
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0327TS168_5
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS168_5.T0327.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    N       2      -       -           -
LGA    K       3      -       -           -
LGA    D       4      K       5          1.455
LGA    K       5      L       6          2.920
LGA    L       6      -       -           -
LGA    R       7      R       7          2.249
LGA    Y       8      Y       8          1.663
LGA    A       9      A       9          1.469
LGA    I      10      I      10          1.005
LGA    L      11      L      11          0.876
LGA    K      12      K      12          0.960
LGA    E      13      E      13          1.848
LGA    I      14      I      14          2.103
LGA    F      15      F      15          2.348
LGA    E      16      E      16          2.527
LGA    G      17      G      17          4.985
LGA    N      18      N      18           #
LGA    T      19      T      19           -
LGA    P      20      P      20           -
LGA    L      21      L      21           -
LGA    -       -      S      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    S      22      D      25           #
LGA    E      23      I      26           -
LGA    N      24      -       -           -
LGA    D      25      -       -           -
LGA    I      26      G      27           #
LGA    G      27      V      28          3.907
LGA    V      28      T      29          0.541
LGA    T      29      E      30          1.237
LGA    E      30      D      31          1.150
LGA    D      31      Q      32          2.643
LGA    Q      32      F      33          2.694
LGA    F      33      D      34          1.197
LGA    D      34      D      35          0.831
LGA    D      35      A      36          1.557
LGA    A      36      V      37          1.700
LGA    V      37      N      38          1.118
LGA    N      38      F      39          0.513
LGA    F      39      L      40          0.902
LGA    L      40      K      41          1.833
LGA    K      41      R      42          1.850
LGA    R      42      E      43          1.923
LGA    E      43      G      44          2.096
LGA    G      44      Y      45           #
LGA    Y      45      I      46          4.555
LGA    I      46      I      47          2.300
LGA    I      47      G      48          3.793
LGA    -       -      V      49           -
LGA    -       -      H      50           -
LGA    -       -      Y      51           -
LGA    -       -      S      52           -
LGA    -       -      D      53           -
LGA    -       -      D      54           -
LGA    -       -      R      55           -
LGA    G      48      P      56          5.131
LGA    V      49      H      57          3.520
LGA    H      50      -       -           -
LGA    Y      51      -       -           -
LGA    S      52      -       -           -
LGA    D      53      -       -           -
LGA    D      54      -       -           -
LGA    R      55      -       -           -
LGA    P      56      -       -           -
LGA    H      57      -       -           -
LGA    L      58      -       -           -
LGA    Y      59      -       -           -
LGA    K      60      L      58          0.968
LGA    L      61      Y      59          0.860
LGA    G      62      K      60          3.510
LGA    P      63      L      61          2.433
LGA    E      64      G      62          4.457
LGA    L      65      P      63          3.213
LGA    T      66      E      64          2.859
LGA    E      67      L      65           -
LGA    K      68      T      66           -
LGA    G      69      E      67           -
LGA    E      70      K      68           -
LGA    N      71      G      69           -
LGA    Y      72      E      70           -
LGA    L      73      N      71           -
LGA    K      74      Y      72           -
LGA    E      75      L      73           -
LGA    N      76      K      74           -
LGA    G      77      E      75           -
LGA    T      78      N      76           -
LGA    W      79      G      77           -
LGA    S      80      -       -           -
LGA    K      81      -       -           -
LGA    A      82      -       -           -
LGA    Y      83      -       -           -
LGA    K      84      -       -           -
LGA    T      85      -       -           -
LGA    I      86      -       -           -
LGA    K      87      -       -           -
LGA    E      88      -       -           -
LGA    I      89      -       -           -
LGA    K      90      -       -           -
LGA    D      91      -       -           -
LGA    W      92      -       -           -
LGA    I      93      -       -           -
LGA    K      94      -       -           -
LGA    L      95      -       -           -
LGA    E      96      -       -           -
LGA    H      97      -       -           -
LGA    H      98      -       -           -
LGA    H      99      -       -           -
LGA    H     100      -       -           -
LGA    H     101      -       -           -
LGA    H     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   73    5.0     42    2.50    30.95     39.655     1.615

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.404049 * X  +  -0.914479 * Y  +  -0.021722 * Z  +   2.223537
  Y_new =  -0.353382 * X  +   0.177951 * Y  +  -0.918398 * Z  +  -0.860517
  Z_new =   0.843721 * X  +  -0.363402 * Y  +  -0.395061 * Z  +   5.586146 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.397912    0.743681  [ DEG:  -137.3902     42.6098 ]
  Theta =  -1.004179   -2.137414  [ DEG:   -57.5352   -122.4648 ]
  Phi   =  -2.422989    0.718604  [ DEG:  -138.8270     41.1730 ]
 
# 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: T0327TS168_5                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS168_5.T0327.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   73   5.0   42   2.50   30.95  39.655
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS168_5
PFRMAT TS
TARGET T0327
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1     -16.186   0.994  -0.519  1.00 25.00           C
ATOM      2  CA  ASN     2     -15.366   2.791   2.742  1.00 25.00           C
ATOM      3  CA  LYS     3     -13.697   3.125   6.130  1.00 25.00           C
ATOM      4  CA  ASP     4     -10.191   1.933   5.303  1.00 25.00           C
ATOM      5  CA  LYS     5     -10.177   4.664   2.618  1.00 25.00           C
ATOM      6  CA  LEU     6      -6.633   5.689   3.645  1.00 25.00           C
ATOM      7  CA  ARG     7      -5.493   2.038   3.445  1.00 25.00           C
ATOM      8  CA  TYR     8      -7.047   1.718  -0.040  1.00 25.00           C
ATOM      9  CA  ALA     9      -5.262   4.916  -1.158  1.00 25.00           C
ATOM     10  CA  ILE    10      -1.941   3.562   0.189  1.00 25.00           C
ATOM     11  CA  LEU    11      -2.494   0.270  -1.688  1.00 25.00           C
ATOM     12  CA  LYS    12      -3.237   2.204  -4.910  1.00 25.00           C
ATOM     13  CA  GLU    13      -0.041   4.260  -4.441  1.00 25.00           C
ATOM     14  CA  ILE    14       1.977   1.049  -3.910  1.00 25.00           C
ATOM     15  CA  PHE    15       0.466  -0.456  -7.090  1.00 25.00           C
ATOM     16  CA  GLU    16       1.359   2.714  -9.045  1.00 25.00           C
ATOM     17  CA  GLY    17      -0.503   5.787 -10.184  1.00 25.00           C
ATOM     18  CA  ASN    18      -2.406   8.513  -8.359  1.00 25.00           C
ATOM     19  CA  THR    19      -0.537  11.879  -8.139  1.00 25.00           C
ATOM     20  CA  PRO    20      -0.302  15.384  -6.605  1.00 25.00           C
ATOM     21  CA  LEU    21      -1.073  16.032  -2.974  1.00 25.00           C
ATOM     22  CA  SER    22      -2.049  18.478  -0.215  1.00 25.00           C
ATOM     23  CA  GLU    23      -0.446  19.726   2.993  1.00 25.00           C
ATOM     24  CA  ASN    24      -3.646  18.312   4.544  1.00 25.00           C
ATOM     25  CA  ASP    25      -4.822  16.620   7.666  1.00 25.00           C
ATOM     26  CA  ILE    26      -6.866  13.834   9.133  1.00 25.00           C
ATOM     27  CA  GLY    27      -3.649  11.990   9.908  1.00 25.00           C
ATOM     28  CA  VAL    28      -1.147   9.148  10.252  1.00 25.00           C
ATOM     29  CA  THR    29       2.127   7.826  11.697  1.00 25.00           C
ATOM     30  CA  GLU    30       0.249   5.081  13.509  1.00 25.00           C
ATOM     31  CA  ASP    31      -3.080   3.646  12.274  1.00 25.00           C
ATOM     32  CA  GLN    32      -2.102   4.426   8.654  1.00 25.00           C
ATOM     33  CA  PHE    33       1.279   2.702   9.171  1.00 25.00           C
ATOM     34  CA  ASP    34      -0.483  -0.367  10.636  1.00 25.00           C
ATOM     35  CA  ASP    35      -2.860  -0.466   7.634  1.00 25.00           C
ATOM     36  CA  ALA    36       0.119  -0.251   5.237  1.00 25.00           C
ATOM     37  CA  VAL    37       1.853  -3.116   7.095  1.00 25.00           C
ATOM     38  CA  ASN    38      -1.337  -5.224   6.872  1.00 25.00           C
ATOM     39  CA  PHE    39      -1.572  -4.515   3.116  1.00 25.00           C
ATOM     40  CA  LEU    40       2.091  -5.542   2.668  1.00 25.00           C
ATOM     41  CA  LYS    41       1.445  -8.782   4.605  1.00 25.00           C
ATOM     42  CA  ARG    42      -1.603  -9.519   2.405  1.00 25.00           C
ATOM     43  CA  GLU    43      -0.340  -9.328  -1.178  1.00 25.00           C
ATOM     44  CA  GLY    44       2.659 -11.209   0.114  1.00 25.00           C
ATOM     45  CA  TYR    45       5.458  -8.659   0.156  1.00 25.00           C
ATOM     46  CA  ILE    46       4.203  -5.776  -1.934  1.00 25.00           C
ATOM     47  CA  ILE    47       6.152  -3.439   0.407  1.00 25.00           C
ATOM     48  CA  GLY    48       5.257  -0.857   3.133  1.00 25.00           C
ATOM     49  CA  VAL    49       7.538  -0.282   6.171  1.00 25.00           C
ATOM     50  CA  HIS    50       8.147   3.384   7.115  1.00 25.00           C
ATOM     51  CA  TYR    51      10.862   5.901   7.889  1.00 25.00           C
ATOM     52  CA  SER    52      12.615   3.114   9.805  1.00 25.00           C
ATOM     53  CA  ASP    53      15.832   4.929  10.812  1.00 25.00           C
ATOM     54  CA  ASP    54      16.927   1.401  11.700  1.00 25.00           C
ATOM     55  CA  ARG    55      19.459   0.035   9.155  1.00 25.00           C
ATOM     56  CA  PRO    56      18.671   2.599   6.438  1.00 25.00           C
ATOM     57  CA  HIS    57      16.463   5.404   5.131  1.00 25.00           C
ATOM     58  CA  LEU    58      15.139   2.764   2.809  1.00 25.00           C
ATOM     59  CA  TYR    59      12.243   1.518   4.872  1.00 25.00           C
ATOM     60  CA  LYS    60       9.668   1.766   2.081  1.00 25.00           C
ATOM     61  CA  LEU    61      11.342   2.715  -1.202  1.00 25.00           C
ATOM     62  CA  GLY    62      14.730   2.315  -2.773  1.00 25.00           C
ATOM     63  CA  PRO    63      14.844   0.521  -6.173  1.00 25.00           C
ATOM     64  CA  GLU    64      12.359  -1.830  -7.894  1.00 25.00           C
ATOM     65  CA  LEU    65       9.513  -2.647  -5.437  1.00 25.00           C
ATOM     66  CA  THR    66       8.119  -5.842  -6.886  1.00 25.00           C
ATOM     67  CA  GLU    67      11.020  -8.157  -5.830  1.00 25.00           C
ATOM     68  CA  LYS    68      13.414  -5.652  -4.197  1.00 25.00           C
ATOM     69  CA  GLY    69      10.985  -5.200  -1.271  1.00 25.00           C
ATOM     70  CA  GLU    70      10.741  -8.999  -0.854  1.00 25.00           C
ATOM     71  CA  ASN    71      14.561  -9.269  -0.860  1.00 25.00           C
ATOM     72  CA  TYR    72      14.784  -6.513   1.791  1.00 25.00           C
ATOM     73  CA  LEU    73      12.192  -8.338   3.940  1.00 25.00           C
ATOM     74  CA  LYS    74      14.175 -11.597   3.609  1.00 25.00           C
ATOM     75  CA  GLU    75      17.385  -9.779   4.640  1.00 25.00           C
ATOM     76  CA  ASN    76      17.537  -6.322   6.296  1.00 25.00           C
ATOM     77  CA  GLY    77      15.400  -7.225   9.240  1.00 25.00           C
ATOM     78  CA  THR    78      13.825  -3.777   8.582  1.00 25.00           C
ATOM     79  CA  TRP    79      10.573  -4.801   6.839  1.00 25.00           C
ATOM     80  CA  SER    80      10.456  -8.028   8.898  1.00 25.00           C
ATOM     81  CA  LYS    81      10.995  -6.022  12.117  1.00 25.00           C
ATOM     82  CA  ALA    82       8.171  -3.632  11.129  1.00 25.00           C
ATOM     83  CA  TYR    83       5.859  -6.606  10.444  1.00 25.00           C
ATOM     84  CA  LYS    84       6.733  -8.103  13.860  1.00 25.00           C
ATOM     85  CA  THR    85       5.988  -4.747  15.548  1.00 25.00           C
ATOM     86  CA  ILE    86       2.619  -4.555  13.736  1.00 25.00           C
ATOM     87  CA  LYS    87       1.780  -8.116  14.866  1.00 25.00           C
ATOM     88  CA  GLU    88       2.687  -7.211  18.476  1.00 25.00           C
ATOM     89  CA  ILE    89       0.457  -4.103  18.281  1.00 25.00           C
ATOM     90  CA  LYS    90      -2.429  -6.227  16.930  1.00 25.00           C
ATOM     91  CA  ASP    91      -1.950  -8.736  19.783  1.00 25.00           C
ATOM     92  CA  TRP    92      -1.985  -5.880  22.334  1.00 25.00           C
ATOM     93  CA  ILE    93      -5.204  -4.502  20.785  1.00 25.00           C
ATOM     94  CA  LYS    94      -6.806  -7.977  20.962  1.00 25.00           C
ATOM     95  CA  LEU    95      -8.068 -11.107  22.711  1.00 25.00           C
ATOM     96  CA  GLU    96     -11.311  -9.231  23.379  1.00 25.00           C
ATOM     97  CA  HIS    97     -14.444  -9.269  21.327  1.00 25.00           C
ATOM     98  CA  HIS    98     -14.723 -12.126  18.858  1.00 25.00           C
ATOM     99  CA  HIS    99     -17.731 -10.176  17.509  1.00 25.00           C
ATOM    100  CA  HIS   100     -17.212 -12.130  14.265  1.00 25.00           C
ATOM    101  CA  HIS   101     -18.868  -9.010  12.703  1.00 25.00           C
ATOM    102  CA  HIS   102     -17.936  -6.090  10.396  1.00 25.00           C
TER
END
