
#######################################################
#                                                     #
#                        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  123 (  123),  selected  123 , name T0307TS599_1-D1
# Molecule2: number of CA atoms  123 (  939),  selected  123 , name T0307_D1.pdb
# PARAMETERS: T0307TS599_1-D1.T0307_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    I      10      I      10           -
LGA    M      11      M      11           -
LGA    T      12      T      12           -
LGA    F      13      F      13           -
LGA    S      14      S      14           -
LGA    G      15      -       -           -
LGA    Q      16      -       -           -
LGA    E      17      -       -           -
LGA    L      18      -       -           -
LGA    T      19      -       -           -
LGA    A      20      -       -           -
LGA    I      21      -       -           -
LGA    I      22      -       -           -
LGA    K      23      -       -           -
LGA    M      24      G      15          2.041
LGA    A      25      Q      16          2.167
LGA    K      26      E      17           -
LGA    S      27      L      18           -
LGA    M      28      T      19           -
LGA    V      29      A      20           -
LGA    M      30      I      21           -
LGA    A      31      I      22           -
LGA    D      32      K      23           -
LGA    G      33      M      24           -
LGA    K      34      A      25           -
LGA    I      35      K      26           -
LGA    -       -      S      27           -
LGA    -       -      M      28           -
LGA    -       -      V      29           -
LGA    -       -      M      30           -
LGA    -       -      A      31           -
LGA    -       -      D      32           -
LGA    -       -      G      33           -
LGA    -       -      K      34           -
LGA    -       -      I      35           -
LGA    -       -      K      36           -
LGA    -       -      P      37           -
LGA    -       -      A      38           -
LGA    -       -      E      39           -
LGA    -       -      I      40           -
LGA    -       -      A      41           -
LGA    -       -      V      42           -
LGA    -       -      M      43           -
LGA    -       -      T      44           -
LGA    -       -      R      45           -
LGA    -       -      E      46           -
LGA    -       -      F      47           -
LGA    -       -      M      48           -
LGA    -       -      R      49           -
LGA    -       -      F      50           -
LGA    -       -      G      51           -
LGA    -       -      I      52           -
LGA    -       -      L      53           -
LGA    -       -      Q      54           -
LGA    -       -      D      55           -
LGA    -       -      Q      56           -
LGA    -       -      V      57           -
LGA    -       -      D      58           -
LGA    -       -      L      59           -
LGA    -       -      L      60           -
LGA    -       -      L      61           -
LGA    K      36      K      62           #
LGA    P      37      A      63          2.929
LGA    A      38      S      64          1.267
LGA    E      39      D      65          4.163
LGA    -       -      S      66           -
LGA    I      40      I      67          4.270
LGA    -       -      E      68           -
LGA    -       -      A      69           -
LGA    -       -      S      70           -
LGA    A      41      Q      71          1.882
LGA    V      42      A      72          3.928
LGA    -       -      V      73           -
LGA    M      43      A      74          3.378
LGA    T      44      L      75           #
LGA    R      45      I      76           -
LGA    E      46      A      77           -
LGA    F      47      -       -           -
LGA    M      48      -       -           -
LGA    R      49      -       -           -
LGA    F      50      -       -           -
LGA    G      51      -       -           -
LGA    I      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    V      57      -       -           -
LGA    D      58      R      78          5.702
LGA    L      59      -       -           -
LGA    L      60      -       -           -
LGA    L      61      M      79          3.697
LGA    K      62      D      80          3.777
LGA    A      63      E      81           -
LGA    S      64      E      82           -
LGA    D      65      R      83          4.274
LGA    S      66      K      84          3.038
LGA    -       -      K      85           -
LGA    I      67      Y      86          2.859
LGA    E      68      V      87          1.038
LGA    A      69      A      88          1.892
LGA    S      70      S      89          2.882
LGA    Q      71      Y      90          2.344
LGA    A      72      L      91          3.747
LGA    V      73      G      92          4.595
LGA    A      74      -       -           -
LGA    L      75      -       -           -
LGA    I      76      V      93          4.592
LGA    A      77      I      94           -
LGA    -       -      M      95           -
LGA    -       -      A      96           -
LGA    -       -      S      97           -
LGA    R      78      D      98          5.453
LGA    M      79      G      99          1.814
LGA    D      80      D     100          1.437
LGA    E      81      -       -           -
LGA    E      82      -       -           -
LGA    R      83      I     101          1.188
LGA    K      84      D     102          2.679
LGA    K      85      -       -           -
LGA    Y      86      -       -           -
LGA    V      87      D     103          1.447
LGA    A      88      -       -           -
LGA    S      89      -       -           -
LGA    Y      90      N     104          2.990
LGA    L      91      -       -           -
LGA    G      92      -       -           -
LGA    V      93      -       -           -
LGA    I      94      -       -           -
LGA    M      95      -       -           -
LGA    A      96      -       -           -
LGA    S      97      -       -           -
LGA    D      98      -       -           -
LGA    G      99      -       -           -
LGA    D     100      -       -           -
LGA    I     101      -       -           -
LGA    D     102      -       -           -
LGA    D     103      -       -           -
LGA    N     104      -       -           -
LGA    E     105      -       -           -
LGA    L     106      -       -           -
LGA    A     107      -       -           -
LGA    L     108      -       -           -
LGA    W     109      E     105          4.032
LGA    T     110      L     106           -
LGA    L     111      A     107           -
LGA    I     112      -       -           -
LGA    S     113      -       -           -
LGA    T     114      -       -           -
LGA    L     115      -       -           -
LGA    C     116      -       -           -
LGA    G     117      -       -           -
LGA    L     118      -       -           -
LGA    P     119      -       -           -
LGA    T     120      -       -           -
LGA    M     121      -       -           -
LGA    T     122      L     108           #
LGA    V     123      W     109          2.822
LGA    M     124      T     110          3.236
LGA    E     125      L     111          3.343
LGA    -       -      I     112           -
LGA    A     126      S     113          4.221
LGA    I     127      T     114           -
LGA    N     128      L     115           -
LGA    -       -      C     116           -
LGA    -       -      G     117           -
LGA    -       -      L     118           -
LGA    -       -      P     119           -
LGA    N     129      T     120          3.641
LGA    M     130      M     121          3.304
LGA    K     131      T     122          3.197
LGA    -       -      V     123           -
LGA    -       -      M     124           -
LGA    N     132      E     125           #
LGA    -       -      A     126           -
LGA    -       -      I     127           -
LGA    -       -      N     128           -
LGA    -       -      N     129           -
LGA    -       -      M     130           -
LGA    -       -      K     131           -
LGA    -       -      N     132           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  123  123    5.0     37    3.32    13.51     16.444     1.081

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.418096 * X  +  -0.355057 * Y  +   0.836140 * Z  +  22.755413
  Y_new =   0.606159 * X  +   0.576514 * Y  +   0.547908 * Z  +   4.251101
  Z_new =  -0.676585 * X  +   0.735912 * Y  +  -0.025817 * Z  +  29.495493 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.605863   -1.535729  [ DEG:    92.0092    -87.9908 ]
  Theta =   0.743115    2.398478  [ DEG:    42.5773    137.4227 ]
  Phi   =   2.174607   -0.966986  [ DEG:   124.5958    -55.4042 ]
 
# 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: T0307TS599_1-D1                               
REMARK     2: T0307_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS599_1-D1.T0307_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  123  123   5.0   37   3.32   13.51  16.444
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS599_1-D1
PFRMAT TS                                                                       
TARGET T0307                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM     10  CA  ILE    10      25.132   4.079  33.938  1.00  0.00              
ATOM     11  CA  MET    11      26.147   6.841  31.568  1.00  0.00              
ATOM     12  CA  THR    12      23.459   8.063  29.134  1.00  0.00              
ATOM     13  CA  PHE    13      24.327  10.846  26.698  1.00  0.00              
ATOM     14  CA  SER    14      21.334  12.772  25.365  1.00  0.00              
ATOM     15  CA  GLY    15      21.979  16.553  25.732  1.00  0.00              
ATOM     16  CA  GLN    16      19.481  17.054  28.574  1.00  0.00              
ATOM     17  CA  GLU    17      20.329  13.757  30.340  1.00  0.00              
ATOM     18  CA  LEU    18      24.131  13.853  30.756  1.00  0.00              
ATOM     19  CA  THR    19      23.888  17.368  32.105  1.00  0.00              
ATOM     20  CA  ALA    20      21.218  16.377  34.596  1.00  0.00              
ATOM     21  CA  ILE    21      23.265  13.330  35.718  1.00  0.00              
ATOM     22  CA  ILE    22      26.338  15.562  36.229  1.00  0.00              
ATOM     23  CA  LYS    23      24.400  18.011  38.421  1.00  0.00              
ATOM     24  CA  MET    24      23.067  15.122  40.535  1.00  0.00              
ATOM     25  CA  ALA    25      26.567  13.679  40.914  1.00  0.00              
ATOM     26  CA  LYS    26      28.124  16.886  42.076  1.00  0.00              
ATOM     27  CA  SER    27      25.480  17.518  44.750  1.00  0.00              
ATOM     28  CA  MET    28      26.053  13.900  45.925  1.00  0.00              
ATOM     29  CA  VAL    29      29.801  13.637  46.068  1.00  0.00              
ATOM     30  CA  MET    30      32.133  10.819  45.087  1.00  0.00              
ATOM     31  CA  ALA    31      35.255  10.648  47.219  1.00  0.00              
ATOM     32  CA  ASP    32      37.576   8.411  45.316  1.00  0.00              
ATOM     33  CA  GLY    33      37.146  10.186  42.033  1.00  0.00              
ATOM     34  CA  LYS    34      35.617   7.154  40.384  1.00  0.00              
ATOM     35  CA  ILE    35      32.943   8.873  38.341  1.00  0.00              
ATOM     36  CA  LYS    36      33.998  11.971  36.348  1.00  0.00              
ATOM     37  CA  PRO    37      31.356  14.630  35.992  1.00  0.00              
ATOM     38  CA  ALA    38      30.935  14.341  32.237  1.00  0.00              
ATOM     39  CA  GLU    39      30.563  10.592  32.152  1.00  0.00              
ATOM     40  CA  ILE    40      28.369   9.776  35.152  1.00  0.00              
ATOM     41  CA  ALA    41      28.598   6.301  36.738  1.00  0.00              
ATOM     42  CA  VAL    42      26.282   5.170  39.462  1.00  0.00              
ATOM     43  CA  MET    43      27.098   2.164  41.564  1.00  0.00              
ATOM     44  CA  THR    44      24.972   1.752  44.631  1.00  0.00              
ATOM     45  CA  ARG    45      27.259   0.085  47.212  1.00  0.00              
ATOM     46  CA  GLU    46      29.931   2.500  45.960  1.00  0.00              
ATOM     47  CA  PHE    47      27.768   5.578  46.746  1.00  0.00              
ATOM     48  CA  MET    48      26.617   4.892  50.278  1.00  0.00              
ATOM     49  CA  ARG    49      30.165   3.793  51.018  1.00  0.00              
ATOM     50  CA  PHE    50      31.911   6.871  49.536  1.00  0.00              
ATOM     51  CA  GLY    51      29.639   9.165  51.529  1.00  0.00              
ATOM     52  CA  ILE    52      27.766  11.189  48.952  1.00  0.00              
ATOM     53  CA  LEU    53      24.505  11.184  50.913  1.00  0.00              
ATOM     54  CA  GLN    54      23.301   7.659  50.450  1.00  0.00              
ATOM     55  CA  ASP    55      19.552   8.501  50.594  1.00  0.00              
ATOM     56  CA  GLN    56      20.239  11.441  48.225  1.00  0.00              
ATOM     57  CA  VAL    57      21.847   9.041  45.716  1.00  0.00              
ATOM     58  CA  ASP    58      18.756   6.724  45.812  1.00  0.00              
ATOM     59  CA  LEU    59      16.567   9.746  44.988  1.00  0.00              
ATOM     60  CA  LEU    60      18.884  10.894  42.142  1.00  0.00              
ATOM     61  CA  LEU    61      18.953   7.376  40.666  1.00  0.00              
ATOM     62  CA  LYS    62      15.158   6.939  40.695  1.00  0.00              
ATOM     63  CA  ALA    63      14.571  10.293  39.014  1.00  0.00              
ATOM     64  CA  SER    64      17.143   9.622  36.276  1.00  0.00              
ATOM     65  CA  ASP    65      15.619   6.297  35.208  1.00  0.00              
ATOM     66  CA  SER    66      12.112   7.775  34.876  1.00  0.00              
ATOM     67  CA  ILE    67      13.034  10.773  32.727  1.00  0.00              
ATOM     68  CA  GLU    68      15.323   8.742  30.467  1.00  0.00              
ATOM     69  CA  ALA    69      12.792   5.978  29.759  1.00  0.00              
ATOM     70  CA  SER    70      10.026   8.403  28.854  1.00  0.00              
ATOM     71  CA  GLN    71      12.226  10.353  26.397  1.00  0.00              
ATOM     72  CA  ALA    72      13.354   7.154  24.688  1.00  0.00              
ATOM     73  CA  VAL    73      10.070   5.406  24.022  1.00  0.00              
ATOM     74  CA  ALA    74       8.565   8.602  22.672  1.00  0.00              
ATOM     75  CA  LEU    75      11.476   9.305  20.383  1.00  0.00              
ATOM     76  CA  ILE    76      11.558   5.744  18.970  1.00  0.00              
ATOM     77  CA  ALA    77       7.798   5.691  18.336  1.00  0.00              
ATOM     78  CA  ARG    78       7.782   9.106  16.659  1.00  0.00              
ATOM     79  CA  MET    79      10.720   8.140  14.366  1.00  0.00              
ATOM     80  CA  ASP    80       9.456   4.829  13.201  1.00  0.00              
ATOM     81  CA  GLU    81      10.839   3.989   9.728  1.00  0.00              
ATOM     82  CA  GLU    82      14.274   5.331  10.501  1.00  0.00              
ATOM     83  CA  ARG    83      14.412   3.539  13.803  1.00  0.00              
ATOM     84  CA  LYS    84      13.364   0.165  12.306  1.00  0.00              
ATOM     85  CA  LYS    85      16.030   0.465   9.594  1.00  0.00              
ATOM     86  CA  TYR    86      18.741   1.329  12.172  1.00  0.00              
ATOM     87  CA  VAL    87      17.756  -1.605  14.338  1.00  0.00              
ATOM     88  CA  ALA    88      17.855  -4.019  11.347  1.00  0.00              
ATOM     89  CA  SER    89      21.314  -2.837  10.328  1.00  0.00              
ATOM     90  CA  TYR    90      22.632  -3.266  13.895  1.00  0.00              
ATOM     91  CA  LEU    91      21.101  -6.752  14.162  1.00  0.00              
ATOM     92  CA  GLY    92      22.347  -7.774  10.660  1.00  0.00              
ATOM     93  CA  VAL    93      25.852  -6.862  11.922  1.00  0.00              
ATOM     94  CA  ILE    94      25.698  -8.437  15.404  1.00  0.00              
ATOM     95  CA  MET    95      27.298  -6.036  17.926  1.00  0.00              
ATOM     96  CA  ALA    96      27.748  -7.420  21.398  1.00  0.00              
ATOM     97  CA  SER    97      27.641  -5.353  24.560  1.00  0.00              
ATOM     98  CA  ASP    98      31.237  -5.842  25.544  1.00  0.00              
ATOM     99  CA  GLY    99      32.695  -4.849  22.144  1.00  0.00              
ATOM    100  CA  ASP   100      33.473  -8.340  20.875  1.00  0.00              
ATOM    101  CA  ILE   101      32.057  -8.066  17.392  1.00  0.00              
ATOM    102  CA  ASP   102      34.285  -9.441  14.709  1.00  0.00              
ATOM    103  CA  ASP   103      34.882  -7.335  11.644  1.00  0.00              
ATOM    104  CA  ASN   104      32.493  -9.437   9.580  1.00  0.00              
ATOM    105  CA  GLU   105      29.535  -8.787  11.886  1.00  0.00              
ATOM    106  CA  LEU   106      29.587  -5.045  12.576  1.00  0.00              
ATOM    107  CA  ALA   107      26.777  -2.735  13.414  1.00  0.00              
ATOM    108  CA  LEU   108      25.244   0.598  13.264  1.00  0.00              
ATOM    109  CA  TRP   109      23.324   1.136  16.509  1.00  0.00              
ATOM    110  CA  THR   110      26.411  -0.290  18.280  1.00  0.00              
ATOM    111  CA  LEU   111      28.532   2.476  16.732  1.00  0.00              
ATOM    112  CA  ILE   112      26.089   5.214  17.763  1.00  0.00              
ATOM    113  CA  SER   113      25.645   3.850  21.258  1.00  0.00              
ATOM    114  CA  THR   114      29.462   3.904  21.697  1.00  0.00              
ATOM    115  CA  LEU   115      29.743   7.490  20.431  1.00  0.00              
ATOM    116  CA  CYS   116      26.908   8.736  22.706  1.00  0.00              
ATOM    117  CA  GLY   117      28.304   7.033  25.782  1.00  0.00              
ATOM    118  CA  LEU   118      25.414   4.712  26.373  1.00  0.00              
ATOM    119  CA  PRO   119      26.342   1.206  27.388  1.00  0.00              
ATOM    120  CA  THR   120      25.948  -1.217  24.447  1.00  0.00              
ATOM    121  CA  MET   121      23.751  -3.777  26.248  1.00  0.00              
ATOM    122  CA  THR   122      21.571  -1.034  27.801  1.00  0.00              
ATOM    123  CA  VAL   123      20.924   0.901  24.587  1.00  0.00              
ATOM    124  CA  MET   124      20.033  -2.175  22.516  1.00  0.00              
ATOM    125  CA  GLU   125      17.625  -3.392  25.129  1.00  0.00              
ATOM    126  CA  ALA   126      15.934  -0.043  25.342  1.00  0.00              
ATOM    127  CA  ILE   127      15.521   0.300  21.580  1.00  0.00              
ATOM    128  CA  ASN   128      13.996  -3.205  21.372  1.00  0.00              
ATOM    129  CA  ASN   129      11.595  -2.481  24.184  1.00  0.00              
ATOM    130  CA  MET   130      10.351   0.756  22.759  1.00  0.00              
ATOM    131  CA  LYS   131       9.797  -0.302  19.371  1.00  0.00              
ATOM    132  CA  ASN   132       7.359  -1.568  21.670  1.00  0.00              
TER                                                                             
END
