
#######################################################
#                                                     #
#                        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 T0366TS393_5
# Molecule2: number of CA atoms   84 (  589),  selected   84 , name T0366.pdb
# PARAMETERS: T0366TS393_5.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          2.387
LGA    R      12      R      12          1.082
LGA    T      13      T      13          0.841
LGA    V      14      V      14          1.859
LGA    E      15      E      15          2.160
LGA    M      16      M      16          2.098
LGA    K      17      K      17          3.968
LGA    K      18      K      18          2.401
LGA    G      19      -       -           -
LGA    P      20      -       -           -
LGA    T      21      -       -           -
LGA    D      22      -       -           -
LGA    S      23      S      23          1.340
LGA    L      24      L      24          1.212
LGA    G      25      G      25          1.257
LGA    I      26      I      26          2.271
LGA    S      27      S      27          2.463
LGA    I      28      I      28          1.696
LGA    A      29      A      29          1.304
LGA    G      30      G      30          2.576
LGA    G      31      G      31          2.943
LGA    V      32      V      32          5.605
LGA    G      33      G      33          2.461
LGA    S      34      S      34          4.121
LGA    P      35      P      35          3.199
LGA    L      36      L      36          1.951
LGA    G      37      G      37          4.320
LGA    D      38      D      38          2.138
LGA    V      39      V      39          3.721
LGA    P      40      P      40          1.168
LGA    I      41      I      41          0.944
LGA    F      42      F      42          0.827
LGA    I      43      I      43          0.584
LGA    A      44      A      44          1.861
LGA    M      45      M      45          1.841
LGA    M      46      M      46          0.611
LGA    H      47      H      47          0.836
LGA    P      48      P      48          2.454
LGA    T      49      T      49          1.007
LGA    G      50      G      50          1.433
LGA    V      51      V      51          1.025
LGA    A      52      A      52          1.482
LGA    A      53      A      53          1.292
LGA    Q      54      Q      54          2.602
LGA    T      55      T      55          2.412
LGA    Q      56      Q      56          3.283
LGA    K      57      K      57          1.691
LGA    L      58      L      58          1.219
LGA    R      59      R      59          0.794
LGA    V      60      V      60          0.783
LGA    G      61      G      61          1.329
LGA    D      62      D      62          1.556
LGA    R      63      R      63          0.877
LGA    I      64      I      64          1.268
LGA    V      65      V      65          1.912
LGA    T      66      T      66          0.651
LGA    I      67      I      67          1.954
LGA    C      68      C      68          1.574
LGA    G      69      G      69          2.433
LGA    T      70      T      70          2.453
LGA    S      71      S      71          3.134
LGA    T      72      T      72          0.314
LGA    E      73      E      73          0.787
LGA    G      74      G      74          1.272
LGA    M      75      M      75          1.700
LGA    T      76      T      76          3.275
LGA    H      77      H      77          0.668
LGA    T      78      T      78          0.693
LGA    Q      79      Q      79          0.930
LGA    A      80      A      80          0.758
LGA    V      81      V      81          0.354
LGA    N      82      N      82          0.605
LGA    L      83      L      83          1.219
LGA    L      84      L      84          1.283
LGA    K      85      K      85          0.457
LGA    N      86      N      86          1.334
LGA    A      87      A      87          1.605
LGA    S      88      S      88          0.923
LGA    G      89      G      89          0.840
LGA    S      90      S      90          1.526
LGA    I      91      I      91          1.704
LGA    E      92      E      92          1.061
LGA    M      93      M      93          1.186
LGA    Q      94      Q      94          1.384
LGA    V      95      V      95          2.138
LGA    V      96      V      96          1.767
LGA    A      97      A      97          2.916
LGA    G      98      G      98          2.114
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    2.00   100.00     87.651     4.009

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.150400 * X  +  -0.894008 * Y  +  -0.422054 * Z  +  10.300924
  Y_new =  -0.988427 * X  +  -0.144527 * Y  +  -0.046087 * Z  +  22.958021
  Z_new =  -0.019796 * X  +   0.424101 * Y  +  -0.905398 * Z  +  12.371705 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.703532   -0.438061  [ DEG:   154.9010    -25.0990 ]
  Theta =   0.019797    3.121795  [ DEG:     1.1343    178.8657 ]
  Phi   =  -1.419794    1.721799  [ DEG:   -81.3482     98.6518 ]
 
# 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: T0366TS393_5                                  
REMARK     2: T0366.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0366TS393_5.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   2.00  100.00  87.651
REMARK  ---------------------------------------------------------- 
MOLECULE T0366TS393_5
PFRMAT TS
TARGET T0366
MODEL 5
PARENT N/A
ATOM      1  CA  THR     1      28.157  46.754   7.219  1.00 25.00           C
ATOM      2  CA  GLU     2      29.152  47.822  10.710  1.00 25.00           C
ATOM      3  CA  ASN     3      27.849  46.034  13.770  1.00 25.00           C
ATOM      4  CA  LEU     4      24.930  44.754  11.632  1.00 25.00           C
ATOM      5  CA  TYR     5      22.697  42.670  13.992  1.00 25.00           C
ATOM      6  CA  PHE     6      25.299  40.724  16.043  1.00 25.00           C
ATOM      7  CA  GLN     7      23.688  37.297  16.635  1.00 25.00           C
ATOM      8  CA  SER     8      21.646  34.128  16.324  1.00 25.00           C
ATOM      9  CA  MET     9      18.345  35.392  14.902  1.00 25.00           C
ATOM     10  CA  GLY    10      15.133  35.743  12.849  1.00 25.00           C
ATOM     11  CA  LEU    11      14.651  32.164  11.671  1.00 25.00           C
ATOM     12  CA  ARG    12      14.404  30.291   8.328  1.00 25.00           C
ATOM     13  CA  THR    13      10.647  30.756   7.834  1.00 25.00           C
ATOM     14  CA  VAL    14       9.277  27.816   5.851  1.00 25.00           C
ATOM     15  CA  GLU    15       5.860  28.590   4.495  1.00 25.00           C
ATOM     16  CA  MET    16       4.222  25.242   3.954  1.00 25.00           C
ATOM     17  CA  LYS    17       1.957  24.253   1.060  1.00 25.00           C
ATOM     18  CA  LYS    18      -0.701  22.327   2.984  1.00 25.00           C
ATOM     19  CA  GLY    19      -2.393  21.659  -0.302  1.00 25.00           C
ATOM     20  CA  PRO    20      -6.100  22.521   0.245  1.00 25.00           C
ATOM     21  CA  THR    21      -7.003  18.800   0.145  1.00 25.00           C
ATOM     22  CA  ASP    22      -4.509  16.356   1.761  1.00 25.00           C
ATOM     23  CA  SER    23      -2.349  15.939   4.830  1.00 25.00           C
ATOM     24  CA  LEU    24       0.812  17.940   5.777  1.00 25.00           C
ATOM     25  CA  GLY    25       4.066  16.051   5.032  1.00 25.00           C
ATOM     26  CA  ILE    26       5.369  16.671   8.491  1.00 25.00           C
ATOM     27  CA  SER    27       5.618  14.054  11.299  1.00 25.00           C
ATOM     28  CA  ILE    28       7.180  15.309  14.531  1.00 25.00           C
ATOM     29  CA  ALA    29       9.450  12.593  15.923  1.00 25.00           C
ATOM     30  CA  GLY    30      12.550  12.974  17.993  1.00 25.00           C
ATOM     31  CA  GLY    31      11.272  14.422  21.249  1.00 25.00           C
ATOM     32  CA  VAL    32       8.949  12.358  23.488  1.00 25.00           C
ATOM     33  CA  GLY    33       8.462  12.018  27.264  1.00 25.00           C
ATOM     34  CA  SER    34      11.634  14.165  27.747  1.00 25.00           C
ATOM     35  CA  PRO    35      13.893  11.563  26.117  1.00 25.00           C
ATOM     36  CA  LEU    36      17.682  11.821  25.864  1.00 25.00           C
ATOM     37  CA  GLY    37      18.993  15.354  25.526  1.00 25.00           C
ATOM     38  CA  ASP    38      15.967  17.678  25.364  1.00 25.00           C
ATOM     39  CA  VAL    39      13.686  20.564  24.455  1.00 25.00           C
ATOM     40  CA  PRO    40      13.673  19.139  20.910  1.00 25.00           C
ATOM     41  CA  ILE    41      11.361  19.725  17.886  1.00 25.00           C
ATOM     42  CA  PHE    42      12.410  17.259  15.137  1.00 25.00           C
ATOM     43  CA  ILE    43      12.126  17.071  11.338  1.00 25.00           C
ATOM     44  CA  ALA    44      11.261  13.326  11.297  1.00 25.00           C
ATOM     45  CA  MET    45       9.871  12.096   7.977  1.00 25.00           C
ATOM     46  CA  MET    46       9.985  14.305   4.873  1.00 25.00           C
ATOM     47  CA  HIS    47       7.501  13.052   2.321  1.00 25.00           C
ATOM     48  CA  PRO    48       6.824  12.157  -1.271  1.00 25.00           C
ATOM     49  CA  THR    49       5.483  14.782  -3.653  1.00 25.00           C
ATOM     50  CA  GLY    50       3.157  15.703  -0.832  1.00 25.00           C
ATOM     51  CA  VAL    51       2.824  19.440   0.004  1.00 25.00           C
ATOM     52  CA  ALA    52       6.351  19.533   1.512  1.00 25.00           C
ATOM     53  CA  ALA    53       9.222  17.491   0.010  1.00 25.00           C
ATOM     54  CA  GLN    54       8.986  19.505  -3.240  1.00 25.00           C
ATOM     55  CA  THR    55       8.505  23.212  -2.532  1.00 25.00           C
ATOM     56  CA  GLN    56       9.622  25.544   0.297  1.00 25.00           C
ATOM     57  CA  LYS    57      12.576  23.597   1.712  1.00 25.00           C
ATOM     58  CA  LEU    58      11.098  21.971   4.783  1.00 25.00           C
ATOM     59  CA  ARG    59      14.140  19.649   5.232  1.00 25.00           C
ATOM     60  CA  VAL    60      15.906  16.736   6.911  1.00 25.00           C
ATOM     61  CA  GLY    61      17.913  16.368  10.126  1.00 25.00           C
ATOM     62  CA  ASP    62      16.404  19.722  11.280  1.00 25.00           C
ATOM     63  CA  ARG    63      15.333  21.444  14.506  1.00 25.00           C
ATOM     64  CA  ILE    64      11.890  22.843  13.779  1.00 25.00           C
ATOM     65  CA  VAL    65      10.706  24.634  16.903  1.00 25.00           C
ATOM     66  CA  THR    66       8.137  27.355  16.293  1.00 25.00           C
ATOM     67  CA  ILE    67       4.595  27.821  15.056  1.00 25.00           C
ATOM     68  CA  CYS    68       1.247  29.450  14.228  1.00 25.00           C
ATOM     69  CA  GLY    69       1.638  30.946  17.673  1.00 25.00           C
ATOM     70  CA  THR    70       2.063  27.989  20.106  1.00 25.00           C
ATOM     71  CA  SER    71       4.891  26.930  22.397  1.00 25.00           C
ATOM     72  CA  THR    72       7.511  24.613  20.809  1.00 25.00           C
ATOM     73  CA  GLU    73      10.089  24.673  23.660  1.00 25.00           C
ATOM     74  CA  GLY    74       9.184  22.147  26.311  1.00 25.00           C
ATOM     75  CA  MET    75       6.320  19.855  25.203  1.00 25.00           C
ATOM     76  CA  THR    76       8.126  18.641  22.123  1.00 25.00           C
ATOM     77  CA  HIS    77       6.115  15.679  20.891  1.00 25.00           C
ATOM     78  CA  THR    78       2.412  14.961  21.549  1.00 25.00           C
ATOM     79  CA  GLN    79       1.605  18.691  21.219  1.00 25.00           C
ATOM     80  CA  ALA    80       3.531  18.839  17.912  1.00 25.00           C
ATOM     81  CA  VAL    81       1.611  15.785  16.628  1.00 25.00           C
ATOM     82  CA  ASN    82      -1.706  17.424  17.618  1.00 25.00           C
ATOM     83  CA  LEU    83      -0.692  20.635  15.795  1.00 25.00           C
ATOM     84  CA  LEU    84       0.214  18.608  12.675  1.00 25.00           C
ATOM     85  CA  LYS    85      -3.172  16.827  12.819  1.00 25.00           C
ATOM     86  CA  ASN    86      -4.960  20.200  13.126  1.00 25.00           C
ATOM     87  CA  ALA    87      -4.696  23.874  12.116  1.00 25.00           C
ATOM     88  CA  SER    88      -5.123  22.549   8.541  1.00 25.00           C
ATOM     89  CA  GLY    89      -5.547  25.536   6.183  1.00 25.00           C
ATOM     90  CA  SER    90      -2.007  26.651   7.032  1.00 25.00           C
ATOM     91  CA  ILE    91      -0.162  25.363  10.119  1.00 25.00           C
ATOM     92  CA  GLU    92       2.770  27.640   9.057  1.00 25.00           C
ATOM     93  CA  MET    93       5.758  25.778  10.538  1.00 25.00           C
ATOM     94  CA  GLN    94       9.282  27.073  11.258  1.00 25.00           C
ATOM     95  CA  VAL    95      12.395  25.637   9.611  1.00 25.00           C
ATOM     96  CA  VAL    96      14.885  26.575  12.329  1.00 25.00           C
ATOM     97  CA  ALA    97      18.324  25.135  12.915  1.00 25.00           C
ATOM     98  CA  GLY    98      20.867  22.735  11.531  1.00 25.00           C
ATOM     99  CA  GLY    99      24.272  24.013  10.262  1.00 25.00           C
ATOM    100  CA  ASP   100      27.618  24.668  11.850  1.00 25.00           C
ATOM    101  CA  VAL   101      28.244  27.779  13.938  1.00 25.00           C
ATOM    102  CA  SER   102      31.907  26.936  14.614  1.00 25.00           C
ATOM    103  CA  GLU   103      32.816  27.304  18.219  1.00 25.00           C
ATOM    104  CA  THR   104      34.755  30.357  19.314  1.00 25.00           C
ATOM    105  CA  SER   105      33.165  30.979  22.687  1.00 25.00           C
ATOM    106  CA  VAL   106      30.619  31.329  25.450  1.00 25.00           C
TER
END
