108      P     103          2.862
LGA    G     109      Q     104          4.030
LGA    M     110      A     105           -
LGA    C     111      G     106           -
LGA    -       -      D     107           -
LGA    L     112      A     108           #
LGA    D     113      G     109           -
LGA    L     114      M     110           -
LGA    L     115      -       -           -
LGA    D     116      C     111           #
LGA    D     117      L     112          2.979
LGA    G     118      D     113          4.376
LGA    -       -      L     114           -
LGA    T     119      L     115          2.916
LGA    F     120      D     116          3.575
LGA    K     121      D     117          2.007
LGA    -       -      G     118           -
LGA    P     122      T     119          1.643
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     55    2.81     3.64     31.986     1.890

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.811599 * X  +  -0.211141 * Y  +   0.544727 * Z  + -14.542576
  Y_new =   0.493953 * X  +  -0.745886 * Y  +   0.446838 * Z  +  40.504013
  Z_new =   0.311958 * X  +   0.631723 * Y  +   0.709654 * Z  +   1.409506 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.727366   -2.414227  [ DEG:    41.6750   -138.3250 ]
  Theta =  -0.317253   -2.824339  [ DEG:   -18.1773   -161.8227 ]
  Phi   =   2.594861   -0.546732  [ DEG:   148.6746    -31.3254 ]
 
# 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: T0382TS168_3-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS168_3-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   55   2.81    3.64  31.986
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS168_3-D1
PFRMAT TS
TARGET T0382
MODEL 3
PARENT N/A
ATOM      4  CA  LEU     4     -10.156  18.663  -3.500  1.00 25.00           C
ATOM      5  CA  ASP     5     -10.168  21.988  -1.566  1.00 25.00           C
ATOM      6  CA  LEU     6     -13.795  22.973  -2.299  1.00 25.00           C
ATOM      7  CA  HIS     7     -13.057  26.577  -1.230  1.00 25.00           C
ATOM      8  CA  GLN     8      -9.980  26.649  -3.509  1.00 25.00           C
ATOM      9  CA  MET     9     -12.081  25.331  -6.428  1.00 25.00           C
ATOM     10  CA  THR    10     -14.722  28.026  -5.777  1.00 25.00           C
ATOM     11  CA  THR    11     -11.998  30.718  -5.725  1.00 25.00           C
ATOM     12  CA  GLN    12     -10.597  29.397  -9.036  1.00 25.00           C
ATOM     13  CA  ASP    13     -14.101  29.474 -10.578  1.00 25.00           C
ATOM     14  CA  LEU    14     -14.579  33.078  -9.373  1.00 25.00           C
ATOM     15  CA  VAL    15     -11.203  34.059 -10.890  1.00 25.00           C
ATOM     16  CA  ALA    16     -12.191  32.425 -14.209  1.00 25.00           C
ATOM     17  CA  LEU    17     -15.518  34.321 -14.181  1.00 25.00           C
ATOM     18  CA  PHE    18     -13.668  37.606 -13.513  1.00 25.00           C
ATOM     19  CA  ALA    19     -11.277  36.879 -16.415  1.00 25.00           C
ATOM     20  CA  LYS    20     -14.252  36.156 -18.716  1.00 25.00           C
ATOM     21  CA  VAL    21     -15.904  39.444 -17.656  1.00 25.00           C
ATOM     22  CA  THR    22     -17.950  40.917 -20.540  1.00 25.00           C
ATOM     23  CA  VAL    23     -21.121  42.045 -22.404  1.00 25.00           C
ATOM     24  CA  GLU    24     -23.040  43.939 -19.685  1.00 25.00           C
ATOM     25  CA  GLN    25     -24.498  40.645 -18.385  1.00 25.00           C
ATOM     26  CA  ASP    26     -20.994  39.101 -18.298  1.00 25.00           C
ATOM     27  CA  ASP    27     -19.677  42.137 -16.372  1.00 25.00           C
ATOM     28  CA  ALA    28     -22.561  41.833 -13.871  1.00 25.00           C
ATOM     29  CA  LEU    29     -21.799  38.108 -13.409  1.00 25.00           C
ATOM     30  CA  LEU    30     -18.103  38.912 -12.814  1.00 25.00           C
ATOM     31  CA  GLY    31     -19.070  41.563 -10.226  1.00 25.00           C
ATOM     32  CA  ASN    32     -21.354  39.044  -8.463  1.00 25.00           C
ATOM     33  CA  GLN    33     -18.516  36.473  -8.407  1.00 25.00           C
ATOM     34  CA  ILE    34     -16.141  39.091  -6.933  1.00 25.00           C
ATOM     35  CA  SER    35     -18.727  39.959  -4.244  1.00 25.00           C
ATOM     36  CA  ARG    36     -19.126  36.245  -3.396  1.00 25.00           C
ATOM     37  CA  PHE    37     -15.325  35.874  -3.122  1.00 25.00           C
ATOM     38  CA  ASN    38     -15.168  38.922  -0.809  1.00 25.00           C
ATOM     39  CA  ARG    39     -17.947  37.441   1.371  1.00 25.00           C
ATOM     40  CA  LEU    40     -16.061  34.113   1.557  1.00 25.00           C
ATOM     41  CA  PHE    41     -12.860  35.956   2.569  1.00 25.00           C
ATOM     42  CA  GLY    42     -14.781  37.849   5.289  1.00 25.00           C
ATOM     43  CA  VAL    43     -16.238  34.555   6.589  1.00 25.00           C
ATOM     44  CA  MET    44     -12.733  33.011   6.675  1.00 25.00           C
ATOM     45  CA  ALA    45     -11.416  36.048   8.601  1.00 25.00           C
ATOM     46  CA  GLU    46     -14.301  35.743  11.103  1.00 25.00           C
ATOM     47  CA  ILE    47     -13.539  32.017  11.564  1.00 25.00           C
ATOM     48  CA  ALA    48      -9.842  32.822  12.159  1.00 25.00           C
ATOM     49  CA  ASP    49     -10.810  35.473  14.748  1.00 25.00           C
ATOM     50  CA  GLU    50     -13.094  32.954  16.510  1.00 25.00           C
ATOM     51  CA  LEU    51     -10.256  30.383  16.567  1.00 25.00           C
ATOM     52  CA  LYS    52      -7.881  33.002  18.041  1.00 25.00           C
ATOM     53  CA  ALA    53      -5.938  34.280  15.067  1.00 25.00           C
ATOM     54  CA  ARG    54      -5.410  36.285  11.811  1.00 25.00           C
ATOM     55  CA  ASP    55      -4.341  39.628  10.264  1.00 25.00           C
ATOM     56  CA  GLY    56      -3.114  39.445   6.727  1.00 25.00           C
ATOM     57  CA  ASP    57      -5.576  38.275   4.012  1.00 25.00           C
ATOM     58  CA  GLN    58      -8.345  39.546   1.737  1.00 25.00           C
ATOM     59  CA  ARG    59      -6.699  42.947   2.360  1.00 25.00           C
ATOM     60  CA  THR    60      -3.571  41.807   0.467  1.00 25.00           C
ATOM     61  CA  ALA    61      -5.742  40.626  -2.458  1.00 25.00           C
ATOM     62  CA  LEU    62      -7.553  44.000  -2.508  1.00 25.00           C
ATOM     63  CA  LEU    63      -4.191  45.832  -2.524  1.00 25.00           C
ATOM     64  CA  SER    64      -2.985  43.645  -5.428  1.00 25.00           C
ATOM     65  CA  LEU    65      -6.204  44.395  -7.362  1.00 25.00           C
ATOM     66  CA  PHE    66      -5.730  48.145  -6.746  1.00 25.00           C
ATOM     67  CA  GLU    67      -2.113  47.917  -7.985  1.00 25.00           C
ATOM     68  CA  TYR    68      -1.385  50.093  -4.951  1.00 25.00           C
ATOM     69  CA  PRO    69      -3.002  53.000  -6.675  1.00 25.00           C
ATOM     70  CA  ASN    70      -6.450  53.489  -8.159  1.00 25.00           C
ATOM     71  CA  MET    71      -7.681  51.758 -11.348  1.00 25.00           C
ATOM     72  CA  GLN    72     -11.165  53.260 -10.827  1.00 25.00           C
ATOM     73  CA  VAL    73     -12.772  49.896 -11.699  1.00 25.00           C
ATOM     74  CA  ARG    74     -10.463  48.120  -9.213  1.00 25.00           C
ATOM     75  CA  LEU    75     -11.391  50.659  -6.501  1.00 25.00           C
ATOM     76  CA  GLN    76     -15.112  50.111  -7.225  1.00 25.00           C
ATOM     77  CA  ALA    77     -14.625  46.320  -6.981  1.00 25.00           C
ATOM     78  CA  ALA    78     -12.807  46.742  -3.638  1.00 25.00           C
ATOM     79  CA  LYS    79     -15.659  48.944  -2.338  1.00 25.00           C
ATOM     80  CA  LEU    80     -18.220  46.315  -3.429  1.00 25.00           C
ATOM     81  CA  THR    81     -16.212  43.584  -1.646  1.00 25.00           C
ATOM     82  CA  LEU    82     -16.082  45.720   1.530  1.00 25.00           C
ATOM     83  CA  ALA    83     -19.868  46.266   1.349  1.00 25.00           C
ATOM     84  CA  VAL    84     -20.417  42.498   0.940  1.00 25.00           C
ATOM     85  CA  ALA    85     -18.173  41.818   3.968  1.00 25.00           C
ATOM     86  CA  PRO    86     -20.137  44.380   6.029  1.00 25.00           C
ATOM     87  CA  VAL    87     -23.432  42.728   4.989  1.00 25.00           C
ATOM     88  CA  LYS    88     -22.057  39.298   5.993  1.00 25.00           C
ATOM     89  CA  ALA    89     -20.973  40.698   9.388  1.00 25.00           C
ATOM     90  CA  ARG    90     -24.457  42.201   9.909  1.00 25.00           C
ATOM     91  CA  GLU    91     -26.065  38.836   9.037  1.00 25.00           C
ATOM     92  CA  GLN    92     -23.755  37.060  11.523  1.00 25.00           C
ATOM     93  CA  LEU    93     -24.684  39.599  14.236  1.00 25.00           C
ATOM     94  CA  GLU    94     -28.404  39.050  13.511  1.00 25.00           C
ATOM     95  CA  ALA    95     -27.917  35.260  13.755  1.00 25.00           C
ATOM     96  CA  ILE    96     -26.099  35.682  17.099  1.00 25.00           C
ATOM     97  CA  VAL    97     -28.950  37.884  18.398  1.00 25.00           C
ATOM     98  CA  SER    98     -31.512  35.255  17.307  1.00 25.00           C
ATOM     99  CA  SER    99     -29.504  32.524  19.091  1.00 25.00           C
ATOM    100  CA  LYS   100     -27.553  34.008  22.022  1.00 25.00           C
ATOM    101  CA  TRP   101     -24.444  36.231  22.572  1.00 25.00           C
ATOM    102  CA  PHE   102     -22.458  39.041  20.931  1.00 25.00           C
ATOM    103  CA  PRO   103     -22.149  40.762  24.311  1.00 25.00           C
ATOM    104  CA  GLN   104     -19.821  43.742  24.246  1.00 25.00           C
ATOM    105  CA  ALA   105     -17.803  46.909  23.550  1.00 25.00           C
ATOM    106  CA  GLY   106     -15.279  48.763  21.418  1.00 25.00           C
ATOM    107  CA  ASP   107     -14.980  47.942  17.699  1.00 25.00           C
ATOM    108  CA  ALA   108     -14.852  45.718  14.557  1.00 25.00           C
ATOM    109  CA  GLY   109     -13.571  43.828  11.470  1.00 25.00           C
ATOM    110  CA  MET   110     -11.972  42.971   8.098  1.00 25.00           C
ATOM    111  CA  CYS   111     -15.076  44.269   6.268  1.00 25.00           C
ATOM    112  CA  LEU   112     -14.945  47.514   8.298  1.00 25.00           C
ATOM    113  CA  ASP   113     -11.234  47.927   7.444  1.00 25.00           C
ATOM    114  CA  LEU   114     -12.002  47.377   3.732  1.00 25.00           C
ATOM    115  CA  LEU   115     -14.794  49.993   3.896  1.00 25.00           C
ATOM    116  CA  ASP   116     -15.777  53.095   5.887  1.00 25.00           C
ATOM    117  CA  ASP   117     -15.684  56.272   8.047  1.00 25.00           C
ATOM    118  CA  GLY   118     -15.869  59.635   9.813  1.00 25.00           C
ATOM    119  CA  THR   119     -15.067  62.102   7.021  1.00 25.00           C
ATOM    120  CA  PHE   120     -11.571  63.419   6.479  1.00 25.00           C
ATOM    121  CA  LYS   121      -8.634  64.839   8.355  1.00 25.00           C
ATOM    122  CA  PRO   122      -5.102  64.100   7.198  1.00 25.00           C
TER
END
