
#######################################################
#                                                     #
#                        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  141 (  141),  selected  141 , name T0360TS168_1
# Molecule2: number of CA atoms  116 (  917),  selected  116 , name T0360.pdb
# PARAMETERS: T0360TS168_1.T0360.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    Q       3      Q       3           -
LGA    E       4      -       -           -
LGA    T       5      -       -           -
LGA    A       6      -       -           -
LGA    L       7      -       -           -
LGA    G       8      -       -           -
LGA    A       9      -       -           -
LGA    A      10      -       -           -
LGA    L      11      -       -           -
LGA    K      12      -       -           -
LGA    S      13      -       -           -
LGA    A      14      -       -           -
LGA    V      15      -       -           -
LGA    Q      16      -       -           -
LGA    T      17      -       -           -
LGA    M      18      -       -           -
LGA    S      19      E       4          2.012
LGA    K      20      T       5          2.025
LGA    K      21      A       6          1.481
LGA    K      22      L       7          1.435
LGA    Q      23      G       8          1.593
LGA    T      24      A       9          1.599
LGA    E      25      A      10          0.833
LGA    M      26      L      11          0.784
LGA    I      27      K      12          1.418
LGA    A      28      S      13          1.568
LGA    D      29      A      14          1.025
LGA    H      30      V      15          1.241
LGA    I      31      Q      16          1.987
LGA    Y      32      T      17          2.413
LGA    G      33      -       -           -
LGA    K      34      -       -           -
LGA    Y      35      -       -           -
LGA    D      36      -       -           -
LGA    V      37      -       -           -
LGA    F      38      -       -           -
LGA    K      39      -       -           -
LGA    R      40      -       -           -
LGA    F      41      -       -           -
LGA    K      42      -       -           -
LGA    P      43      M      18          3.532
LGA    L      44      S      19          2.605
LGA    A      45      K      20           -
LGA    L      46      K      21          4.840
LGA    -       -      K      22           -
LGA    -       -      Q      23           -
LGA    G      47      T      24          5.688
LGA    I      48      E      25          3.515
LGA    D      49      M      26           #
LGA    Q      50      I      27           -
LGA    D      51      -       -           -
LGA    L      52      -       -           -
LGA    I      53      -       -           -
LGA    A      54      -       -           -
LGA    A      55      -       -           -
LGA    L      56      -       -           -
LGA    P      57      -       -           -
LGA    Q      58      -       -           -
LGA    Y      59      -       -           -
LGA    D      60      -       -           -
LGA    A      61      -       -           -
LGA    A      62      -       -           -
LGA    L      63      -       -           -
LGA    I      64      -       -           -
LGA    A      65      -       -           -
LGA    R      66      -       -           -
LGA    V      67      A      28           #
LGA    L      68      D      29          1.032
LGA    A      69      H      30           #
LGA    -       -      I      31           -
LGA    -       -      Y      32           -
LGA    N      70      G      33          0.829
LGA    H      71      K      34          5.058
LGA    -       -      Y      35           -
LGA    -       -      D      36           -
LGA    -       -      V      37           -
LGA    C      72      F      38          5.165
LGA    R      73      K      39          3.539
LGA    R      74      R      40           -
LGA    P      75      -       -           -
LGA    R      76      F      41           #
LGA    Y      77      K      42           #
LGA    L      78      -       -           -
LGA    K      79      P      43           #
LGA    A      80      L      44          1.466
LGA    L      81      A      45          2.429
LGA    A      82      L      46          2.361
LGA    R      83      G      47          3.637
LGA    G      84      I      48          5.258
LGA    G      85      D      49          1.782
LGA    K      86      Q      50          6.189
LGA    -       -      D      51           -
LGA    -       -      L      52           -
LGA    -       -      I      53           -
LGA    -       -      A      54           -
LGA    -       -      A      55           -
LGA    -       -      L      56           -
LGA    -       -      P      57           -
LGA    -       -      Q      58           -
LGA    -       -      Y      59           -
LGA    R      87      D      60           #
LGA    F      88      A      61          2.324
LGA    D      89      -       -           -
LGA    L      90      A      62          3.387
LGA    N      91      L      63           -
LGA    N      92      I      64           -
LGA    R      93      A      65           -
LGA    F      94      -       -           -
LGA    K      95      -       -           -
LGA    G      96      -       -           -
LGA    E      97      -       -           -
LGA    V      98      R      66           #
LGA    T      99      V      67           -
LGA    P     100      L      68           -
LGA    E     101      A      69           #
LGA    E     102      N      70          4.520
LGA    -       -      H      71           -
LGA    Q     103      C      72          3.070
LGA    A     104      R      73          4.103
LGA    I     105      R      74          3.040
LGA    -       -      P      75           -
LGA    -       -      R      76           -
LGA    A     106      Y      77          3.832
LGA    -       -      L      78           -
LGA    -       -      K      79           -
LGA    Q     107      A      80          3.494
LGA    N     108      L      81          4.426
LGA    -       -      A      82           -
LGA    -       -      R      83           -
LGA    H     109      G      84           #
LGA    P     110      G      85           #
LGA    F     111      K      86           #
LGA    V     112      R      87           -
LGA    Q     113      -       -           -
LGA    Q     114      F      88           #
LGA    -       -      D      89           -
LGA    -       -      L      90           -
LGA    -       -      N      91           -
LGA    A     115      N      92           #
LGA    L     116      R      93           -
LGA    Q     117      F      94           -
LGA    Q     118      K      95           -
LGA    Q     119      G      96           -
LGA    S     120      E      97           -
LGA    A     121      V      98           -
LGA    Q     122      T      99           -
LGA    A     123      P     100           -
LGA    A     124      E     101           -
LGA    A     125      E     102           -
LGA    E     126      Q     103           -
LGA    T     127      A     104           -
LGA    L     128      I     105           -
LGA    S     129      A     106           -
LGA    V     130      Q     107           -
LGA    E     131      N     108           -
LGA    A     132      H     109           -
LGA    E     133      P     110           -
LGA    A     134      F     111           -
LGA    A     135      V     112           -
LGA    E     136      Q     113           -
LGA    S     137      Q     114           -
LGA    S     138      A     115           -
LGA    A     139      L     116           -
LGA    A     140      -       -           -
LGA    E     141      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  116    5.0     40    3.18     0.00     22.335     1.219

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.196811 * X  +  -0.134166 * Y  +   0.971218 * Z  + -80.047729
  Y_new =  -0.275090 * X  +  -0.943246 * Y  +  -0.186046 * Z  +  -6.592566
  Z_new =   0.941059 * X  +  -0.303788 * Y  +   0.148733 * Z  + -12.198130 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.115507    2.026085  [ DEG:   -63.9139    116.0861 ]
  Theta =  -1.225746   -1.915846  [ DEG:   -70.2301   -109.7699 ]
  Phi   =  -2.191810    0.949782  [ DEG:  -125.5815     54.4185 ]
 
# 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: T0360TS168_1                                  
REMARK     2: T0360.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0360TS168_1.T0360.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  116   5.0   40   3.18    0.00  22.335
REMARK  ---------------------------------------------------------- 
MOLECULE T0360TS168_1
PFRMAT TS
TARGET T0360
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1     -66.868 -27.837 -25.555  1.00 25.00           C
ATOM      2  CA  THR     2     -67.753 -24.401 -26.965  1.00 25.00           C
ATOM      3  CA  GLN     3     -67.879 -23.511 -30.667  1.00 25.00           C
ATOM      4  CA  GLU     4     -69.648 -20.515 -32.266  1.00 25.00           C
ATOM      5  CA  THR     5     -72.743 -22.667 -32.938  1.00 25.00           C
ATOM      6  CA  ALA     6     -72.732 -23.861 -29.299  1.00 25.00           C
ATOM      7  CA  LEU     7     -72.474 -20.238 -28.085  1.00 25.00           C
ATOM      8  CA  GLY     8     -75.406 -19.247 -30.339  1.00 25.00           C
ATOM      9  CA  ALA     9     -77.478 -22.160 -28.964  1.00 25.00           C
ATOM     10  CA  ALA    10     -76.657 -21.084 -25.381  1.00 25.00           C
ATOM     11  CA  LEU    11     -77.703 -17.491 -26.195  1.00 25.00           C
ATOM     12  CA  LYS    12     -80.994 -18.759 -27.688  1.00 25.00           C
ATOM     13  CA  SER    13     -81.638 -20.856 -24.550  1.00 25.00           C
ATOM     14  CA  ALA    14     -80.956 -17.804 -22.340  1.00 25.00           C
ATOM     15  CA  VAL    15     -83.380 -15.712 -24.440  1.00 25.00           C
ATOM     16  CA  GLN    16     -86.053 -18.436 -24.114  1.00 25.00           C
ATOM     17  CA  THR    17     -85.532 -18.527 -20.321  1.00 25.00           C
ATOM     18  CA  MET    18     -89.294 -17.834 -20.170  1.00 25.00           C
ATOM     19  CA  SER    19     -90.377 -15.927 -23.271  1.00 25.00           C
ATOM     20  CA  LYS    20     -92.969 -13.139 -23.778  1.00 25.00           C
ATOM     21  CA  LYS    21     -96.068 -13.221 -21.531  1.00 25.00           C
ATOM     22  CA  LYS    22     -93.840 -13.463 -18.426  1.00 25.00           C
ATOM     23  CA  GLN    23     -91.770 -10.483 -19.650  1.00 25.00           C
ATOM     24  CA  THR    24     -94.972  -8.463 -20.227  1.00 25.00           C
ATOM     25  CA  GLU    25     -96.185  -9.332 -16.700  1.00 25.00           C
ATOM     26  CA  MET    26     -92.816  -8.237 -15.245  1.00 25.00           C
ATOM     27  CA  ILE    27     -93.028  -4.936 -17.175  1.00 25.00           C
ATOM     28  CA  ALA    28     -96.578  -4.364 -15.858  1.00 25.00           C
ATOM     29  CA  ASP    29     -95.388  -5.051 -12.283  1.00 25.00           C
ATOM     30  CA  HIS    30     -92.505  -2.570 -12.739  1.00 25.00           C
ATOM     31  CA  ILE    31     -94.952   0.067 -14.054  1.00 25.00           C
ATOM     32  CA  TYR    32     -97.239  -0.517 -11.039  1.00 25.00           C
ATOM     33  CA  GLY    33    -100.434  -0.622 -13.126  1.00 25.00           C
ATOM     34  CA  LYS    34    -100.426  -4.134 -11.674  1.00 25.00           C
ATOM     35  CA  TYR    35    -102.877  -2.699  -9.105  1.00 25.00           C
ATOM     36  CA  ASP    36    -102.645  -5.922  -7.048  1.00 25.00           C
ATOM     37  CA  VAL    37     -98.821  -5.749  -7.162  1.00 25.00           C
ATOM     38  CA  PHE    38     -98.927  -2.098  -6.010  1.00 25.00           C
ATOM     39  CA  LYS    39    -101.261  -3.051  -3.126  1.00 25.00           C
ATOM     40  CA  ARG    40     -98.890  -5.881  -2.111  1.00 25.00           C
ATOM     41  CA  PHE    41     -95.926  -3.457  -2.178  1.00 25.00           C
ATOM     42  CA  LYS    42     -96.263   0.235  -1.575  1.00 25.00           C
ATOM     43  CA  PRO    43     -93.243   1.509  -3.432  1.00 25.00           C
ATOM     44  CA  LEU    44     -90.977   4.557  -3.679  1.00 25.00           C
ATOM     45  CA  ALA    45     -89.503   7.678  -2.079  1.00 25.00           C
ATOM     46  CA  LEU    46     -86.313   5.780  -1.509  1.00 25.00           C
ATOM     47  CA  GLY    47     -84.283   4.634  -4.568  1.00 25.00           C
ATOM     48  CA  ILE    48     -81.437   2.116  -4.095  1.00 25.00           C
ATOM     49  CA  ASP    49     -83.797   0.197  -1.767  1.00 25.00           C
ATOM     50  CA  GLN    50     -82.229  -3.119  -2.870  1.00 25.00           C
ATOM     51  CA  ASP    51     -78.729  -1.711  -2.208  1.00 25.00           C
ATOM     52  CA  LEU    52     -79.828  -0.547   1.271  1.00 25.00           C
ATOM     53  CA  ILE    53     -81.261  -4.020   2.008  1.00 25.00           C
ATOM     54  CA  ALA    54     -77.979  -5.641   0.881  1.00 25.00           C
ATOM     55  CA  ALA    55     -76.001  -3.267   3.142  1.00 25.00           C
ATOM     56  CA  LEU    56     -76.934  -4.586   6.634  1.00 25.00           C
ATOM     57  CA  PRO    57     -78.686  -5.737   9.773  1.00 25.00           C
ATOM     58  CA  GLN    58     -77.993  -9.257   8.347  1.00 25.00           C
ATOM     59  CA  TYR    59     -80.983  -8.469   6.077  1.00 25.00           C
ATOM     60  CA  ASP    60     -84.240  -7.752   4.366  1.00 25.00           C
ATOM     61  CA  ALA    61     -83.497  -9.150   0.860  1.00 25.00           C
ATOM     62  CA  ALA    62     -80.352 -11.108  -0.111  1.00 25.00           C
ATOM     63  CA  LEU    63     -82.002 -12.176  -3.398  1.00 25.00           C
ATOM     64  CA  ILE    64     -82.959  -8.540  -4.127  1.00 25.00           C
ATOM     65  CA  ALA    65     -79.362  -7.428  -3.429  1.00 25.00           C
ATOM     66  CA  ARG    66     -78.038 -10.142  -5.784  1.00 25.00           C
ATOM     67  CA  VAL    67     -80.480  -9.005  -8.506  1.00 25.00           C
ATOM     68  CA  LEU    68     -79.339  -5.378  -8.049  1.00 25.00           C
ATOM     69  CA  ALA    69     -75.678  -6.467  -8.328  1.00 25.00           C
ATOM     70  CA  ASN    70     -76.475  -8.410 -11.532  1.00 25.00           C
ATOM     71  CA  HIS    71     -78.244  -5.338 -12.982  1.00 25.00           C
ATOM     72  CA  CYS    72     -75.218  -3.156 -12.118  1.00 25.00           C
ATOM     73  CA  ARG    73     -72.885  -5.678 -13.809  1.00 25.00           C
ATOM     74  CA  ARG    74     -75.107  -5.677 -16.929  1.00 25.00           C
ATOM     75  CA  PRO    75     -75.053  -1.848 -16.996  1.00 25.00           C
ATOM     76  CA  ARG    76     -71.235  -1.872 -16.695  1.00 25.00           C
ATOM     77  CA  TYR    77     -70.999  -4.385 -19.575  1.00 25.00           C
ATOM     78  CA  LEU    78     -73.284  -2.182 -21.718  1.00 25.00           C
ATOM     79  CA  LYS    79     -71.111   0.874 -20.936  1.00 25.00           C
ATOM     80  CA  ALA    80     -67.965  -1.084 -21.907  1.00 25.00           C
ATOM     81  CA  LEU    81     -69.615  -2.152 -25.194  1.00 25.00           C
ATOM     82  CA  ALA    82     -70.572   1.484 -25.923  1.00 25.00           C
ATOM     83  CA  ARG    83     -71.955   4.874 -24.896  1.00 25.00           C
ATOM     84  CA  GLY    84     -75.204   5.270 -26.836  1.00 25.00           C
ATOM     85  CA  GLY    85     -77.345   3.902 -24.081  1.00 25.00           C
ATOM     86  CA  LYS    86     -79.548   6.755 -22.922  1.00 25.00           C
ATOM     87  CA  ARG    87     -83.054   5.266 -22.518  1.00 25.00           C
ATOM     88  CA  PHE    88     -86.842   4.801 -22.309  1.00 25.00           C
ATOM     89  CA  ASP    89     -89.097   7.932 -22.456  1.00 25.00           C
ATOM     90  CA  LEU    90     -87.926   9.287 -19.091  1.00 25.00           C
ATOM     91  CA  ASN    91     -90.163  12.239 -19.965  1.00 25.00           C
ATOM     92  CA  ASN    92     -89.780  15.965 -19.443  1.00 25.00           C
ATOM     93  CA  ARG    93     -87.178  18.566 -18.419  1.00 25.00           C
ATOM     94  CA  PHE    94     -84.841  17.524 -15.624  1.00 25.00           C
ATOM     95  CA  LYS    95     -82.081  20.150 -15.337  1.00 25.00           C
ATOM     96  CA  GLY    96     -78.285  19.846 -14.762  1.00 25.00           C
ATOM     97  CA  GLU    97     -76.955  16.434 -15.914  1.00 25.00           C
ATOM     98  CA  VAL    98     -76.167  12.719 -16.261  1.00 25.00           C
ATOM     99  CA  THR    99     -73.060  12.783 -18.523  1.00 25.00           C
ATOM    100  CA  PRO   100     -69.529  11.888 -17.424  1.00 25.00           C
ATOM    101  CA  GLU   101     -70.149  10.624 -13.863  1.00 25.00           C
ATOM    102  CA  GLU   102     -71.914   7.519 -15.245  1.00 25.00           C
ATOM    103  CA  GLN   103     -68.972   6.869 -17.608  1.00 25.00           C
ATOM    104  CA  ALA   104     -66.519   7.207 -14.687  1.00 25.00           C
ATOM    105  CA  ILE   105     -68.603   4.747 -12.620  1.00 25.00           C
ATOM    106  CA  ALA   106     -68.623   2.270 -15.541  1.00 25.00           C
ATOM    107  CA  GLN   107     -64.821   2.597 -15.875  1.00 25.00           C
ATOM    108  CA  ASN   108     -61.499   0.829 -16.471  1.00 25.00           C
ATOM    109  CA  HIS   109     -63.185  -2.362 -17.578  1.00 25.00           C
ATOM    110  CA  PRO   110     -60.156  -4.155 -18.906  1.00 25.00           C
ATOM    111  CA  PHE   111     -61.691  -7.322 -20.416  1.00 25.00           C
ATOM    112  CA  VAL   112     -59.731  -9.485 -17.935  1.00 25.00           C
ATOM    113  CA  GLN   113     -60.951  -7.303 -15.033  1.00 25.00           C
ATOM    114  CA  GLN   114     -64.561  -7.636 -16.268  1.00 25.00           C
ATOM    115  CA  ALA   115     -64.161 -11.439 -16.488  1.00 25.00           C
ATOM    116  CA  LEU   116     -62.764 -11.522 -12.923  1.00 25.00           C
ATOM    117  CA  GLN   117     -65.722  -9.428 -11.687  1.00 25.00           C
ATOM    118  CA  GLN   118     -68.165 -11.809 -13.428  1.00 25.00           C
ATOM    119  CA  GLN   119     -66.432 -14.813 -11.806  1.00 25.00           C
ATOM    120  CA  SER   120     -66.665 -13.126  -8.375  1.00 25.00           C
ATOM    121  CA  ALA   121     -70.391 -12.445  -8.935  1.00 25.00           C
ATOM    122  CA  GLN   122     -70.939 -16.105  -9.918  1.00 25.00           C
ATOM    123  CA  ALA   123     -69.095 -17.253  -6.763  1.00 25.00           C
ATOM    124  CA  ALA   124     -71.262 -14.931  -4.622  1.00 25.00           C
ATOM    125  CA  ALA   125     -74.426 -16.327  -6.267  1.00 25.00           C
ATOM    126  CA  GLU   126     -73.235 -19.902  -5.583  1.00 25.00           C
ATOM    127  CA  THR   127     -72.558 -19.001  -1.922  1.00 25.00           C
ATOM    128  CA  LEU   128     -76.058 -17.477  -1.625  1.00 25.00           C
ATOM    129  CA  SER   129     -77.593 -20.644  -3.134  1.00 25.00           C
ATOM    130  CA  VAL   130     -75.633 -22.806  -0.654  1.00 25.00           C
ATOM    131  CA  GLU   131     -76.853 -20.624   2.248  1.00 25.00           C
ATOM    132  CA  ALA   132     -80.463 -20.958   1.013  1.00 25.00           C
ATOM    133  CA  GLU   133     -80.064 -24.760   0.794  1.00 25.00           C
ATOM    134  CA  ALA   134     -78.666 -24.843   4.358  1.00 25.00           C
ATOM    135  CA  ALA   135     -81.625 -22.749   5.594  1.00 25.00           C
ATOM    136  CA  GLU   136     -84.069 -25.130   3.853  1.00 25.00           C
ATOM    137  CA  SER   137     -87.191 -23.143   4.669  1.00 25.00           C
ATOM    138  CA  SER   138     -88.972 -19.826   4.448  1.00 25.00           C
ATOM    139  CA  ALA   139     -92.514 -19.022   3.193  1.00 25.00           C
ATOM    140  CA  ALA   140     -94.450 -15.761   3.786  1.00 25.00           C
ATOM    141  CA  GLU   141     -92.325 -14.152   1.035  1.00 25.00           C
TER
END
