
#######################################################
#                                                     #
#                        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  160 (  160),  selected  160 , name T0374TS168_3
# Molecule2: number of CA atoms  160 ( 2486),  selected  160 , name T0374.pdb
# PARAMETERS: T0374TS168_3.T0374.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           #
LGA    Q       2      Q       2          2.562
LGA    L       3      L       3          1.965
LGA    S       4      S       4          2.474
LGA    H       5      H       5          1.411
LGA    R       6      R       6          0.932
LGA    P       7      P       7          1.538
LGA    A       8      A       8          3.315
LGA    E       9      E       9          4.700
LGA    T      10      T      10          5.185
LGA    G      11      G      11          2.205
LGA    D      12      D      12          2.517
LGA    L      13      L      13          2.231
LGA    E      14      E      14          2.516
LGA    T      15      T      15          2.275
LGA    V      16      V      16          2.649
LGA    A      17      A      17          2.419
LGA    G      18      G      18          2.337
LGA    F      19      F      19          2.276
LGA    P      20      P      20          1.553
LGA    Q      21      Q      21          3.367
LGA    D      22      -       -           -
LGA    R      23      D      22          5.275
LGA    D      24      R      23          5.567
LGA    E      25      -       -           -
LGA    L      26      D      24           #
LGA    F      27      E      25          1.082
LGA    Y      28      -       -           -
LGA    C      29      L      26          3.334
LGA    Y      30      F      27          3.140
LGA    P      31      Y      28           -
LGA    K      32      C      29           -
LGA    A      33      Y      30           -
LGA    -       -      P      31           -
LGA    -       -      K      32           -
LGA    -       -      A      33           -
LGA    I      34      I      34          3.967
LGA    W      35      W      35          4.285
LGA    P      36      P      36           -
LGA    F      37      F      37           #
LGA    S      38      S      38           #
LGA    -       -      V      39           -
LGA    -       -      A      40           -
LGA    V      39      Q      41          0.440
LGA    A      40      L      42           #
LGA    -       -      A      43           -
LGA    Q      41      A      44          2.290
LGA    L      42      A      45          1.401
LGA    A      43      I      46          4.162
LGA    A      44      A      47          2.283
LGA    A      45      E      48          2.537
LGA    I      46      -       -           -
LGA    A      47      -       -           -
LGA    E      48      -       -           -
LGA    R      49      R      49           #
LGA    R      50      R      50          2.060
LGA    G      51      G      51          1.928
LGA    S      52      S      52          1.087
LGA    T      53      T      53          1.772
LGA    V      54      V      54          1.303
LGA    A      55      A      55          2.300
LGA    V      56      V      56          2.469
LGA    H      57      H      57          2.187
LGA    D      58      D      58          1.616
LGA    G      59      G      59          1.668
LGA    Q      60      Q      60          1.559
LGA    V      61      V      61          2.270
LGA    L      62      L      62          1.467
LGA    G      63      G      63          1.749
LGA    F      64      F      64          1.549
LGA    A      65      A      65          1.523
LGA    N      66      N      66          2.614
LGA    F      67      F      67          2.360
LGA    Y      68      Y      68          3.599
LGA    Q      69      Q      69          2.637
LGA    W      70      W      70          4.008
LGA    Q      71      -       -           -
LGA    H      72      -       -           -
LGA    G      73      -       -           -
LGA    D      74      Q      71          3.721
LGA    F      75      H      72           -
LGA    -       -      G      73           -
LGA    -       -      D      74           -
LGA    -       -      F      75           -
LGA    C      76      C      76          2.078
LGA    A      77      A      77          1.620
LGA    L      78      L      78          1.281
LGA    G      79      G      79          1.742
LGA    N      80      N      80          3.497
LGA    M      81      M      81          2.892
LGA    M      82      M      82          2.002
LGA    V      83      V      83          3.038
LGA    A      84      A      84          2.816
LGA    P      85      P      85          0.994
LGA    A      86      A      86          1.041
LGA    A      87      A      87          0.984
LGA    R      88      R      88          2.428
LGA    G      89      G      89          3.566
LGA    L      90      L      90          3.342
LGA    G      91      G      91          2.572
LGA    V      92      V      92          1.139
LGA    A      93      A      93          1.390
LGA    R      94      R      94          0.981
LGA    Y      95      Y      95          0.634
LGA    L      96      L      96          0.924
LGA    I      97      I      97          1.160
LGA    G      98      G      98          1.181
LGA    V      99      V      99          0.924
LGA    M     100      M     100          1.060
LGA    E     101      E     101          1.249
LGA    N     102      N     102          1.373
LGA    L     103      L     103          1.170
LGA    A     104      A     104          1.290
LGA    R     105      R     105          1.680
LGA    E     106      E     106          1.394
LGA    Q     107      Q     107          2.013
LGA    Y     108      Y     108          0.938
LGA    K     109      K     109          2.437
LGA    A     110      A     110          0.958
LGA    R     111      R     111          2.123
LGA    L     112      L     112          1.944
LGA    M     113      M     113          1.593
LGA    K     114      K     114          2.382
LGA    I     115      I     115          3.204
LGA    S     116      S     116          3.719
LGA    C     117      C     117          1.605
LGA    F     118      F     118          1.888
LGA    N     119      N     119          2.057
LGA    A     120      A     120          3.107
LGA    N     121      N     121          1.464
LGA    A     122      A     122          0.913
LGA    A     123      A     123          1.207
LGA    G     124      G     124          0.843
LGA    L     125      L     125          0.780
LGA    L     126      L     126          1.212
LGA    L     127      L     127          1.748
LGA    Y     128      Y     128          1.662
LGA    T     129      T     129          1.156
LGA    Q     130      Q     130          1.759
LGA    L     131      L     131          3.902
LGA    G     132      G     132          3.442
LGA    Y     133      Y     133          1.270
LGA    Q     134      Q     134          0.916
LGA    P     135      P     135          0.904
LGA    R     136      R     136          0.401
LGA    A     137      A     137          2.068
LGA    I     138      I     138          1.310
LGA    A     139      A     139          0.970
LGA    E     140      E     140          0.812
LGA    R     141      R     141          1.742
LGA    H     142      H     142          3.692
LGA    D     143      -       -           -
LGA    P     144      D     143           #
LGA    D     145      P     144          4.546
LGA    -       -      D     145           -
LGA    -       -      G     146           -
LGA    G     146      R     147          1.291
LGA    R     147      R     148          2.270
LGA    R     148      V     149          1.967
LGA    V     149      A     150          4.107
LGA    A     150      L     151          1.952
LGA    L     151      I     152           #
LGA    I     152      Q     153          2.890
LGA    Q     153      M     154          3.068
LGA    M     154      D     155          0.673
LGA    D     155      K     156          2.465
LGA    K     156      P     157          1.711
LGA    P     157      L     158          4.699
LGA    L     158      E     159          2.532
LGA    E     159      -       -           -
LGA    P     160      P     160          3.158

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  160  160    5.0    136    2.41    83.09     58.699     5.418

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.794445 * X  +  -0.048325 * Y  +   0.605411 * Z  +  16.418486
  Y_new =   0.440214 * X  +   0.732564 * Y  +  -0.519193 * Z  +  11.956248
  Z_new =  -0.418412 * X  +   0.678981 * Y  +   0.603255 * Z  +   9.165794 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.844387   -2.297205  [ DEG:    48.3798   -131.6202 ]
  Theta =   0.431697    2.709896  [ DEG:    24.7344    155.2656 ]
  Phi   =   0.505998   -2.635595  [ DEG:    28.9915   -151.0085 ]
 
# 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: T0374TS168_3                                  
REMARK     2: T0374.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0374TS168_3.T0374.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  160  160   5.0  136   2.41   83.09  58.699
REMARK  ---------------------------------------------------------- 
MOLECULE T0374TS168_3
PFRMAT TS
TARGET T0374
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      22.476  33.518   3.193  1.00 25.00           C
ATOM      2  CA  GLN     2      21.557  30.497   5.231  1.00 25.00           C
ATOM      3  CA  LEU     3      21.457  26.963   6.630  1.00 25.00           C
ATOM      4  CA  SER     4      17.885  26.724   7.916  1.00 25.00           C
ATOM      5  CA  HIS     5      15.173  24.897   9.745  1.00 25.00           C
ATOM      6  CA  ARG     6      11.418  25.251  10.057  1.00 25.00           C
ATOM      7  CA  PRO     7       8.150  23.751   8.736  1.00 25.00           C
ATOM      8  CA  ALA     8       6.226  24.259   5.473  1.00 25.00           C
ATOM      9  CA  GLU     9       4.408  27.592   4.763  1.00 25.00           C
ATOM     10  CA  THR    10       3.057  26.631   1.330  1.00 25.00           C
ATOM     11  CA  GLY    11       2.678  24.020  -1.413  1.00 25.00           C
ATOM     12  CA  ASP    12       5.605  21.940  -0.224  1.00 25.00           C
ATOM     13  CA  LEU    13       5.250  18.233   0.668  1.00 25.00           C
ATOM     14  CA  GLU    14       6.650  17.250  -2.758  1.00 25.00           C
ATOM     15  CA  THR    15       9.611  19.628  -2.258  1.00 25.00           C
ATOM     16  CA  VAL    16      10.275  18.114   1.196  1.00 25.00           C
ATOM     17  CA  ALA    17      10.176  14.590  -0.302  1.00 25.00           C
ATOM     18  CA  GLY    18      12.639  15.657  -3.034  1.00 25.00           C
ATOM     19  CA  PHE    19      15.542  15.113  -0.613  1.00 25.00           C
ATOM     20  CA  PRO    20      15.798  11.584  -1.971  1.00 25.00           C
ATOM     21  CA  GLN    21      16.332  12.695  -5.588  1.00 25.00           C
ATOM     22  CA  ASP    22      19.380  10.822  -7.016  1.00 25.00           C
ATOM     23  CA  ARG    23      22.779   9.522  -5.795  1.00 25.00           C
ATOM     24  CA  ASP    24      21.725   6.041  -4.648  1.00 25.00           C
ATOM     25  CA  GLU    25      24.173   6.582  -1.753  1.00 25.00           C
ATOM     26  CA  LEU    26      21.940   9.361  -0.353  1.00 25.00           C
ATOM     27  CA  PHE    27      18.886   7.063  -0.594  1.00 25.00           C
ATOM     28  CA  TYR    28      18.768   3.790   1.416  1.00 25.00           C
ATOM     29  CA  CYS    29      14.983   4.117   1.216  1.00 25.00           C
ATOM     30  CA  TYR    30      15.021   1.779  -1.794  1.00 25.00           C
ATOM     31  CA  PRO    31      15.711  -0.122  -4.982  1.00 25.00           C
ATOM     32  CA  LYS    32      12.992   1.834  -6.697  1.00 25.00           C
ATOM     33  CA  ALA    33      10.383   1.350  -9.402  1.00 25.00           C
ATOM     34  CA  ILE    34       7.619   1.935  -6.904  1.00 25.00           C
ATOM     35  CA  TRP    35       8.428   2.294  -3.164  1.00 25.00           C
ATOM     36  CA  PRO    36       4.963   0.673  -2.854  1.00 25.00           C
ATOM     37  CA  PHE    37       4.116   3.942  -1.102  1.00 25.00           C
ATOM     38  CA  SER    38       2.904   7.150  -2.811  1.00 25.00           C
ATOM     39  CA  VAL    39       4.256   9.362  -0.019  1.00 25.00           C
ATOM     40  CA  ALA    40       0.665   9.367   1.310  1.00 25.00           C
ATOM     41  CA  GLN    41       1.853   7.793   4.594  1.00 25.00           C
ATOM     42  CA  LEU    42       4.594  10.449   4.904  1.00 25.00           C
ATOM     43  CA  ALA    43       2.016  13.216   4.294  1.00 25.00           C
ATOM     44  CA  ALA    44      -0.268  11.714   6.976  1.00 25.00           C
ATOM     45  CA  ALA    45       2.665  11.584   9.436  1.00 25.00           C
ATOM     46  CA  ILE    46       3.492  15.246   8.680  1.00 25.00           C
ATOM     47  CA  ALA    47      -0.166  16.218   9.264  1.00 25.00           C
ATOM     48  CA  GLU    48      -0.160  14.334  12.598  1.00 25.00           C
ATOM     49  CA  ARG    49       1.823  14.456  15.808  1.00 25.00           C
ATOM     50  CA  ARG    50       4.716  12.773  13.900  1.00 25.00           C
ATOM     51  CA  GLY    51       7.084  15.740  14.004  1.00 25.00           C
ATOM     52  CA  SER    52       9.023  17.540  11.265  1.00 25.00           C
ATOM     53  CA  THR    53      12.431  19.056  10.293  1.00 25.00           C
ATOM     54  CA  VAL    54      12.421  20.704   6.858  1.00 25.00           C
ATOM     55  CA  ALA    55      15.389  22.331   5.158  1.00 25.00           C
ATOM     56  CA  VAL    56      14.477  25.737   3.767  1.00 25.00           C
ATOM     57  CA  HIS    57      17.636  27.663   2.939  1.00 25.00           C
ATOM     58  CA  ASP    58      18.040  31.041   1.289  1.00 25.00           C
ATOM     59  CA  GLY    59      15.276  30.200  -1.201  1.00 25.00           C
ATOM     60  CA  GLN    60      15.569  26.493  -1.855  1.00 25.00           C
ATOM     61  CA  VAL    61      14.863  22.904  -0.645  1.00 25.00           C
ATOM     62  CA  LEU    62      17.724  20.918   0.852  1.00 25.00           C
ATOM     63  CA  GLY    63      17.695  18.095   3.457  1.00 25.00           C
ATOM     64  CA  PHE    64      15.300  16.524   6.022  1.00 25.00           C
ATOM     65  CA  ALA    65      15.344  15.011   9.477  1.00 25.00           C
ATOM     66  CA  ASN    66      11.799  13.716   8.816  1.00 25.00           C
ATOM     67  CA  PHE    67      11.534  13.303  12.555  1.00 25.00           C
ATOM     68  CA  TYR    68       9.656  11.342  15.194  1.00 25.00           C
ATOM     69  CA  GLN    69       8.836   9.517  18.449  1.00 25.00           C
ATOM     70  CA  TRP    70       9.103   5.730  18.995  1.00 25.00           C
ATOM     71  CA  GLN    71       6.330   6.384  21.553  1.00 25.00           C
ATOM     72  CA  HIS    72       6.868   3.172  23.526  1.00 25.00           C
ATOM     73  CA  GLY    73      10.443   2.152  24.405  1.00 25.00           C
ATOM     74  CA  ASP    74      10.921   5.984  24.395  1.00 25.00           C
ATOM     75  CA  PHE    75      13.827   5.035  22.106  1.00 25.00           C
ATOM     76  CA  CYS    76      13.883   8.223  19.998  1.00 25.00           C
ATOM     77  CA  ALA    77      14.268   9.970  16.642  1.00 25.00           C
ATOM     78  CA  LEU    78      16.125  11.092  13.517  1.00 25.00           C
ATOM     79  CA  GLY    79      14.552   9.764  10.354  1.00 25.00           C
ATOM     80  CA  ASN    80      17.110  10.610   7.732  1.00 25.00           C
ATOM     81  CA  MET    81      19.569  13.514   7.128  1.00 25.00           C
ATOM     82  CA  MET    82      18.943  13.214   3.431  1.00 25.00           C
ATOM     83  CA  VAL    83      22.082  15.252   2.768  1.00 25.00           C
ATOM     84  CA  ALA    84      21.741  16.640  -0.773  1.00 25.00           C
ATOM     85  CA  PRO    85      23.060  17.315  -4.204  1.00 25.00           C
ATOM     86  CA  ALA    86      23.558  21.080  -4.695  1.00 25.00           C
ATOM     87  CA  ALA    87      24.661  21.435  -1.045  1.00 25.00           C
ATOM     88  CA  ARG    88      27.326  19.421   0.722  1.00 25.00           C
ATOM     89  CA  GLY    89      29.105  21.416   3.397  1.00 25.00           C
ATOM     90  CA  LEU    90      27.246  24.758   3.688  1.00 25.00           C
ATOM     91  CA  GLY    91      26.410  23.622   7.209  1.00 25.00           C
ATOM     92  CA  VAL    92      23.317  21.690   6.129  1.00 25.00           C
ATOM     93  CA  ALA    93      22.880  18.024   7.147  1.00 25.00           C
ATOM     94  CA  ARG    94      24.915  18.641  10.332  1.00 25.00           C
ATOM     95  CA  TYR    95      22.756  21.695  11.151  1.00 25.00           C
ATOM     96  CA  LEU    96      19.579  19.620  10.626  1.00 25.00           C
ATOM     97  CA  ILE    97      20.952  16.889  12.933  1.00 25.00           C
ATOM     98  CA  GLY    98      21.761  19.515  15.601  1.00 25.00           C
ATOM     99  CA  VAL    99      18.217  20.937  15.311  1.00 25.00           C
ATOM    100  CA  MET   100      16.749  17.421  15.687  1.00 25.00           C
ATOM    101  CA  GLU   101      18.912  16.822  18.790  1.00 25.00           C
ATOM    102  CA  ASN   102      17.739  20.150  20.280  1.00 25.00           C
ATOM    103  CA  LEU   103      14.092  19.195  19.603  1.00 25.00           C
ATOM    104  CA  ALA   104      14.641  15.802  21.293  1.00 25.00           C
ATOM    105  CA  ARG   105      16.207  17.538  24.326  1.00 25.00           C
ATOM    106  CA  GLU   106      13.223  19.931  24.527  1.00 25.00           C
ATOM    107  CA  GLN   107       9.681  18.918  25.216  1.00 25.00           C
ATOM    108  CA  TYR   108       8.908  15.549  23.746  1.00 25.00           C
ATOM    109  CA  LYS   109       9.989  13.910  27.000  1.00 25.00           C
ATOM    110  CA  ALA   110      13.199  12.939  25.210  1.00 25.00           C
ATOM    111  CA  ARG   111      15.730  10.347  26.403  1.00 25.00           C
ATOM    112  CA  LEU   112      17.226  10.465  22.969  1.00 25.00           C
ATOM    113  CA  MET   113      18.319  11.166  19.404  1.00 25.00           C
ATOM    114  CA  LYS   114      19.105   8.492  16.760  1.00 25.00           C
ATOM    115  CA  ILE   115      21.268   9.839  13.877  1.00 25.00           C
ATOM    116  CA  SER   116      20.103   7.497  11.116  1.00 25.00           C
ATOM    117  CA  CYS   117      21.074   4.751   8.674  1.00 25.00           C
ATOM    118  CA  PHE   118      23.997   2.555   7.734  1.00 25.00           C
ATOM    119  CA  ASN   119      27.109   0.449   8.256  1.00 25.00           C
ATOM    120  CA  ALA   120      28.832   1.219   4.954  1.00 25.00           C
ATOM    121  CA  ASN   121      27.192   4.540   4.148  1.00 25.00           C
ATOM    122  CA  ALA   122      29.752   6.362   6.276  1.00 25.00           C
ATOM    123  CA  ALA   123      28.955  10.094   6.591  1.00 25.00           C
ATOM    124  CA  GLY   124      25.879   9.282   8.722  1.00 25.00           C
ATOM    125  CA  LEU   125      28.002   7.023  10.970  1.00 25.00           C
ATOM    126  CA  LEU   126      30.598   9.810  11.361  1.00 25.00           C
ATOM    127  CA  LEU   127      27.832  12.293  12.281  1.00 25.00           C
ATOM    128  CA  TYR   128      26.454   9.834  14.874  1.00 25.00           C
ATOM    129  CA  THR   129      29.958   9.397  16.357  1.00 25.00           C
ATOM    130  CA  GLN   130      30.377  13.197  16.552  1.00 25.00           C
ATOM    131  CA  LEU   131      29.248  12.897  20.218  1.00 25.00           C
ATOM    132  CA  GLY   132      29.751   9.365  21.534  1.00 25.00           C
ATOM    133  CA  TYR   133      26.363   8.682  19.919  1.00 25.00           C
ATOM    134  CA  GLN   134      27.293   5.028  19.590  1.00 25.00           C
ATOM    135  CA  PRO   135      26.889   1.610  17.909  1.00 25.00           C
ATOM    136  CA  ARG   136      24.457   0.149  20.441  1.00 25.00           C
ATOM    137  CA  ALA   137      21.943  -1.487  18.120  1.00 25.00           C
ATOM    138  CA  ILE   138      22.384  -3.447  14.965  1.00 25.00           C
ATOM    139  CA  ALA   139      19.741  -5.827  13.656  1.00 25.00           C
ATOM    140  CA  GLU   140      19.688  -6.235   9.911  1.00 25.00           C
ATOM    141  CA  ARG   141      16.931  -7.133   7.355  1.00 25.00           C
ATOM    142  CA  HIS   142      13.714  -7.001   5.389  1.00 25.00           C
ATOM    143  CA  ASP   143      10.760  -8.636   3.762  1.00 25.00           C
ATOM    144  CA  PRO   144      12.124  -7.169   0.476  1.00 25.00           C
ATOM    145  CA  ASP   145      15.638  -7.754  -0.898  1.00 25.00           C
ATOM    146  CA  GLY   146      19.337  -7.127  -0.053  1.00 25.00           C
ATOM    147  CA  ARG   147      22.168  -6.675   2.383  1.00 25.00           C
ATOM    148  CA  ARG   148      20.296  -4.363   4.679  1.00 25.00           C
ATOM    149  CA  VAL   149      20.781  -1.146   6.727  1.00 25.00           C
ATOM    150  CA  ALA   150      19.866  -0.099  10.278  1.00 25.00           C
ATOM    151  CA  LEU   151      18.703   2.604  12.688  1.00 25.00           C
ATOM    152  CA  ILE   152      21.641   4.109  14.546  1.00 25.00           C
ATOM    153  CA  GLN   153      20.357   3.575  18.093  1.00 25.00           C
ATOM    154  CA  MET   154      22.057   6.130  20.266  1.00 25.00           C
ATOM    155  CA  ASP   155      21.779   8.218  23.365  1.00 25.00           C
ATOM    156  CA  LYS   156      22.834   9.790  26.656  1.00 25.00           C
ATOM    157  CA  PRO   157      23.646  12.838  28.861  1.00 25.00           C
ATOM    158  CA  LEU   158      20.155  13.922  29.850  1.00 25.00           C
ATOM    159  CA  GLU   159      21.481  16.805  31.964  1.00 25.00           C
ATOM    160  CA  PRO   160      19.672  20.148  32.205  1.00 25.00           C
TER
END
