
#######################################################
#                                                     #
#                        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  106 (  106),  selected  106 , name T0366TS168_2
# Molecule2: number of CA atoms   84 (  589),  selected   84 , name T0366.pdb
# PARAMETERS: T0366TS168_2.T0366.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T       1      -       -           -
LGA    E       2      -       -           -
LGA    N       3      -       -           -
LGA    L       4      -       -           -
LGA    Y       5      -       -           -
LGA    F       6      -       -           -
LGA    Q       7      -       -           -
LGA    S       8      -       -           -
LGA    M       9      -       -           -
LGA    G      10      -       -           -
LGA    L      11      L      11          0.673
LGA    R      12      R      12          1.105
LGA    T      13      T      13          0.809
LGA    V      14      V      14          1.775
LGA    E      15      E      15          1.695
LGA    M      16      M      16          2.063
LGA    K      17      K      17          2.143
LGA    K      18      K      18          2.468
LGA    G      19      -       -           -
LGA    P      20      -       -           -
LGA    T      21      -       -           -
LGA    D      22      -       -           -
LGA    S      23      S      23          0.740
LGA    L      24      L      24          1.185
LGA    G      25      G      25          1.245
LGA    I      26      I      26          1.687
LGA    S      27      S      27          1.397
LGA    I      28      I      28          1.438
LGA    A      29      A      29          1.858
LGA    G      30      G      30          2.298
LGA    G      31      G      31          2.815
LGA    V      32      V      32          2.956
LGA    G      33      G      33          1.077
LGA    S      34      S      34          3.676
LGA    P      35      P      35          1.399
LGA    L      36      L      36          1.799
LGA    G      37      G      37          3.741
LGA    D      38      D      38          2.968
LGA    V      39      V      39          2.484
LGA    P      40      P      40          0.978
LGA    I      41      I      41          1.283
LGA    F      42      F      42          1.597
LGA    I      43      I      43          1.367
LGA    A      44      A      44          1.472
LGA    M      45      M      45          1.125
LGA    M      46      M      46          1.037
LGA    H      47      H      47          0.768
LGA    P      48      P      48          0.855
LGA    T      49      T      49          0.694
LGA    G      50      G      50          1.180
LGA    V      51      V      51          1.418
LGA    A      52      A      52          0.881
LGA    A      53      A      53          1.019
LGA    Q      54      Q      54          0.539
LGA    T      55      T      55          1.645
LGA    Q      56      Q      56          2.654
LGA    K      57      K      57          2.309
LGA    L      58      L      58          1.248
LGA    R      59      R      59          1.236
LGA    V      60      V      60          0.400
LGA    G      61      G      61          0.908
LGA    D      62      D      62          0.878
LGA    R      63      R      63          1.275
LGA    I      64      I      64          0.812
LGA    V      65      V      65          2.007
LGA    T      66      T      66          3.580
LGA    I      67      I      67          1.654
LGA    C      68      C      68          0.941
LGA    G      69      G      69          0.390
LGA    T      70      T      70          1.289
LGA    S      71      S      71          1.346
LGA    T      72      T      72          1.626
LGA    E      73      E      73          0.948
LGA    G      74      G      74          1.903
LGA    M      75      M      75          0.776
LGA    T      76      T      76          1.417
LGA    H      77      H      77          1.064
LGA    T      78      T      78          0.813
LGA    Q      79      Q      79          1.255
LGA    A      80      A      80          1.245
LGA    V      81      V      81          0.304
LGA    N      82      N      82          1.046
LGA    L      83      L      83          1.486
LGA    L      84      L      84          0.682
LGA    K      85      K      85          1.218
LGA    N      86      N      86          2.430
LGA    A      87      A      87          1.343
LGA    S      88      S      88          0.738
LGA    G      89      G      89          1.112
LGA    S      90      S      90          0.678
LGA    I      91      I      91          1.942
LGA    E      92      E      92          1.961
LGA    M      93      M      93          1.418
LGA    Q      94      Q      94          1.846
LGA    V      95      V      95          1.577
LGA    V      96      V      96          1.691
LGA    A      97      A      97          1.492
LGA    G      98      G      98          1.472
LGA    G      99      -       -           -
LGA    D     100      -       -           -
LGA    V     101      -       -           -
LGA    S     102      -       -           -
LGA    E     103      -       -           -
LGA    T     104      -       -           -
LGA    S     105      -       -           -
LGA    V     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106   84    5.0     84    1.64   100.00     90.753     4.829

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.503905 * X  +  -0.065006 * Y  +  -0.861310 * Z  +  10.423705
  Y_new =  -0.821875 * X  +   0.342832 * Y  +   0.454959 * Z  +  22.718678
  Z_new =   0.265709 * X  +   0.937145 * Y  +  -0.226181 * Z  +  11.863578 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.807618   -1.333974  [ DEG:   103.5689    -76.4311 ]
  Theta =  -0.268940   -2.872653  [ DEG:   -15.4091   -164.5909 ]
  Phi   =  -2.120804    1.020788  [ DEG:  -121.5131     58.4869 ]
 
# 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: T0366TS168_2                                  
REMARK     2: T0366.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0366TS168_2.T0366.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106   84   5.0   84   1.64  100.00  90.753
REMARK  ---------------------------------------------------------- 
MOLECULE T0366TS168_2
PFRMAT TS
TARGET T0366
MODEL 2
PARENT N/A
ATOM      1  CA  THR     1      29.319  47.289   3.762  1.00 25.00           C
ATOM      2  CA  GLU     2      26.945  44.342   3.511  1.00 25.00           C
ATOM      3  CA  ASN     3      24.655  45.951   6.063  1.00 25.00           C
ATOM      4  CA  LEU     4      26.134  44.356   9.182  1.00 25.00           C
ATOM      5  CA  TYR     5      22.967  43.247  10.895  1.00 25.00           C
ATOM      6  CA  PHE     6      25.024  41.390  13.476  1.00 25.00           C
ATOM      7  CA  GLN     7      24.303  37.692  13.730  1.00 25.00           C
ATOM      8  CA  SER     8      22.524  34.907  11.778  1.00 25.00           C
ATOM      9  CA  MET     9      19.702  35.208  14.393  1.00 25.00           C
ATOM     10  CA  GLY    10      17.570  33.706  11.570  1.00 25.00           C
ATOM     11  CA  LEU    11      16.133  30.553   9.929  1.00 25.00           C
ATOM     12  CA  ARG    12      13.995  29.165   7.135  1.00 25.00           C
ATOM     13  CA  THR    13      10.580  30.759   7.692  1.00 25.00           C
ATOM     14  CA  VAL    14       9.104  27.608   6.094  1.00 25.00           C
ATOM     15  CA  GLU    15       5.410  28.280   5.515  1.00 25.00           C
ATOM     16  CA  MET    16       4.131  24.904   4.203  1.00 25.00           C
ATOM     17  CA  LYS    17       0.640  24.597   2.687  1.00 25.00           C
ATOM     18  CA  LYS    18      -0.421  21.007   2.028  1.00 25.00           C
ATOM     19  CA  GLY    19      -2.313  18.566  -0.111  1.00 25.00           C
ATOM     20  CA  PRO    20      -5.414  19.571   1.775  1.00 25.00           C
ATOM     21  CA  THR    21      -6.618  16.467   3.618  1.00 25.00           C
ATOM     22  CA  ASP    22      -3.564  14.338   2.834  1.00 25.00           C
ATOM     23  CA  SER    23      -1.407  16.309   5.194  1.00 25.00           C
ATOM     24  CA  LEU    24       1.467  18.696   6.108  1.00 25.00           C
ATOM     25  CA  GLY    25       3.639  15.625   5.384  1.00 25.00           C
ATOM     26  CA  ILE    26       6.819  16.777   7.218  1.00 25.00           C
ATOM     27  CA  SER    27       6.921  14.014   9.788  1.00 25.00           C
ATOM     28  CA  ILE    28       7.860  13.245  13.452  1.00 25.00           C
ATOM     29  CA  ALA    29       9.256  11.962  16.786  1.00 25.00           C
ATOM     30  CA  GLY    30      12.458  13.656  17.748  1.00 25.00           C
ATOM     31  CA  GLY    31      11.625  14.730  21.346  1.00 25.00           C
ATOM     32  CA  VAL    32      11.572  14.837  25.147  1.00 25.00           C
ATOM     33  CA  GLY    33      10.213  13.405  28.400  1.00 25.00           C
ATOM     34  CA  SER    34       9.724  10.114  26.679  1.00 25.00           C
ATOM     35  CA  PRO    35      13.170  10.057  25.113  1.00 25.00           C
ATOM     36  CA  LEU    36      16.324  12.181  25.572  1.00 25.00           C
ATOM     37  CA  GLY    37      18.250  15.480  25.702  1.00 25.00           C
ATOM     38  CA  ASP    38      16.438  18.855  26.192  1.00 25.00           C
ATOM     39  CA  VAL    39      13.686  19.375  23.605  1.00 25.00           C
ATOM     40  CA  PRO    40      13.350  19.355  19.815  1.00 25.00           C
ATOM     41  CA  ILE    41       9.912  19.200  18.241  1.00 25.00           C
ATOM     42  CA  PHE    42      11.099  17.816  14.886  1.00 25.00           C
ATOM     43  CA  ILE    43      11.141  17.679  11.100  1.00 25.00           C
ATOM     44  CA  ALA    44      12.118  14.003  10.726  1.00 25.00           C
ATOM     45  CA  MET    45      11.119  12.961   7.155  1.00 25.00           C
ATOM     46  CA  MET    46       9.697  13.910   3.717  1.00 25.00           C
ATOM     47  CA  HIS    47       6.686  12.106   2.224  1.00 25.00           C
ATOM     48  CA  PRO    48       8.376  13.125  -1.074  1.00 25.00           C
ATOM     49  CA  THR    49       5.655  14.889  -3.062  1.00 25.00           C
ATOM     50  CA  GLY    50       3.340  15.161  -0.048  1.00 25.00           C
ATOM     51  CA  VAL    51       4.383  18.529   1.302  1.00 25.00           C
ATOM     52  CA  ALA    52       6.959  20.819   2.814  1.00 25.00           C
ATOM     53  CA  ALA    53       9.277  19.588   0.025  1.00 25.00           C
ATOM     54  CA  GLN    54       6.704  20.638  -2.611  1.00 25.00           C
ATOM     55  CA  THR    55       8.078  24.113  -1.978  1.00 25.00           C
ATOM     56  CA  GLN    56      10.828  25.612   0.121  1.00 25.00           C
ATOM     57  CA  LYS    57      12.702  22.924   2.129  1.00 25.00           C
ATOM     58  CA  LEU    58      11.989  22.721   5.895  1.00 25.00           C
ATOM     59  CA  ARG    59      14.401  19.806   6.296  1.00 25.00           C
ATOM     60  CA  VAL    60      15.054  16.147   7.229  1.00 25.00           C
ATOM     61  CA  GLY    61      16.363  17.002  10.705  1.00 25.00           C
ATOM     62  CA  ASP    62      15.435  20.568  11.532  1.00 25.00           C
ATOM     63  CA  ARG    63      15.076  21.186  15.319  1.00 25.00           C
ATOM     64  CA  ILE    64      11.645  22.791  15.048  1.00 25.00           C
ATOM     65  CA  VAL    65       9.789  25.180  17.359  1.00 25.00           C
ATOM     66  CA  THR    66       6.113  24.256  16.660  1.00 25.00           C
ATOM     67  CA  ILE    67       2.994  26.260  15.772  1.00 25.00           C
ATOM     68  CA  CYS    68       0.379  28.426  14.096  1.00 25.00           C
ATOM     69  CA  GLY    69       2.602  31.233  15.336  1.00 25.00           C
ATOM     70  CA  THR    70       2.529  30.166  18.974  1.00 25.00           C
ATOM     71  CA  SER    71       5.785  29.083  20.562  1.00 25.00           C
ATOM     72  CA  THR    72       6.710  25.502  21.488  1.00 25.00           C
ATOM     73  CA  GLU    73       9.404  26.194  24.043  1.00 25.00           C
ATOM     74  CA  GLY    74       9.692  22.557  25.279  1.00 25.00           C
ATOM     75  CA  MET    75       6.775  20.521  23.973  1.00 25.00           C
ATOM     76  CA  THR    76       7.140  16.731  23.460  1.00 25.00           C
ATOM     77  CA  HIS    77       6.658  14.619  20.283  1.00 25.00           C
ATOM     78  CA  THR    78       2.970  14.226  21.238  1.00 25.00           C
ATOM     79  CA  GLN    79       2.600  18.031  21.471  1.00 25.00           C
ATOM     80  CA  ALA    80       4.220  18.425  18.023  1.00 25.00           C
ATOM     81  CA  VAL    81       1.830  15.805  16.574  1.00 25.00           C
ATOM     82  CA  ASN    82      -1.157  17.644  18.112  1.00 25.00           C
ATOM     83  CA  LEU    83       0.072  20.946  16.614  1.00 25.00           C
ATOM     84  CA  LEU    84       0.436  19.283  13.183  1.00 25.00           C
ATOM     85  CA  LYS    85      -3.117  17.880  13.461  1.00 25.00           C
ATOM     86  CA  ASN    86      -4.443  21.353  14.382  1.00 25.00           C
ATOM     87  CA  ALA    87      -4.526  23.556  11.323  1.00 25.00           C
ATOM     88  CA  SER    88      -6.317  23.225   7.951  1.00 25.00           C
ATOM     89  CA  GLY    89      -4.965  25.752   5.500  1.00 25.00           C
ATOM     90  CA  SER    90      -1.728  27.616   6.113  1.00 25.00           C
ATOM     91  CA  ILE    91       0.015  24.614   7.707  1.00 25.00           C
ATOM     92  CA  GLU    92       2.633  26.509   9.773  1.00 25.00           C
ATOM     93  CA  MET    93       6.281  25.439  10.234  1.00 25.00           C
ATOM     94  CA  GLN    94       8.335  27.654  12.552  1.00 25.00           C
ATOM     95  CA  VAL    95      11.489  26.303  10.871  1.00 25.00           C
ATOM     96  CA  VAL    96      14.953  25.773  12.490  1.00 25.00           C
ATOM     97  CA  ALA    97      18.472  24.700  11.463  1.00 25.00           C
ATOM     98  CA  GLY    98      20.588  21.529  11.171  1.00 25.00           C
ATOM     99  CA  GLY    99      23.873  22.433   9.482  1.00 25.00           C
ATOM    100  CA  ASP   100      27.071  24.436   9.960  1.00 25.00           C
ATOM    101  CA  VAL   101      28.401  26.223  13.007  1.00 25.00           C
ATOM    102  CA  SER   102      31.879  25.862  11.623  1.00 25.00           C
ATOM    103  CA  GLU   103      34.143  25.790  14.739  1.00 25.00           C
ATOM    104  CA  THR   104      35.129  29.375  14.174  1.00 25.00           C
ATOM    105  CA  SER   105      36.006  31.953  16.825  1.00 25.00           C
ATOM    106  CA  VAL   106      33.707  31.035  19.697  1.00 25.00           C
TER
END
