
#######################################################
#                                                     #
#                        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   47 (  188),  selected   47 , name T0349TS383_4-D1
# Molecule2: number of CA atoms   57 (  873),  selected   57 , name T0349_D1.pdb
# PARAMETERS: T0349TS383_4-D1.T0349_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      R       2           -
LGA    R       2      E       3          2.405
LGA    E       3      L       4          3.144
LGA    L       4      L       5          2.984
LGA    L       5      R       6          3.621
LGA    R       6      T       7          3.907
LGA    N       8      N       8          5.215
LGA    D       9      D       9          1.994
LGA    A      10      A      10          1.692
LGA    V      11      V      11          1.596
LGA    L      12      L      12          1.468
LGA    L      13      L      13          1.410
LGA    S      14      S      14          1.773
LGA    A      15      A      15          1.418
LGA    V      16      V      16          1.249
LGA    G      17      G      17          1.458
LGA    A      18      A      18          0.767
LGA    L      19      L      19          0.730
LGA    L      20      L      20          0.602
LGA    D      21      D      21          1.493
LGA    G      22      G      22          1.866
LGA    A      23      A      23          1.658
LGA    D      24      D      24          1.907
LGA    I      25      I      25          1.090
LGA    G      26      G      26          2.003
LGA    H      27      H      27          2.730
LGA    L      28      L      28           #
LGA    V      29      V      29           -
LGA    -       -      P      45           -
LGA    P      45      R      46          5.156
LGA    R      46      R      47          1.554
LGA    R      47      V      48          4.393
LGA    V      48      L      49          1.583
LGA    L      49      V      50          3.386
LGA    V      50      H      51          1.910
LGA    -       -      E      52           -
LGA    D      53      D      53          3.760
LGA    D      54      D      54          0.956
LGA    L      55      L      55          0.882
LGA    A      56      A      56          1.095
LGA    G      57      G      57          0.870
LGA    A      58      A      58          0.454
LGA    R      59      R      59          0.823
LGA    R      60      R      60          0.471
LGA    L      61      L      61          0.545
LGA    L      62      L      62          1.049
LGA    T      63      T      63          1.315
LGA    D      64      D      64          2.218
LGA    -       -      A      65           -
LGA    A      65      G      66          0.991
LGA    G      66      L      67          1.472
LGA    -       -      A      68           -
LGA    -       -      H      69           -
LGA    -       -      E      70           -
LGA    -       -      L      71           -
LGA    -       -      R      72           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   47   57    5.0     45    2.23    75.56     67.533     1.927

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.887698 * X  +  -0.431995 * Y  +   0.159290 * Z  +   8.218413
  Y_new =  -0.441010 * X  +  -0.897166 * Y  +   0.024564 * Z  +  36.428123
  Z_new =   0.132298 * X  +  -0.092054 * Y  +  -0.986926 * Z  +  12.898956 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -3.048589    0.093004  [ DEG:  -174.6713      5.3287 ]
  Theta =  -0.132687   -3.008905  [ DEG:    -7.6024   -172.3976 ]
  Phi   =  -0.461086    2.680506  [ DEG:   -26.4183    153.5817 ]
 
# 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: T0349TS383_4-D1                               
REMARK     2: T0349_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS383_4-D1.T0349_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   47   57   5.0   45   2.23   75.56  67.533
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS383_4-D1
PFRMAT TS
TARGET T0349
MODEL 4
PARENT 2f06A
ATOM      1  N   ARG     2       5.625   4.401  -2.278  1.00  0.00
ATOM      2  CA  ARG     2       5.363   2.989  -2.398  1.00  0.00
ATOM      3  C   ARG     2       5.412   2.362  -1.034  1.00  0.00
ATOM      4  O   ARG     2       6.481   2.319  -0.434  1.00  0.00
ATOM      5  N   GLU     3       4.286   1.790  -0.617  1.00  0.00
ATOM      6  CA  GLU     3       4.137   1.275   0.692  1.00  0.00
ATOM      7  C   GLU     3       3.836  -0.247   0.691  1.00  0.00
ATOM      8  O   GLU     3       2.827  -0.702   0.077  1.00  0.00
ATOM      9  N   LEU     4       4.697  -0.997   1.396  1.00  0.00
ATOM     10  CA  LEU     4       4.610  -2.467   1.480  1.00  0.00
ATOM     11  C   LEU     4       3.514  -2.837   2.488  1.00  0.00
ATOM     12  O   LEU     4       3.587  -2.462   3.640  1.00  0.00
ATOM     13  N   LEU     5       2.444  -3.472   2.003  1.00  0.00
ATOM     14  CA  LEU     5       1.278  -3.803   2.839  1.00  0.00
ATOM     15  C   LEU     5       1.449  -5.294   3.050  1.00  0.00
ATOM     16  O   LEU     5       1.273  -6.107   2.100  1.00  0.00
ATOM     17  N   ARG     6       1.820  -5.670   4.255  1.00  0.00
ATOM     18  CA  ARG     6       1.942  -7.071   4.601  1.00  0.00
ATOM     19  C   ARG     6       0.565  -7.729   4.866  1.00  0.00
ATOM     20  O   ARG     6      -0.451  -7.082   4.699  1.00  0.00
ATOM     21  N   ASN     8       0.491  -9.010   5.213  1.00  0.00
ATOM     22  CA  ASN     8      -0.831  -9.538   5.708  1.00  0.00
ATOM     23  C   ASN     8      -1.890  -9.503   4.523  1.00  0.00
ATOM     24  O   ASN     8      -1.609 -10.109   3.488  1.00  0.00
ATOM     25  N   ASP     9      -3.045  -8.818   4.635  1.00  0.00
ATOM     26  CA  ASP     9      -4.012  -8.539   3.480  1.00  0.00
ATOM     27  C   ASP     9      -5.334  -7.841   3.918  1.00  0.00
ATOM     28  O   ASP     9      -6.209  -7.622   3.069  1.00  0.00
ATOM     29  N   ALA    10      -5.443  -7.446   5.205  1.00  0.00
ATOM     30  CA  ALA    10      -6.678  -7.753   5.992  1.00  0.00
ATOM     31  C   ALA    10      -7.372  -6.847   7.076  1.00  0.00
ATOM     32  O   ALA    10      -8.279  -7.376   7.736  1.00  0.00
ATOM     33  N   VAL    11      -6.926  -5.640   7.443  1.00  0.00
ATOM     34  CA  VAL    11      -5.572  -5.389   7.817  1.00  0.00
ATOM     35  C   VAL    11      -4.957  -4.017   7.702  1.00  0.00
ATOM     36  O   VAL    11      -5.466  -2.991   8.186  1.00  0.00
ATOM     37  N   LEU    12      -3.813  -4.080   7.063  1.00  0.00
ATOM     38  CA  LEU    12      -2.797  -3.077   7.074  1.00  0.00
ATOM     39  C   LEU    12      -3.127  -1.930   6.187  1.00  0.00
ATOM     40  O   LEU    12      -2.663  -0.835   6.448  1.00  0.00
ATOM     41  N   LEU    13      -3.922  -2.167   5.140  1.00  0.00
ATOM     42  CA  LEU    13      -4.282  -1.049   4.256  1.00  0.00
ATOM     43  C   LEU    13      -5.144   0.005   5.030  1.00  0.00
ATOM     44  O   LEU    13      -4.984   1.235   4.846  1.00  0.00
ATOM     45  N   SER    14      -6.028  -0.489   5.884  1.00  0.00
ATOM     46  CA  SER    14      -6.850   0.411   6.674  1.00  0.00
ATOM     47  C   SER    14      -6.003   1.243   7.650  1.00  0.00
ATOM     48  O   SER    14      -6.104   2.485   7.665  1.00  0.00
ATOM     49  N   ALA    15      -5.139   0.573   8.395  1.00  0.00
ATOM     50  CA  ALA    15      -4.156   1.276   9.217  1.00  0.00
ATOM     51  C   ALA    15      -3.330   2.298   8.460  1.00  0.00
ATOM     52  O   ALA    15      -3.091   3.336   9.015  1.00  0.00
ATOM     53  N   VAL    16      -2.889   2.027   7.215  1.00  0.00
ATOM     54  CA  VAL    16      -2.091   3.006   6.456  1.00  0.00
ATOM     55  C   VAL    16      -2.934   4.221   6.157  1.00  0.00
ATOM     56  O   VAL    16      -2.480   5.391   6.205  1.00  0.00
ATOM     57  N   GLY    17      -4.163   3.984   5.775  1.00  0.00
ATOM     58  CA  GLY    17      -5.010   5.150   5.449  1.00  0.00
ATOM     59  C   GLY    17      -5.373   5.919   6.717  1.00  0.00
ATOM     60  O   GLY    17      -5.583   7.145   6.654  1.00  0.00
ATOM     61  N   ALA    18      -5.445   5.202   7.821  1.00  0.00
ATOM     62  CA  ALA    18      -5.582   5.829   9.162  1.00  0.00
ATOM     63  C   ALA    18      -4.383   6.692   9.632  1.00  0.00
ATOM     64  O   ALA    18      -4.582   7.794  10.118  1.00  0.00
ATOM     65  N   LEU    19      -3.164   6.177   9.578  1.00  0.00
ATOM     66  CA  LEU    19      -1.932   7.017   9.657  1.00  0.00
ATOM     67  C   LEU    19      -1.977   8.312   8.845  1.00  0.00
ATOM     68  O   LEU    19      -1.722   9.389   9.382  1.00  0.00
ATOM     69  N   LEU    20      -2.300   8.221   7.570  1.00  0.00
ATOM     70  CA  LEU    20      -2.378   9.398   6.730  1.00  0.00
ATOM     71  C   LEU    20      -3.511  10.350   7.094  1.00  0.00
ATOM     72  O   LEU    20      -3.276  11.556   7.095  1.00  0.00
ATOM     73  N   ASP    21      -4.711   9.825   7.409  1.00  0.00
ATOM     74  CA  ASP    21      -5.835  10.636   7.883  1.00  0.00
ATOM     75  C   ASP    21      -5.487  11.440   9.131  1.00  0.00
ATOM     76  O   ASP    21      -5.935  12.596   9.296  1.00  0.00
ATOM     77  N   GLY    22      -4.769  10.802  10.055  1.00  0.00
ATOM     78  CA  GLY    22      -4.461  11.433  11.343  1.00  0.00
ATOM     79  C   GLY    22      -3.549  12.675  11.141  1.00  0.00
ATOM     80  O   GLY    22      -3.575  13.627  11.957  1.00  0.00
ATOM     81  N   ALA    23      -2.757  12.661  10.058  1.00  0.00
ATOM     82  CA  ALA    23      -1.880  13.766   9.771  1.00  0.00
ATOM     83  C   ALA    23      -2.542  14.866   8.905  1.00  0.00
ATOM     84  O   ALA    23      -1.871  15.888   8.566  1.00  0.00
ATOM     85  N   ASP    24      -3.829  14.672   8.570  1.00  0.00
ATOM     86  CA  ASP    24      -4.594  15.502   7.619  1.00  0.00
ATOM     87  C   ASP    24      -3.857  15.521   6.281  1.00  0.00
ATOM     88  O   ASP    24      -3.695  16.575   5.659  1.00  0.00
ATOM     89  N   ILE    25      -3.390  14.331   5.865  1.00  0.00
ATOM     90  CA  ILE    25      -2.750  14.147   4.591  1.00  0.00
ATOM     91  C   ILE    25      -3.799  13.597   3.677  1.00  0.00
ATOM     92  O   ILE    25      -4.414  12.558   3.951  1.00  0.00
ATOM     93  N   GLY    26      -4.048  14.343   2.601  1.00  0.00
ATOM     94  CA  GLY    26      -4.974  13.919   1.541  1.00  0.00
ATOM     95  C   GLY    26      -4.295  13.006   0.510  1.00  0.00
ATOM     96  O   GLY    26      -3.164  13.264   0.015  1.00  0.00
ATOM     97  N   HIS    27      -5.041  11.992   0.108  1.00  0.00
ATOM     98  CA  HIS    27      -4.655  11.122  -0.988  1.00  0.00
ATOM     99  C   HIS    27      -5.195  11.699  -2.302  1.00  0.00
ATOM    100  O   HIS    27      -6.362  11.959  -2.414  1.00  0.00
ATOM    101  N   LEU    28      -4.346  11.882  -3.300  1.00  0.00
ATOM    102  CA  LEU    28      -4.743  12.395  -4.628  1.00  0.00
ATOM    103  C   LEU    28      -5.044  11.318  -5.628  1.00  0.00
ATOM    104  O   LEU    28      -5.899  11.464  -6.483  1.00  0.00
ATOM    105  N   VAL    29      -4.260  10.266  -5.526  1.00  0.00
ATOM    106  CA  VAL    29      -4.210   9.191  -6.519  1.00  0.00
ATOM    107  C   VAL    29      -3.518   8.022  -5.862  1.00  0.00
ATOM    108  O   VAL    29      -2.453   8.172  -5.217  1.00  0.00
ATOM    149  N   PRO    45       1.432  -3.653  -2.863  1.00  0.00
ATOM    150  CA  PRO    45       2.118  -2.432  -2.695  1.00  0.00
ATOM    151  C   PRO    45       1.187  -1.263  -3.045  1.00  0.00
ATOM    152  O   PRO    45       0.739  -1.132  -4.232  1.00  0.00
ATOM    153  N   ARG    46       0.950  -0.422  -2.042  1.00  0.00
ATOM    154  CA  ARG    46       0.233   0.794  -2.288  1.00  0.00
ATOM    155  C   ARG    46       1.151   1.831  -2.914  1.00  0.00
ATOM    156  O   ARG    46       2.055   2.348  -2.261  1.00  0.00
ATOM    157  N   ARG    47       0.853   2.162  -4.150  1.00  0.00
ATOM    158  CA  ARG    47       1.446   3.303  -4.799  1.00  0.00
ATOM    159  C   ARG    47       0.533   4.505  -4.636  1.00  0.00
ATOM    160  O   ARG    47      -0.674   4.409  -4.880  1.00  0.00
ATOM    161  N   VAL    48       1.099   5.634  -4.249  1.00  0.00
ATOM    162  CA  VAL    48       0.300   6.669  -3.662  1.00  0.00
ATOM    163  C   VAL    48       0.845   8.038  -4.015  1.00  0.00
ATOM    164  O   VAL    48       2.024   8.306  -3.832  1.00  0.00
ATOM    165  N   LEU    49      -0.041   8.884  -4.521  1.00  0.00
ATOM    166  CA  LEU    49       0.192  10.341  -4.589  1.00  0.00
ATOM    167  C   LEU    49      -0.540  11.029  -3.428  1.00  0.00
ATOM    168  O   LEU    49      -1.760  10.927  -3.328  1.00  0.00
ATOM    169  N   VAL    50       0.205  11.683  -2.526  1.00  0.00
ATOM    170  CA  VAL    50      -0.406  12.341  -1.373  1.00  0.00
ATOM    171  C   VAL    50      -0.147  13.884  -1.373  1.00  0.00
ATOM    172  O   VAL    50       0.673  14.367  -2.175  1.00  0.00
ATOM    173  N   ASP    53      -0.808  14.611  -0.461  1.00  0.00
ATOM    174  CA  ASP    53      -0.701  16.099  -0.404  1.00  0.00
ATOM    175  C   ASP    53       0.633  16.645   0.152  1.00  0.00
ATOM    176  O   ASP    53       1.040  17.774  -0.175  1.00  0.00
ATOM    177  N   ASP    54       1.299  15.838   0.981  1.00  0.00
ATOM    178  CA  ASP    54       2.589  16.176   1.569  1.00  0.00
ATOM    179  C   ASP    54       3.446  14.893   1.672  1.00  0.00
ATOM    180  O   ASP    54       3.409  14.198   2.699  1.00  0.00
ATOM    181  N   LEU    55       4.185  14.543   0.592  1.00  0.00
ATOM    182  CA  LEU    55       4.905  13.247   0.634  1.00  0.00
ATOM    183  C   LEU    55       5.971  13.083   1.743  1.00  0.00
ATOM    184  O   LEU    55       6.091  11.997   2.296  1.00  0.00
ATOM    185  N   ALA    56       6.664  14.154   2.112  1.00  0.00
ATOM    186  CA  ALA    56       7.711  14.088   3.142  1.00  0.00
ATOM    187  C   ALA    56       7.125  13.855   4.548  1.00  0.00
ATOM    188  O   ALA    56       7.650  13.036   5.313  1.00  0.00
ATOM    189  N   GLY    57       6.048  14.569   4.857  1.00  0.00
ATOM    190  CA  GLY    57       5.341  14.389   6.137  1.00  0.00
ATOM    191  C   GLY    57       4.744  12.971   6.185  1.00  0.00
ATOM    192  O   GLY    57       4.832  12.299   7.218  1.00  0.00
ATOM    193  N   ALA    58       4.135  12.538   5.074  1.00  0.00
ATOM    194  CA  ALA    58       3.572  11.197   4.955  1.00  0.00
ATOM    195  C   ALA    58       4.597  10.106   5.128  1.00  0.00
ATOM    196  O   ALA    58       4.373   9.166   5.936  1.00  0.00
ATOM    197  N   ARG    59       5.706  10.226   4.409  1.00  0.00
ATOM    198  CA  ARG    59       6.821   9.297   4.593  1.00  0.00
ATOM    199  C   ARG    59       7.307   9.163   6.050  1.00  0.00
ATOM    200  O   ARG    59       7.532   8.061   6.552  1.00  0.00
ATOM    201  N   ARG    60       7.500  10.272   6.737  1.00  0.00
ATOM    202  CA  ARG    60       8.035  10.158   8.103  1.00  0.00
ATOM    203  C   ARG    60       7.002   9.555   9.089  1.00  0.00
ATOM    204  O   ARG    60       7.383   8.785   9.985  1.00  0.00
ATOM    205  N   LEU    61       5.720   9.902   8.918  1.00  0.00
ATOM    206  CA  LEU    61       4.622   9.312   9.687  1.00  0.00
ATOM    207  C   LEU    61       4.539   7.762   9.514  1.00  0.00
ATOM    208  O   LEU    61       4.460   6.971  10.499  1.00  0.00
ATOM    209  N   LEU    62       4.600   7.332   8.267  1.00  0.00
ATOM    210  CA  LEU    62       4.642   5.927   7.953  1.00  0.00
ATOM    211  C   LEU    62       5.846   5.192   8.544  1.00  0.00
ATOM    212  O   LEU    62       5.638   4.152   9.153  1.00  0.00
ATOM    213  N   THR    63       7.076   5.701   8.372  1.00  0.00
ATOM    214  CA  THR    63       8.282   5.117   9.035  1.00  0.00
ATOM    215  C   THR    63       8.150   5.041  10.561  1.00  0.00
ATOM    216  O   THR    63       8.594   4.072  11.193  1.00  0.00
ATOM    217  N   ASP    64       7.588   6.103  11.146  1.00  0.00
ATOM    218  CA  ASP    64       7.316   6.199  12.578  1.00  0.00
ATOM    219  C   ASP    64       6.355   5.102  13.041  1.00  0.00
ATOM    220  O   ASP    64       6.457   4.639  14.183  1.00  0.00
ATOM    221  N   ALA    65       5.374   4.772  12.197  1.00  0.00
ATOM    222  CA  ALA    65       4.427   3.695  12.455  1.00  0.00
ATOM    223  C   ALA    65       4.881   2.326  11.936  1.00  0.00
ATOM    224  O   ALA    65       4.072   1.390  11.875  1.00  0.00
ATOM    225  N   GLY    66       6.161   2.239  11.540  1.00  0.00
ATOM    226  CA  GLY    66       6.869   0.985  11.236  1.00  0.00
ATOM    227  C   GLY    66       6.440   0.384   9.909  1.00  0.00
ATOM    228  O   GLY    66       6.602  -0.837   9.709  1.00  0.00
TER
END
