
#######################################################
#                                                     #
#                        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  146 (  146),  selected  146 , name T0312TS599_5
# Molecule2: number of CA atoms  140 ( 1114),  selected  140 , name T0312.pdb
# PARAMETERS: T0312TS599_5.T0312.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    K       2      K       2           -
LGA    V       3      V       3           -
LGA    F       4      F       4           -
LGA    E       5      E       5           -
LGA    F       6      F       6           -
LGA    E       7      -       -           -
LGA    V       8      -       -           -
LGA    G       9      -       -           -
LGA    K      10      -       -           -
LGA    G      11      -       -           -
LGA    F      12      -       -           -
LGA    L      13      -       -           -
LGA    L      14      -       -           -
LGA    R      15      -       -           -
LGA    L      16      -       -           -
LGA    D      17      -       -           -
LGA    Y      18      E       7           #
LGA    G      19      V       8          5.474
LGA    K      20      G       9          1.658
LGA    D      21      K      10           #
LGA    L      22      -       -           -
LGA    V      23      -       -           -
LGA    R      24      G      11           #
LGA    Q      25      F      12           -
LGA    I      26      -       -           -
LGA    E      27      -       -           -
LGA    E      28      -       -           -
LGA    F      29      -       -           -
LGA    L      30      -       -           -
LGA    E      31      -       -           -
LGA    E      32      -       -           -
LGA    K      33      -       -           -
LGA    G      34      -       -           -
LGA    I      35      -       -           -
LGA    H      36      -       -           -
LGA    A      37      -       -           -
LGA    A      38      L      13          1.822
LGA    H      39      L      14          2.110
LGA    I      40      -       -           -
LGA    S      41      -       -           -
LGA    A      42      -       -           -
LGA    I      43      -       -           -
LGA    G      44      -       -           -
LGA    A      45      -       -           -
LGA    V      46      -       -           -
LGA    R      47      -       -           -
LGA    S      48      -       -           -
LGA    A      49      -       -           -
LGA    V      50      -       -           -
LGA    I      51      -       -           -
LGA    G      52      -       -           -
LGA    Y      53      R      15           #
LGA    Y      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    E      57      L      16          5.237
LGA    K      58      D      17          2.857
LGA    K      59      Y      18           #
LGA    -       -      G      19           -
LGA    -       -      K      20           -
LGA    -       -      D      21           -
LGA    -       -      L      22           -
LGA    -       -      V      23           -
LGA    -       -      R      24           -
LGA    E      60      Q      25          3.668
LGA    Y      61      I      26           #
LGA    -       -      E      27           -
LGA    -       -      E      28           -
LGA    V      62      F      29          2.311
LGA    K      63      L      30          3.778
LGA    K      64      E      31          3.647
LGA    -       -      E      32           -
LGA    -       -      K      33           -
LGA    E      65      G      34          0.974
LGA    L      66      I      35          4.704
LGA    M      67      H      36           #
LGA    E      68      -       -           -
LGA    P      69      -       -           -
LGA    L      70      -       -           -
LGA    E      71      -       -           -
LGA    I      72      A      37          3.563
LGA    L      73      A      38          0.689
LGA    S      74      H      39          1.295
LGA    L      75      I      40          1.820
LGA    S      76      S      41          1.819
LGA    G      77      A      42          2.814
LGA    N      78      I      43          2.110
LGA    V      79      G      44          2.607
LGA    S      80      A      45          2.604
LGA    M      81      V      46           #
LGA    K      82      R      47           -
LGA    D      83      S      48           -
LGA    S      84      A      49           -
LGA    K      85      V      50           -
LGA    -       -      I      51           -
LGA    -       -      G      52           -
LGA    -       -      Y      53           -
LGA    -       -      Y      54           -
LGA    -       -      D      55           -
LGA    -       -      Q      56           -
LGA    -       -      E      57           -
LGA    -       -      K      58           -
LGA    -       -      K      59           -
LGA    -       -      E      60           -
LGA    -       -      Y      61           -
LGA    -       -      V      62           -
LGA    -       -      K      63           -
LGA    -       -      K      64           -
LGA    -       -      E      65           -
LGA    -       -      L      66           -
LGA    -       -      M      67           -
LGA    -       -      E      68           -
LGA    -       -      P      69           -
LGA    P      86      L      70          5.153
LGA    F      87      E      71          2.816
LGA    C      88      I      72          0.761
LGA    -       -      L      73           -
LGA    H      89      S      74          2.743
LGA    I      90      L      75          2.391
LGA    H      91      S      76          2.191
LGA    V      92      G      77          3.065
LGA    L      93      N      78          1.380
LGA    L      94      V      79          0.880
LGA    G      95      S      80          1.418
LGA    K      96      -       -           -
LGA    D      97      M      81          2.625
LGA    G      98      K      82          3.512
LGA    E      99      D      83           #
LGA    -       -      S      84           -
LGA    -       -      K      85           -
LGA    -       -      P      86           -
LGA    V     100      F      87          3.088
LGA    Y     101      C      88          4.856
LGA    G     102      H      89          2.426
LGA    G     103      I      90          3.398
LGA    H     104      H      91          2.440
LGA    L     105      V      92          1.224
LGA    -       -      L      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      K      96           -
LGA    -       -      D      97           -
LGA    -       -      G      98           -
LGA    -       -      E      99           -
LGA    -       -      V     100           -
LGA    -       -      Y     101           -
LGA    -       -      G     102           -
LGA    F     106      G     103           #
LGA    S     107      H     104          3.026
LGA    A     108      L     105          4.081
LGA    E     109      F     106           #
LGA    V     110      S     107          0.537
LGA    F     111      -       -           -
LGA    A     112      A     108          4.803
LGA    C     113      E     109          3.639
LGA    E     114      V     110           -
LGA    V     115      F     111           -
LGA    F     116      A     112           -
LGA    V     117      C     113           -
LGA    L     118      E     114           -
LGA    P     119      V     115           -
LGA    L     120      F     116           -
LGA    -       -      V     117           -
LGA    -       -      L     118           -
LGA    -       -      P     119           -
LGA    -       -      L     120           -
LGA    -       -      S     121           -
LGA    -       -      G     122           -
LGA    -       -      E     123           -
LGA    -       -      A     124           -
LGA    -       -      P     125           -
LGA    -       -      E     126           -
LGA    -       -      R     127           -
LGA    -       -      A     128           -
LGA    -       -      F     129           -
LGA    -       -      D     130           -
LGA    -       -      E     131           -
LGA    -       -      Q     132           -
LGA    -       -      T     133           -
LGA    -       -      G     134           -
LGA    -       -      L     135           -
LGA    S     121      F     136          2.149
LGA    G     122      L     137           #
LGA    E     123      W     138           -
LGA    A     124      L     139           -
LGA    P     125      E     140           -
LGA    E     126      -       -           -
LGA    R     127      -       -           -
LGA    A     128      -       -           -
LGA    F     129      -       -           -
LGA    D     130      -       -           -
LGA    E     131      -       -           -
LGA    Q     132      -       -           -
LGA    T     133      -       -           -
LGA    G     134      -       -           -
LGA    L     135      -       -           -
LGA    F     136      -       -           -
LGA    L     137      -       -           -
LGA    W     138      -       -           -
LGA    L     139      -       -           -
LGA    E     140      -       -           -
LGA    H     141      -       -           -
LGA    H     142      -       -           -
LGA    H     143      -       -           -
LGA    H     144      -       -           -
LGA    H     145      -       -           -
LGA    H     146      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  146  140    5.0     45    3.00     6.67     19.972     1.453

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.517145 * X  +  -0.509413 * Y  +  -0.687793 * Z  +  58.099953
  Y_new =   0.644224 * X  +  -0.297395 * Y  +   0.704650 * Z  +  10.912418
  Z_new =  -0.563504 * X  +  -0.807499 * Y  +   0.174380 * Z  +  17.433071 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.358112    1.783481  [ DEG:   -77.8141    102.1859 ]
  Theta =   0.598622    2.542971  [ DEG:    34.2985    145.7015 ]
  Phi   =   0.894386   -2.247206  [ DEG:    51.2446   -128.7554 ]
 
# 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: T0312TS599_5                                  
REMARK     2: T0312.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0312TS599_5.T0312.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  146  140   5.0   45   3.00    6.67  19.972
REMARK  ---------------------------------------------------------- 
MOLECULE T0312TS599_5
PFRMAT TS                                                                       
TARGET T0312                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      63.127  30.132  15.092  1.00  0.00              
ATOM      2  CA  LYS     2      59.618  29.196  14.254  1.00  0.00              
ATOM      3  CA  VAL     3      60.917  28.712  17.770  1.00  0.00              
ATOM      4  CA  PHE     4      58.418  31.476  19.260  1.00  0.00              
ATOM      5  CA  GLU     5      57.271  32.866  15.966  1.00  0.00              
ATOM      6  CA  PHE     6      53.526  32.568  15.888  1.00  0.00              
ATOM      7  CA  GLU     7      52.001  31.588  12.588  1.00  0.00              
ATOM      8  CA  VAL     8      49.751  28.642  13.590  1.00  0.00              
ATOM      9  CA  GLY     9      51.094  25.591  11.816  1.00  0.00              
ATOM     10  CA  LYS    10      54.623  26.837  11.605  1.00  0.00              
ATOM     11  CA  GLY    11      57.403  24.608  12.561  1.00  0.00              
ATOM     12  CA  PHE    12      59.537  25.341  15.704  1.00  0.00              
ATOM     13  CA  LEU    13      62.768  23.372  16.390  1.00  0.00              
ATOM     14  CA  LEU    14      63.719  22.756  20.011  1.00  0.00              
ATOM     15  CA  ARG    15      67.194  21.645  20.975  1.00  0.00              
ATOM     16  CA  LEU    16      67.672  19.675  24.183  1.00  0.00              
ATOM     17  CA  ASP    17      71.060  19.764  26.049  1.00  0.00              
ATOM     18  CA  TYR    18      71.363  18.428  29.525  1.00  0.00              
ATOM     19  CA  GLY    19      69.391  20.335  32.150  1.00  0.00              
ATOM     20  CA  LYS    20      66.822  21.641  29.624  1.00  0.00              
ATOM     21  CA  ASP    21      65.620  25.202  29.980  1.00  0.00              
ATOM     22  CA  LEU    22      65.346  26.726  26.517  1.00  0.00              
ATOM     23  CA  VAL    23      63.264  23.902  25.232  1.00  0.00              
ATOM     24  CA  ARG    24      60.814  24.160  28.151  1.00  0.00              
ATOM     25  CA  GLN    25      60.441  27.934  27.545  1.00  0.00              
ATOM     26  CA  ILE    26      59.815  27.404  23.843  1.00  0.00              
ATOM     27  CA  GLU    27      57.166  24.724  24.615  1.00  0.00              
ATOM     28  CA  GLU    28      55.399  26.937  26.981  1.00  0.00              
ATOM     29  CA  PHE    29      55.409  29.794  24.563  1.00  0.00              
ATOM     30  CA  LEU    30      54.085  27.668  21.660  1.00  0.00              
ATOM     31  CA  GLU    31      51.319  26.164  23.674  1.00  0.00              
ATOM     32  CA  GLU    32      50.285  29.617  24.990  1.00  0.00              
ATOM     33  CA  LYS    33      49.957  31.040  21.531  1.00  0.00              
ATOM     34  CA  GLY    34      48.260  28.046  20.054  1.00  0.00              
ATOM     35  CA  ILE    35      50.949  27.493  17.418  1.00  0.00              
ATOM     36  CA  HIS    36      51.337  24.122  15.956  1.00  0.00              
ATOM     37  CA  ALA    37      54.383  22.204  15.194  1.00  0.00              
ATOM     38  CA  ALA    38      57.222  21.473  17.565  1.00  0.00              
ATOM     39  CA  HIS    39      60.257  19.459  16.493  1.00  0.00              
ATOM     40  CA  ILE    40      62.652  18.231  19.195  1.00  0.00              
ATOM     41  CA  SER    41      66.292  17.615  18.542  1.00  0.00              
ATOM     42  CA  ALA    42      68.348  15.941  21.212  1.00  0.00              
ATOM     43  CA  ILE    43      71.994  16.653  21.508  1.00  0.00              
ATOM     44  CA  GLY    44      73.898  14.705  24.085  1.00  0.00              
ATOM     45  CA  ALA    45      73.096  14.749  27.781  1.00  0.00              
ATOM     46  CA  VAL    46      69.347  14.377  27.964  1.00  0.00              
ATOM     47  CA  ARG    47      68.061  11.823  30.368  1.00  0.00              
ATOM     48  CA  SER    48      64.299  12.284  30.012  1.00  0.00              
ATOM     49  CA  ALA    49      63.706  13.855  26.782  1.00  0.00              
ATOM     50  CA  VAL    50      60.214  14.389  25.233  1.00  0.00              
ATOM     51  CA  ILE    51      60.000  15.222  21.584  1.00  0.00              
ATOM     52  CA  GLY    52      56.826  16.399  19.856  1.00  0.00              
ATOM     53  CA  TYR    53      56.607  16.074  16.153  1.00  0.00              
ATOM     54  CA  TYR    54      53.557  17.275  14.162  1.00  0.00              
ATOM     55  CA  ASP    55      52.935  15.764  10.843  1.00  0.00              
ATOM     56  CA  GLN    56      51.337  17.734   8.016  1.00  0.00              
ATOM     57  CA  GLU    57      54.305  17.916   5.576  1.00  0.00              
ATOM     58  CA  LYS    58      56.980  18.520   8.226  1.00  0.00              
ATOM     59  CA  LYS    59      59.883  16.317   7.276  1.00  0.00              
ATOM     60  CA  GLU    60      60.877  15.010  10.692  1.00  0.00              
ATOM     61  CA  TYR    61      64.563  15.755  10.793  1.00  0.00              
ATOM     62  CA  VAL    62      65.250  16.145  14.557  1.00  0.00              
ATOM     63  CA  LYS    63      68.846  15.384  15.474  1.00  0.00              
ATOM     64  CA  LYS    64      69.627  12.621  17.863  1.00  0.00              
ATOM     65  CA  GLU    65      72.941  12.302  19.547  1.00  0.00              
ATOM     66  CA  LEU    66      73.278   9.389  21.953  1.00  0.00              
ATOM     67  CA  MET    67      75.966   9.312  24.572  1.00  0.00              
ATOM     68  CA  GLU    68      75.715   5.819  26.023  1.00  0.00              
ATOM     69  CA  PRO    69      74.426   5.446  29.578  1.00  0.00              
ATOM     70  CA  LEU    70      70.714   4.946  28.828  1.00  0.00              
ATOM     71  CA  GLU    71      68.324   7.955  28.791  1.00  0.00              
ATOM     72  CA  ILE    72      64.794   7.609  27.704  1.00  0.00              
ATOM     73  CA  LEU    73      63.617   9.646  24.899  1.00  0.00              
ATOM     74  CA  SER    74      60.073   9.810  24.161  1.00  0.00              
ATOM     75  CA  LEU    75      58.929  10.793  20.723  1.00  0.00              
ATOM     76  CA  SER    76      55.456  11.802  20.151  1.00  0.00              
ATOM     77  CA  GLY    77      54.217  12.012  16.634  1.00  0.00              
ATOM     78  CA  ASN    78      50.912  13.581  15.885  1.00  0.00              
ATOM     79  CA  VAL    79      49.290  13.029  12.599  1.00  0.00              
ATOM     80  CA  SER    80      46.071  14.845  11.946  1.00  0.00              
ATOM     81  CA  MET    81      43.931  14.356   8.871  1.00  0.00              
ATOM     82  CA  LYS    82      42.787  17.673   7.538  1.00  0.00              
ATOM     83  CA  ASP    83      39.657  17.231   5.721  1.00  0.00              
ATOM     84  CA  SER    84      37.999  14.345   7.432  1.00  0.00              
ATOM     85  CA  LYS    85      39.046  14.945  11.058  1.00  0.00              
ATOM     86  CA  PRO    86      40.922  11.857  12.104  1.00  0.00              
ATOM     87  CA  PHE    87      43.768  12.334  14.444  1.00  0.00              
ATOM     88  CA  CYS    88      46.489   9.763  14.633  1.00  0.00              
ATOM     89  CA  HIS    89      48.808   9.691  17.519  1.00  0.00              
ATOM     90  CA  ILE    90      52.042   7.806  17.231  1.00  0.00              
ATOM     91  CA  HIS    91      54.136   7.078  20.246  1.00  0.00              
ATOM     92  CA  VAL    92      57.758   6.318  19.732  1.00  0.00              
ATOM     93  CA  LEU    93      60.048   5.320  22.544  1.00  0.00              
ATOM     94  CA  LEU    94      63.767   5.628  22.135  1.00  0.00              
ATOM     95  CA  GLY    95      66.226   4.046  24.469  1.00  0.00              
ATOM     96  CA  LYS    96      69.726   5.525  24.899  1.00  0.00              
ATOM     97  CA  ASP    97      71.231   2.291  23.579  1.00  0.00              
ATOM     98  CA  GLY    98      69.443   2.713  20.268  1.00  0.00              
ATOM     99  CA  GLU    99      66.608   0.310  20.431  1.00  0.00              
ATOM    100  CA  VAL   100      63.365   1.672  19.104  1.00  0.00              
ATOM    101  CA  TYR   101      60.250   0.827  20.777  1.00  0.00              
ATOM    102  CA  GLY   102      57.042   1.506  19.002  1.00  0.00              
ATOM    103  CA  GLY   103      53.819   1.953  20.884  1.00  0.00              
ATOM    104  CA  HIS   104      50.467   1.268  19.240  1.00  0.00              
ATOM    105  CA  LEU   105      49.892   4.260  16.894  1.00  0.00              
ATOM    106  CA  PHE   106      53.525   4.043  15.678  1.00  0.00              
ATOM    107  CA  SER   107      53.067   0.388  14.601  1.00  0.00              
ATOM    108  CA  ALA   108      50.037   1.415  12.477  1.00  0.00              
ATOM    109  CA  GLU   109      51.872   4.431  10.997  1.00  0.00              
ATOM    110  CA  VAL   110      55.181   3.207   9.654  1.00  0.00              
ATOM    111  CA  PHE   111      53.978  -0.138   7.681  1.00  0.00              
ATOM    112  CA  ALA   112      51.246   2.057   6.354  1.00  0.00              
ATOM    113  CA  CYS   113      53.576   4.894   5.347  1.00  0.00              
ATOM    114  CA  GLU   114      56.003   2.915   3.304  1.00  0.00              
ATOM    115  CA  VAL   115      56.941   0.094   5.650  1.00  0.00              
ATOM    116  CA  PHE   116      57.257   2.379   8.994  1.00  0.00              
ATOM    117  CA  VAL   117      59.437  -0.022  11.054  1.00  0.00              
ATOM    118  CA  LEU   118      59.613   0.009  14.878  1.00  0.00              
ATOM    119  CA  PRO   119      62.195  -1.901  16.807  1.00  0.00              
ATOM    120  CA  LEU   120      61.484  -3.183  20.264  1.00  0.00              
ATOM    121  CA  SER   121      64.495  -4.751  21.886  1.00  0.00              
ATOM    122  CA  GLY   122      66.221  -6.384  18.926  1.00  0.00              
ATOM    123  CA  GLU   123      63.114  -7.193  16.887  1.00  0.00              
ATOM    124  CA  ALA   124      62.969  -5.517  13.497  1.00  0.00              
ATOM    125  CA  PRO   125      59.825  -4.342  11.843  1.00  0.00              
ATOM    126  CA  GLU   126      60.214  -5.038   8.134  1.00  0.00              
ATOM    127  CA  ARG   127      61.170  -8.618   9.128  1.00  0.00              
ATOM    128  CA  ALA   128      58.195  -9.152  11.437  1.00  0.00              
ATOM    129  CA  PHE   129      55.630  -7.803   8.935  1.00  0.00              
ATOM    130  CA  ASP   130      56.455  -9.412   5.681  1.00  0.00              
ATOM    131  CA  GLU   131      58.134  -6.735   3.624  1.00  0.00              
ATOM    132  CA  GLN   132      56.506  -7.706   0.492  1.00  0.00              
ATOM    133  CA  THR   133      52.923  -7.509   1.537  1.00  0.00              
ATOM    134  CA  GLY   134      53.401  -4.230   3.582  1.00  0.00              
ATOM    135  CA  LEU   135      52.194  -5.728   6.804  1.00  0.00              
ATOM    136  CA  PHE   136      50.050  -3.158   8.503  1.00  0.00              
ATOM    137  CA  LEU   137      49.051  -3.929  12.030  1.00  0.00              
ATOM    138  CA  TRP   138      49.602  -1.879  15.109  1.00  0.00              
ATOM    139  CA  LEU   139      46.773  -2.953  17.414  1.00  0.00              
ATOM    140  CA  GLU   140      47.074  -6.630  16.494  1.00  0.00              
ATOM    141  CA  HIS   141      50.865  -6.652  16.857  1.00  0.00              
ATOM    142  CA  HIS   142      50.974  -5.040  20.237  1.00  0.00              
ATOM    143  CA  HIS   143      48.140  -7.067  21.611  1.00  0.00              
ATOM    144  CA  HIS   144      49.584 -10.718  20.103  1.00  0.00              
ATOM    145  CA  HIS   145      46.853  -8.859  22.701  1.00  0.00              
ATOM    146  CA  HIS   146      50.712  -9.386  22.571  1.00  0.00              
TER                                                                             
END
