
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS599_2
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS599_2.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    A       3      N       5           -
LGA    -       -      L       6           -
LGA    M       4      K       7           #
LGA    N       5      R       8          4.416
LGA    L       6      -       -           -
LGA    K       7      E       9          3.752
LGA    R       8      Q      10          2.854
LGA    E       9      E      11          0.938
LGA    Q      10      F      12          2.607
LGA    E      11      -       -           -
LGA    F      12      -       -           -
LGA    V      13      V      13          3.085
LGA    S      14      -       -           -
LGA    Q      15      -       -           -
LGA    Y      16      -       -           -
LGA    H      17      S      14          2.414
LGA    F      18      Q      15          1.669
LGA    D      19      Y      16          1.785
LGA    A      20      -       -           -
LGA    R      21      H      17          3.184
LGA    N      22      F      18          3.154
LGA    F      23      D      19           #
LGA    E      24      -       -           -
LGA    W      25      A      20           #
LGA    E      26      R      21          3.683
LGA    N      27      N      22          5.097
LGA    E      28      F      23          1.517
LGA    N      29      E      24           #
LGA    G      30      W      25           -
LGA    -       -      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    -       -      N      29           -
LGA    -       -      G      30           -
LGA    A      31      A      31          4.613
LGA    P      32      P      32          3.844
LGA    E      33      E      33          2.573
LGA    T      34      T      34          2.784
LGA    K      35      K      35          1.554
LGA    V      36      V      36          4.709
LGA    D      37      D      37          3.601
LGA    V      38      V      38           #
LGA    N      39      N      39          3.827
LGA    F      40      F      40          5.277
LGA    Q      41      Q      41          2.173
LGA    L      42      L      42          4.910
LGA    L      43      L      43          1.129
LGA    Q      44      -       -           -
LGA    H      45      -       -           -
LGA    D      46      -       -           -
LGA    Q      47      -       -           -
LGA    E      48      -       -           -
LGA    N      49      Q      44          4.945
LGA    Q      50      H      45          3.383
LGA    V      51      -       -           -
LGA    T      52      D      46           #
LGA    -       -      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    -       -      Q      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    S      53      S      53          4.031
LGA    L      54      L      54          1.979
LGA    I      55      I      55          4.090
LGA    V      56      V      56          0.626
LGA    I      57      I      57          3.080
LGA    L      58      L      58          0.408
LGA    S      59      S      59          3.702
LGA    F      60      F      60          1.574
LGA    M      61      M      61          3.538
LGA    I      62      I      62          1.564
LGA    V      63      V      63          1.156
LGA    F      64      F      64          3.724
LGA    D      65      D      65          1.900
LGA    K      66      K      66          1.529
LGA    F      67      F      67          0.997
LGA    V      68      V      68          3.315
LGA    I      69      I      69          1.326
LGA    S      70      S      70           #
LGA    G      71      G      71           #
LGA    -       -      T      72           -
LGA    -       -      I      73           -
LGA    -       -      S      74           -
LGA    -       -      Q      75           -
LGA    -       -      V      76           -
LGA    -       -      N      77           -
LGA    -       -      H      78           -
LGA    -       -      I      79           -
LGA    -       -      D      80           -
LGA    -       -      G      81           -
LGA    -       -      R      82           -
LGA    -       -      I      83           -
LGA    -       -      V      84           -
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    -       -      P      87           -
LGA    -       -      S      88           -
LGA    -       -      E      89           -
LGA    -       -      L      90           -
LGA    -       -      N      91           -
LGA    -       -      Q      92           -
LGA    -       -      E      93           -
LGA    -       -      E      94           -
LGA    -       -      V      95           -
LGA    -       -      E      96           -
LGA    -       -      T      97           -
LGA    -       -      L      98           -
LGA    -       -      A      99           -
LGA    -       -      R     100           -
LGA    -       -      P     101           -
LGA    T      72      C     102           #
LGA    I      73      L     103          2.240
LGA    S      74      -       -           -
LGA    Q      75      -       -           -
LGA    V      76      N     104          0.646
LGA    N      77      M     105          3.808
LGA    H      78      L     106           -
LGA    -       -      N     107           -
LGA    I      79      R     108           #
LGA    D      80      L     109           -
LGA    G      81      T     110           -
LGA    R      82      Y     111           -
LGA    I      83      E     112           -
LGA    V      84      V     113           -
LGA    N      85      T     114           -
LGA    E      86      E     115           -
LGA    P      87      I     116           -
LGA    S      88      A     117           -
LGA    E      89      L     118           -
LGA    L      90      D     119           -
LGA    N      91      L     120           -
LGA    Q      92      P     121           -
LGA    E      93      G     122           -
LGA    E      94      I     123           -
LGA    V      95      N     124           -
LGA    E      96      -       -           -
LGA    T      97      -       -           -
LGA    L      98      -       -           -
LGA    A      99      -       -           -
LGA    R     100      -       -           -
LGA    P     101      -       -           -
LGA    C     102      -       -           -
LGA    L     103      -       -           -
LGA    N     104      -       -           -
LGA    M     105      -       -           -
LGA    L     106      -       -           -
LGA    N     107      -       -           -
LGA    R     108      L     125           #
LGA    L     109      E     126          1.535
LGA    T     110      -       -           -
LGA    Y     111      F     127          1.991
LGA    E     112      -       -           -
LGA    V     113      -       -           -
LGA    T     114      -       -           -
LGA    E     115      -       -           -
LGA    I     116      -       -           -
LGA    A     117      -       -           -
LGA    L     118      -       -           -
LGA    D     119      -       -           -
LGA    L     120      -       -           -
LGA    P     121      -       -           -
LGA    G     122      -       -           -
LGA    I     123      -       -           -
LGA    N     124      -       -           -
LGA    L     125      -       -           -
LGA    E     126      -       -           -
LGA    F     127      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     50    3.06    64.00     23.496     1.582

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.615935 * X  +   0.359193 * Y  +  -0.701145 * Z  +  12.988653
  Y_new =  -0.730531 * X  +   0.072709 * Y  +   0.678998 * Z  +  32.467812
  Z_new =   0.294871 * X  +   0.930427 * Y  +   0.217618 * Z  +  11.433031 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.341036   -1.800557  [ DEG:    76.8357   -103.1643 ]
  Theta =  -0.299320   -2.842273  [ DEG:   -17.1498   -162.8502 ]
  Phi   =  -2.271290    0.870302  [ DEG:  -130.1353     49.8647 ]
 
# 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: T0383TS599_2                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS599_2.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   50   3.06   64.00  23.496
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS599_2
PFRMAT TS                                                                       
TARGET T0383                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  SER     1      21.404  26.867  24.383  1.00  0.00              
ATOM      2  CA  ASN     2      23.867  28.784  22.449  1.00  0.00              
ATOM      3  CA  ALA     3      23.714  25.638  20.736  1.00  0.00              
ATOM      4  CA  MET     4      20.700  27.934  22.273  1.00  0.00              
ATOM      5  CA  ASN     5      20.246  29.547  18.867  1.00  0.00              
ATOM      6  CA  LEU     6      20.407  26.224  17.008  1.00  0.00              
ATOM      7  CA  LYS     7      17.870  24.682  19.364  1.00  0.00              
ATOM      8  CA  ARG     8      15.390  27.564  19.057  1.00  0.00              
ATOM      9  CA  GLU     9      15.366  27.259  15.234  1.00  0.00              
ATOM     10  CA  GLN    10      14.227  23.638  14.711  1.00  0.00              
ATOM     11  CA  GLU    11      11.545  23.921  17.420  1.00  0.00              
ATOM     12  CA  PHE    12       9.922  27.007  15.851  1.00  0.00              
ATOM     13  CA  VAL    13       9.813  25.346  12.400  1.00  0.00              
ATOM     14  CA  SER    14       8.231  22.142  13.782  1.00  0.00              
ATOM     15  CA  GLN    15       5.564  24.072  15.772  1.00  0.00              
ATOM     16  CA  TYR    16       4.315  26.066  12.826  1.00  0.00              
ATOM     17  CA  HIS    17       4.596  23.434  10.044  1.00  0.00              
ATOM     18  CA  PHE    18       5.799  24.704   6.739  1.00  0.00              
ATOM     19  CA  ASP    19       7.652  22.990   3.980  1.00  0.00              
ATOM     20  CA  ALA    20       9.847  25.550   2.105  1.00  0.00              
ATOM     21  CA  ARG    21      10.579  23.297  -0.848  1.00  0.00              
ATOM     22  CA  ASN    22       6.999  22.198  -1.715  1.00  0.00              
ATOM     23  CA  PHE    23       4.448  24.931  -1.493  1.00  0.00              
ATOM     24  CA  GLU    24       2.437  24.482  -4.634  1.00  0.00              
ATOM     25  CA  TRP    25       2.287  27.988  -6.265  1.00  0.00              
ATOM     26  CA  GLU    26       0.731  27.041  -9.552  1.00  0.00              
ATOM     27  CA  ASN    27      -0.109  30.337 -11.190  1.00  0.00              
ATOM     28  CA  GLU    28       0.561  29.482 -14.857  1.00  0.00              
ATOM     29  CA  ASN    29       2.794  32.467 -15.660  1.00  0.00              
ATOM     30  CA  GLY    30       0.414  34.963 -14.033  1.00  0.00              
ATOM     31  CA  ALA    31       2.984  36.665 -11.885  1.00  0.00              
ATOM     32  CA  PRO    32       1.799  37.239  -8.363  1.00  0.00              
ATOM     33  CA  GLU    33       4.741  37.122  -6.024  1.00  0.00              
ATOM     34  CA  THR    34       3.358  35.241  -3.090  1.00  0.00              
ATOM     35  CA  LYS    35       4.507  36.199   0.342  1.00  0.00              
ATOM     36  CA  VAL    36       3.809  33.751   3.086  1.00  0.00              
ATOM     37  CA  ASP    37       4.053  34.802   6.607  1.00  0.00              
ATOM     38  CA  VAL    38       4.215  32.213   9.335  1.00  0.00              
ATOM     39  CA  ASN    39       3.761  33.281  12.876  1.00  0.00              
ATOM     40  CA  PHE    40       5.056  31.147  15.711  1.00  0.00              
ATOM     41  CA  GLN    41       4.236  32.084  19.294  1.00  0.00              
ATOM     42  CA  LEU    42       6.378  30.905  22.062  1.00  0.00              
ATOM     43  CA  LEU    43       5.163  31.062  25.600  1.00  0.00              
ATOM     44  CA  GLN    44       7.066  29.042  28.187  1.00  0.00              
ATOM     45  CA  HIS    45       4.230  28.072  30.512  1.00  0.00              
ATOM     46  CA  ASP    46       5.123  30.369  33.432  1.00  0.00              
ATOM     47  CA  GLN    47       6.532  33.162  31.305  1.00  0.00              
ATOM     48  CA  GLU    48       3.435  33.111  29.044  1.00  0.00              
ATOM     49  CA  ASN    49       0.962  33.632  31.888  1.00  0.00              
ATOM     50  CA  GLN    50       3.048  36.574  33.157  1.00  0.00              
ATOM     51  CA  VAL    51       3.586  38.324  29.844  1.00  0.00              
ATOM     52  CA  THR    52       7.020  37.292  28.506  1.00  0.00              
ATOM     53  CA  SER    53       5.985  35.994  25.072  1.00  0.00              
ATOM     54  CA  LEU    54       8.339  35.298  22.339  1.00  0.00              
ATOM     55  CA  ILE    55       7.104  35.779  18.826  1.00  0.00              
ATOM     56  CA  VAL    56       8.843  34.192  16.004  1.00  0.00              
ATOM     57  CA  ILE    57       8.091  35.327  12.556  1.00  0.00              
ATOM     58  CA  LEU    58       8.798  33.022   9.685  1.00  0.00              
ATOM     59  CA  SER    59       8.875  34.494   6.230  1.00  0.00              
ATOM     60  CA  PHE    60       8.170  32.368   3.208  1.00  0.00              
ATOM     61  CA  MET    61       8.752  33.998  -0.224  1.00  0.00              
ATOM     62  CA  ILE    62       7.093  32.510  -3.165  1.00  0.00              
ATOM     63  CA  VAL    63       8.469  33.287  -6.506  1.00  0.00              
ATOM     64  CA  PHE    64       6.286  32.526  -9.544  1.00  0.00              
ATOM     65  CA  ASP    65       7.907  31.692 -12.843  1.00  0.00              
ATOM     66  CA  LYS    66       7.830  27.892 -12.591  1.00  0.00              
ATOM     67  CA  PHE    67       7.507  27.654  -8.772  1.00  0.00              
ATOM     68  CA  VAL    68      10.402  28.714  -6.625  1.00  0.00              
ATOM     69  CA  ILE    69      10.105  28.729  -2.840  1.00  0.00              
ATOM     70  CA  SER    70      12.420  30.900  -0.804  1.00  0.00              
ATOM     71  CA  GLY    71      12.584  30.460   2.941  1.00  0.00              
ATOM     72  CA  THR    72      13.828  33.114   5.040  1.00  0.00              
ATOM     73  CA  ILE    73      14.368  32.047   8.480  1.00  0.00              
ATOM     74  CA  SER    74      15.456  28.520   7.493  1.00  0.00              
ATOM     75  CA  GLN    75      18.223  29.811   5.152  1.00  0.00              
ATOM     76  CA  VAL    76      19.586  32.251   7.755  1.00  0.00              
ATOM     77  CA  ASN    77      19.544  29.594  10.454  1.00  0.00              
ATOM     78  CA  HIS    78      21.365  27.016   8.350  1.00  0.00              
ATOM     79  CA  ILE    79      24.142  29.437   7.564  1.00  0.00              
ATOM     80  CA  ASP    80      24.549  30.450  11.251  1.00  0.00              
ATOM     81  CA  GLY    81      24.777  26.926  12.582  1.00  0.00              
ATOM     82  CA  ARG    82      27.374  25.969  10.038  1.00  0.00              
ATOM     83  CA  ILE    83      29.659  29.024  10.485  1.00  0.00              
ATOM     84  CA  VAL    84      29.579  28.640  14.214  1.00  0.00              
ATOM     85  CA  ASN    85      30.272  24.950  14.518  1.00  0.00              
ATOM     86  CA  GLU    86      28.421  24.074  17.651  1.00  0.00              
ATOM     87  CA  PRO    87      27.751  26.751  20.198  1.00  0.00              
ATOM     88  CA  SER    88      29.954  25.386  22.927  1.00  0.00              
ATOM     89  CA  GLU    89      33.078  25.788  20.894  1.00  0.00              
ATOM     90  CA  LEU    90      32.715  29.338  19.780  1.00  0.00              
ATOM     91  CA  ASN    91      34.190  32.267  21.777  1.00  0.00              
ATOM     92  CA  GLN    92      31.760  35.079  22.620  1.00  0.00              
ATOM     93  CA  GLU    93      33.523  37.435  20.225  1.00  0.00              
ATOM     94  CA  GLU    94      33.431  34.889  17.429  1.00  0.00              
ATOM     95  CA  VAL    95      29.704  34.339  18.064  1.00  0.00              
ATOM     96  CA  GLU    96      28.996  38.019  17.736  1.00  0.00              
ATOM     97  CA  THR    97      30.960  38.020  14.452  1.00  0.00              
ATOM     98  CA  LEU    98      28.944  34.999  13.307  1.00  0.00              
ATOM     99  CA  ALA    99      25.506  36.511  14.148  1.00  0.00              
ATOM    100  CA  ARG   100      26.602  39.665  12.286  1.00  0.00              
ATOM    101  CA  PRO   101      28.067  38.171   9.083  1.00  0.00              
ATOM    102  CA  CYS   102      24.962  36.004   8.657  1.00  0.00              
ATOM    103  CA  LEU   103      22.600  38.928   9.097  1.00  0.00              
ATOM    104  CA  ASN   104      24.666  40.800   6.527  1.00  0.00              
ATOM    105  CA  MET   105      24.259  37.908   4.082  1.00  0.00              
ATOM    106  CA  LEU   106      20.497  37.785   4.694  1.00  0.00              
ATOM    107  CA  ASN   107      20.308  41.563   4.051  1.00  0.00              
ATOM    108  CA  ARG   108      21.841  40.840   0.624  1.00  0.00              
ATOM    109  CA  LEU   109      19.277  38.096  -0.058  1.00  0.00              
ATOM    110  CA  THR   110      16.142  40.123   0.890  1.00  0.00              
ATOM    111  CA  TYR   111      15.290  38.437   4.150  1.00  0.00              
ATOM    112  CA  GLU   112      13.132  40.012   6.862  1.00  0.00              
ATOM    113  CA  VAL   113      14.135  39.420  10.516  1.00  0.00              
ATOM    114  CA  THR   114      10.789  39.427  12.169  1.00  0.00              
ATOM    115  CA  GLU   115      11.746  38.673  15.793  1.00  0.00              
ATOM    116  CA  ILE   116       9.219  39.678  18.405  1.00  0.00              
ATOM    117  CA  ALA   117      10.134  39.677  22.105  1.00  0.00              
ATOM    118  CA  LEU   118       7.466  40.052  24.691  1.00  0.00              
ATOM    119  CA  ASP   119       8.105  42.218  27.675  1.00  0.00              
ATOM    120  CA  LEU   120       5.042  42.982  29.773  1.00  0.00              
ATOM    121  CA  PRO   121       3.577  46.265  28.434  1.00  0.00              
ATOM    122  CA  GLY   122       3.961  45.102  24.798  1.00  0.00              
ATOM    123  CA  ILE   123       2.563  41.620  25.097  1.00  0.00              
ATOM    124  CA  ASN   124      -0.539  40.393  23.408  1.00  0.00              
ATOM    125  CA  LEU   125      -2.187  37.516  26.009  1.00  0.00              
ATOM    126  CA  GLU   126      -6.017  38.035  27.664  1.00  0.00              
ATOM    127  CA  PHE   127      -7.974  36.697  30.809  1.00  0.00              
TER                                                                             
END
