
#######################################################
#                                                     #
#                        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 T0314TS168_2
# Molecule2: number of CA atoms  106 ( 1704),  selected  106 , name T0314.pdb
# PARAMETERS: T0314TS168_2.T0314.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    S       2      S       2          3.148
LGA    I       3      I       3          2.885
LGA    T       4      -       -           -
LGA    S       5      -       -           -
LGA    T       6      -       -           -
LGA    D       7      T       4           #
LGA    I       8      S       5           -
LGA    C       9      T       6           -
LGA    -       -      D       7           -
LGA    Q      10      I       8          5.045
LGA    A      11      C       9           -
LGA    A      12      Q      10           -
LGA    D      13      A      11          4.319
LGA    A      14      A      12          2.359
LGA    -       -      D      13           -
LGA    L      15      A      14          4.849
LGA    K      16      L      15          3.201
LGA    G      17      K      16           #
LGA    F      18      -       -           -
LGA    V      19      -       -           -
LGA    G      20      G      17           #
LGA    F      21      F      18          1.592
LGA    N      22      V      19          3.559
LGA    R      23      G      20          1.060
LGA    K      24      F      21          2.380
LGA    T      25      N      22          4.728
LGA    -       -      R      23           -
LGA    -       -      K      24           -
LGA    -       -      T      25           -
LGA    -       -      G      26           -
LGA    -       -      R      27           -
LGA    -       -      Y      28           -
LGA    G      26      I      29          0.752
LGA    R      27      V      30          4.312
LGA    Y      28      R      31           -
LGA    -       -      F      32           -
LGA    -       -      S      33           -
LGA    -       -      E      34           -
LGA    -       -      D      35           -
LGA    -       -      S      36           -
LGA    -       -      F      37           -
LGA    -       -      G      38           -
LGA    -       -      M      39           -
LGA    -       -      D      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      D      43           -
LGA    -       -      D      44           -
LGA    -       -      S      45           -
LGA    -       -      I      46           -
LGA    -       -      T      47           -
LGA    I      29      P      48           #
LGA    V      30      T      49          2.400
LGA    -       -      S      50           -
LGA    -       -      E      51           -
LGA    -       -      F      52           -
LGA    R      31      V      53          2.068
LGA    F      32      W      54          3.364
LGA    S      33      S      55           -
LGA    E      34      S      56           -
LGA    D      35      V      57           -
LGA    -       -      R      58           -
LGA    -       -      D      59           -
LGA    -       -      D      60           -
LGA    -       -      V      61           -
LGA    -       -      M      62           -
LGA    S      36      R      63          2.366
LGA    F      37      L      64          2.923
LGA    G      38      G      65          5.199
LGA    M      39      R      66          1.369
LGA    D      40      E      67          3.635
LGA    V      41      -       -           -
LGA    A      42      -       -           -
LGA    D      43      -       -           -
LGA    D      44      -       -           -
LGA    S      45      -       -           -
LGA    I      46      -       -           -
LGA    T      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    S      50      -       -           -
LGA    E      51      -       -           -
LGA    F      52      Q      68          3.162
LGA    V      53      L      69          4.093
LGA    -       -      Q      70           -
LGA    W      54      I      71          3.307
LGA    S      55      L      72          3.473
LGA    S      56      -       -           -
LGA    V      57      -       -           -
LGA    R      58      L      73          2.501
LGA    D      59      E      74           #
LGA    D      60      Q      75          3.812
LGA    V      61      N      76          2.988
LGA    M      62      -       -           -
LGA    R      63      -       -           -
LGA    L      64      I      77          2.666
LGA    G      65      N      78          2.613
LGA    R      66      E      79          2.579
LGA    E      67      R      80          4.216
LGA    -       -      L      81           -
LGA    Q      68      N      82          2.733
LGA    L      69      I      83           #
LGA    Q      70      G      84           -
LGA    I      71      -       -           -
LGA    L      72      -       -           -
LGA    L      73      E      85           #
LGA    E      74      P      86           -
LGA    Q      75      L      87           -
LGA    N      76      L      88           -
LGA    I      77      V      89           -
LGA    N      78      Y      90           -
LGA    E      79      L      91           -
LGA    R      80      R      92           -
LGA    L      81      R      93           -
LGA    N      82      Q      94           -
LGA    I      83      D      95           -
LGA    G      84      L      96           -
LGA    E      85      P      97           -
LGA    P      86      E      98           -
LGA    L      87      I      99           -
LGA    L      88      T     100           -
LGA    V      89      A     101           -
LGA    Y      90      Q     102           -
LGA    L      91      R     103           -
LGA    R      92      Q     104           -
LGA    R      93      L     105           -
LGA    Q      94      R     106           -
LGA    D      95      -       -           -
LGA    L      96      -       -           -
LGA    P      97      -       -           -
LGA    E      98      -       -           -
LGA    I      99      -       -           -
LGA    T     100      -       -           -
LGA    A     101      -       -           -
LGA    Q     102      -       -           -
LGA    R     103      -       -           -
LGA    Q     104      -       -           -
LGA    L     105      -       -           -
LGA    R     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106  106    5.0     34    3.29    14.71     17.839     1.003

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.610444 * X  +   0.477397 * Y  +  -0.632021 * Z  +  12.283158
  Y_new =  -0.248848 * X  +   0.873137 * Y  +   0.419172 * Z  +   8.462626
  Z_new =   0.751953 * X  +  -0.098604 * Y  +   0.651801 * Z  +  -6.961864 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.150141    2.991452  [ DEG:    -8.6024    171.3976 ]
  Theta =  -0.851020   -2.290573  [ DEG:   -48.7598   -131.2402 ]
  Phi   =  -0.387085    2.754508  [ DEG:   -22.1783    157.8217 ]
 
# 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: T0314TS168_2                                  
REMARK     2: T0314.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS168_2.T0314.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106  106   5.0   34   3.29   14.71  17.839
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS168_2
PFRMAT TS
TARGET T0314
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      -3.897   3.146  -3.529  1.00 25.00           C
ATOM      2  CA  SER     2      -1.284   5.859  -2.916  1.00 25.00           C
ATOM      3  CA  ILE     3       0.943   4.638  -5.664  1.00 25.00           C
ATOM      4  CA  THR     4       1.426   1.052  -4.667  1.00 25.00           C
ATOM      5  CA  SER     5       4.950   0.161  -3.606  1.00 25.00           C
ATOM      6  CA  THR     6       5.061   3.878  -2.696  1.00 25.00           C
ATOM      7  CA  ASP     7       8.770   3.572  -1.789  1.00 25.00           C
ATOM      8  CA  ILE     8       9.468   1.835  -5.130  1.00 25.00           C
ATOM      9  CA  CYS     9       7.615   4.622  -6.994  1.00 25.00           C
ATOM     10  CA  GLN    10       9.657   7.266  -5.122  1.00 25.00           C
ATOM     11  CA  ALA    11      12.898   5.437  -6.026  1.00 25.00           C
ATOM     12  CA  ALA    12      11.827   5.303  -9.700  1.00 25.00           C
ATOM     13  CA  ASP    13      11.054   9.055  -9.637  1.00 25.00           C
ATOM     14  CA  ALA    14      14.491   9.761  -8.101  1.00 25.00           C
ATOM     15  CA  LEU    15      16.167   7.641 -10.814  1.00 25.00           C
ATOM     16  CA  LYS    16      19.618   8.843  -9.763  1.00 25.00           C
ATOM     17  CA  GLY    17      18.437  12.385 -10.548  1.00 25.00           C
ATOM     18  CA  PHE    18      20.724  12.834 -13.532  1.00 25.00           C
ATOM     19  CA  VAL    19      20.643   9.760 -15.771  1.00 25.00           C
ATOM     20  CA  GLY    20      23.427   8.485 -17.967  1.00 25.00           C
ATOM     21  CA  PHE    21      24.293   4.808 -17.698  1.00 25.00           C
ATOM     22  CA  ASN    22      25.693   1.434 -18.649  1.00 25.00           C
ATOM     23  CA  ARG    23      24.934   2.098 -22.353  1.00 25.00           C
ATOM     24  CA  LYS    24      25.341  -1.557 -23.522  1.00 25.00           C
ATOM     25  CA  THR    25      21.909  -3.157 -22.868  1.00 25.00           C
ATOM     26  CA  GLY    26      21.598  -2.678 -19.078  1.00 25.00           C
ATOM     27  CA  ARG    27      19.868   0.681 -18.903  1.00 25.00           C
ATOM     28  CA  TYR    28      18.811   3.717 -20.951  1.00 25.00           C
ATOM     29  CA  ILE    29      16.896   6.805 -19.744  1.00 25.00           C
ATOM     30  CA  VAL    30      16.339   6.561 -15.995  1.00 25.00           C
ATOM     31  CA  ARG    31      13.974   9.559 -15.580  1.00 25.00           C
ATOM     32  CA  PHE    32      12.276  12.895 -14.825  1.00 25.00           C
ATOM     33  CA  SER    33      13.411  15.206 -12.031  1.00 25.00           C
ATOM     34  CA  GLU    34      10.682  17.618 -12.951  1.00 25.00           C
ATOM     35  CA  ASP    35       7.844  15.722 -14.545  1.00 25.00           C
ATOM     36  CA  SER    36       7.635  13.081 -17.278  1.00 25.00           C
ATOM     37  CA  PHE    37       5.579  10.538 -15.331  1.00 25.00           C
ATOM     38  CA  GLY    38       3.429   7.524 -15.961  1.00 25.00           C
ATOM     39  CA  MET    39       6.078   5.084 -17.308  1.00 25.00           C
ATOM     40  CA  ASP    40       6.467   6.488 -20.850  1.00 25.00           C
ATOM     41  CA  VAL    41       7.339   3.068 -22.381  1.00 25.00           C
ATOM     42  CA  ALA    42       8.000   3.648 -26.053  1.00 25.00           C
ATOM     43  CA  ASP    43       8.619   3.870 -29.857  1.00 25.00           C
ATOM     44  CA  ASP    44       8.765   7.477 -31.154  1.00 25.00           C
ATOM     45  CA  SER    45      11.927   9.391 -30.543  1.00 25.00           C
ATOM     46  CA  ILE    46      13.296   9.020 -26.967  1.00 25.00           C
ATOM     47  CA  THR    47      15.254  12.075 -25.829  1.00 25.00           C
ATOM     48  CA  PRO    48      17.912  13.870 -23.783  1.00 25.00           C
ATOM     49  CA  THR    49      17.380  12.832 -20.222  1.00 25.00           C
ATOM     50  CA  SER    50      13.744  13.687 -19.605  1.00 25.00           C
ATOM     51  CA  GLU    51      13.181  10.169 -21.012  1.00 25.00           C
ATOM     52  CA  PHE    52      11.803   6.978 -19.424  1.00 25.00           C
ATOM     53  CA  VAL    53      13.048   3.397 -18.688  1.00 25.00           C
ATOM     54  CA  TRP    54      14.463   0.765 -16.322  1.00 25.00           C
ATOM     55  CA  SER    55      14.981  -2.192 -18.661  1.00 25.00           C
ATOM     56  CA  SER    56      16.406  -5.546 -19.673  1.00 25.00           C
ATOM     57  CA  VAL    57      16.049  -8.097 -16.853  1.00 25.00           C
ATOM     58  CA  ARG    58      13.104  -6.035 -15.537  1.00 25.00           C
ATOM     59  CA  ASP    59      13.236  -7.922 -12.208  1.00 25.00           C
ATOM     60  CA  ASP    60      17.002  -7.270 -11.960  1.00 25.00           C
ATOM     61  CA  VAL    61      16.427  -3.547 -12.655  1.00 25.00           C
ATOM     62  CA  MET    62      13.727  -3.433  -9.942  1.00 25.00           C
ATOM     63  CA  ARG    63      16.105  -5.134  -7.468  1.00 25.00           C
ATOM     64  CA  LEU    64      18.845  -2.597  -8.321  1.00 25.00           C
ATOM     65  CA  GLY    65      16.381   0.284  -7.776  1.00 25.00           C
ATOM     66  CA  ARG    66      15.362  -1.193  -4.393  1.00 25.00           C
ATOM     67  CA  GLU    67      19.046  -1.501  -3.391  1.00 25.00           C
ATOM     68  CA  GLN    68      19.651   2.143  -4.402  1.00 25.00           C
ATOM     69  CA  LEU    69      16.623   3.245  -2.332  1.00 25.00           C
ATOM     70  CA  GLN    70      17.936   1.279   0.681  1.00 25.00           C
ATOM     71  CA  ILE    71      21.373   2.921   0.284  1.00 25.00           C
ATOM     72  CA  LEU    72      19.733   6.378   0.130  1.00 25.00           C
ATOM     73  CA  LEU    73      17.731   5.596   3.300  1.00 25.00           C
ATOM     74  CA  GLU    74      20.933   4.471   5.074  1.00 25.00           C
ATOM     75  CA  GLN    75      22.688   7.704   4.009  1.00 25.00           C
ATOM     76  CA  ASN    76      19.742   9.767   5.325  1.00 25.00           C
ATOM     77  CA  ILE    77      19.876   7.879   8.654  1.00 25.00           C
ATOM     78  CA  ASN    78      23.641   8.532   8.902  1.00 25.00           C
ATOM     79  CA  GLU    79      23.067  12.253   8.207  1.00 25.00           C
ATOM     80  CA  ARG    80      20.366  12.369  10.922  1.00 25.00           C
ATOM     81  CA  LEU    81      22.745  10.667  13.394  1.00 25.00           C
ATOM     82  CA  ASN    82      24.421  14.062  13.534  1.00 25.00           C
ATOM     83  CA  ILE    83      22.507  16.870  11.787  1.00 25.00           C
ATOM     84  CA  GLY    84      21.043  19.283   9.166  1.00 25.00           C
ATOM     85  CA  GLU    85      17.731  17.373   8.816  1.00 25.00           C
ATOM     86  CA  PRO    86      17.158  19.511   5.691  1.00 25.00           C
ATOM     87  CA  LEU    87      14.181  17.312   4.705  1.00 25.00           C
ATOM     88  CA  LEU    88      12.721  17.665   8.227  1.00 25.00           C
ATOM     89  CA  VAL    89      13.137  21.468   8.045  1.00 25.00           C
ATOM     90  CA  TYR    90      11.385  21.521   4.640  1.00 25.00           C
ATOM     91  CA  LEU    91       8.509  19.426   6.059  1.00 25.00           C
ATOM     92  CA  ARG    92       8.192  21.828   9.026  1.00 25.00           C
ATOM     93  CA  ARG    93       8.110  24.815   6.632  1.00 25.00           C
ATOM     94  CA  GLN    94       4.555  23.594   5.988  1.00 25.00           C
ATOM     95  CA  ASP    95       2.093  20.662   6.329  1.00 25.00           C
ATOM     96  CA  LEU    96       1.660  18.246   9.235  1.00 25.00           C
ATOM     97  CA  PRO    97      -1.101  20.589  10.421  1.00 25.00           C
ATOM     98  CA  GLU    98      -3.325  23.621   9.688  1.00 25.00           C
ATOM     99  CA  ILE    99      -3.250  22.803   5.948  1.00 25.00           C
ATOM    100  CA  THR   100      -4.210  19.172   6.697  1.00 25.00           C
ATOM    101  CA  ALA   101      -7.109  20.366   8.896  1.00 25.00           C
ATOM    102  CA  GLN   102      -8.300  22.699   6.101  1.00 25.00           C
ATOM    103  CA  ARG   103      -8.145  19.810   3.591  1.00 25.00           C
ATOM    104  CA  GLN   104     -10.166  17.597   5.975  1.00 25.00           C
ATOM    105  CA  LEU   105     -10.969  13.914   6.178  1.00 25.00           C
ATOM    106  CA  ARG   106      -9.936  11.141   8.583  1.00 25.00           C
TER
END
