
#######################################################
#                                                     #
#                        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 T0327TS599_3
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS599_3.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      -       -           -
LGA    K       5      -       -           -
LGA    L       6      -       -           -
LGA    R       7      -       -           -
LGA    Y       8      -       -           -
LGA    A       9      -       -           -
LGA    I      10      -       -           -
LGA    L      11      -       -           -
LGA    K      12      -       -           -
LGA    E      13      -       -           -
LGA    I      14      -       -           -
LGA    F      15      K       5          4.077
LGA    E      16      L       6          2.823
LGA    G      17      R       7          5.148
LGA    N      18      Y       8           -
LGA    T      19      -       -           -
LGA    P      20      -       -           -
LGA    L      21      A       9           #
LGA    S      22      I      10           -
LGA    -       -      L      11           -
LGA    -       -      K      12           -
LGA    E      23      E      13           #
LGA    N      24      I      14           -
LGA    -       -      F      15           -
LGA    -       -      E      16           -
LGA    -       -      G      17           -
LGA    -       -      N      18           -
LGA    -       -      T      19           -
LGA    -       -      P      20           -
LGA    -       -      L      21           -
LGA    -       -      S      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    D      25      D      25          2.627
LGA    I      26      I      26          2.717
LGA    G      27      G      27          3.512
LGA    V      28      V      28          3.770
LGA    T      29      T      29          2.447
LGA    E      30      E      30          2.690
LGA    D      31      D      31          1.600
LGA    Q      32      Q      32          1.254
LGA    F      33      F      33          2.316
LGA    D      34      D      34          2.822
LGA    D      35      D      35          1.782
LGA    A      36      A      36          1.048
LGA    V      37      V      37          2.350
LGA    N      38      N      38          3.333
LGA    F      39      F      39          2.684
LGA    L      40      L      40          1.253
LGA    K      41      K      41          2.824
LGA    R      42      R      42          3.882
LGA    E      43      E      43          3.136
LGA    G      44      G      44          1.764
LGA    Y      45      Y      45          1.193
LGA    I      46      I      46          2.367
LGA    I      47      I      47          3.008
LGA    G      48      G      48          2.669
LGA    V      49      V      49          2.068
LGA    H      50      H      50          2.065
LGA    Y      51      Y      51          3.293
LGA    S      52      S      52          4.465
LGA    D      53      D      53          4.165
LGA    D      54      D      54          4.330
LGA    R      55      R      55          4.310
LGA    P      56      P      56          2.223
LGA    H      57      H      57          0.905
LGA    L      58      L      58          3.949
LGA    -       -      Y      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    Y      59      G      62           #
LGA    K      60      P      63          3.806
LGA    L      61      E      64          2.209
LGA    G      62      L      65          1.481
LGA    -       -      T      66           -
LGA    -       -      E      67           -
LGA    -       -      K      68           -
LGA    -       -      G      69           -
LGA    P      63      E      70          2.446
LGA    E      64      N      71          4.556
LGA    L      65      Y      72           -
LGA    -       -      L      73           -
LGA    T      66      K      74           #
LGA    E      67      -       -           -
LGA    K      68      -       -           -
LGA    G      69      -       -           -
LGA    E      70      E      75           #
LGA    N      71      N      76           -
LGA    Y      72      -       -           -
LGA    L      73      G      77           #
LGA    K      74      -       -           -
LGA    E      75      -       -           -
LGA    N      76      -       -           -
LGA    G      77      -       -           -
LGA    T      78      -       -           -
LGA    W      79      -       -           -
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    2.99    80.95     40.402     1.360

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.742940 * X  +   0.572242 * Y  +   0.347244 * Z  +   1.780044
  Y_new =  -0.533863 * X  +  -0.819513 * Y  +   0.208302 * Z  +   1.798396
  Z_new =   0.403770 * X  +  -0.030625 * Y  +   0.914348 * Z  +  -1.624113 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.033481    3.108112  [ DEG:    -1.9183    178.0817 ]
  Theta =  -0.415634   -2.725959  [ DEG:   -23.8141   -156.1859 ]
  Phi   =  -2.518505    0.623088  [ DEG:  -144.2997     35.7003 ]
 
# 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: T0327TS599_3                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS599_3.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   2.99   80.95  40.402
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS599_3
PFRMAT TS                                                                       
TARGET T0327                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -12.006   0.258 -13.981  1.00  0.00              
ATOM      2  CA  ASN     2     -15.054  -1.526 -12.449  1.00  0.00              
ATOM      3  CA  LYS     3     -15.549  -5.353 -14.112  1.00  0.00              
ATOM      4  CA  ASP     4     -14.340  -3.296 -11.422  1.00  0.00              
ATOM      5  CA  LYS     5     -11.284  -5.264 -10.273  1.00  0.00              
ATOM      6  CA  LEU     6      -8.287  -3.026 -10.678  1.00  0.00              
ATOM      7  CA  ARG     7      -5.946  -3.022  -7.745  1.00  0.00              
ATOM      8  CA  TYR     8      -3.478  -0.242  -7.241  1.00  0.00              
ATOM      9  CA  ALA     9      -0.954  -0.157  -4.377  1.00  0.00              
ATOM     10  CA  ILE    10      -1.445   3.510  -3.428  1.00  0.00              
ATOM     11  CA  LEU    11      -5.246   3.149  -3.942  1.00  0.00              
ATOM     12  CA  LYS    12      -5.548   0.029  -1.812  1.00  0.00              
ATOM     13  CA  GLU    13      -3.724   1.646   1.057  1.00  0.00              
ATOM     14  CA  ILE    14      -5.916   4.791   0.912  1.00  0.00              
ATOM     15  CA  PHE    15      -9.214   2.938   0.788  1.00  0.00              
ATOM     16  CA  GLU    16      -8.257   0.752   3.764  1.00  0.00              
ATOM     17  CA  GLY    17      -7.396   3.474   6.315  1.00  0.00              
ATOM     18  CA  ASN    18      -9.881   6.172   5.331  1.00  0.00              
ATOM     19  CA  THR    19      -7.576   9.132   5.301  1.00  0.00              
ATOM     20  CA  PRO    20      -7.445  11.263   2.196  1.00  0.00              
ATOM     21  CA  LEU    21      -3.952  11.278   0.821  1.00  0.00              
ATOM     22  CA  SER    22      -3.350  13.593  -2.114  1.00  0.00              
ATOM     23  CA  GLU    23      -0.475  12.239  -4.259  1.00  0.00              
ATOM     24  CA  ASN    24       1.811  15.169  -3.663  1.00  0.00              
ATOM     25  CA  ASP    25       1.403  15.126   0.081  1.00  0.00              
ATOM     26  CA  ILE    26       1.450  11.470   0.994  1.00  0.00              
ATOM     27  CA  GLY    27       0.017  11.345   4.451  1.00  0.00              
ATOM     28  CA  VAL    28       0.388   8.136   6.366  1.00  0.00              
ATOM     29  CA  THR    29       0.863   7.991  10.114  1.00  0.00              
ATOM     30  CA  GLU    30       3.184   5.171  11.313  1.00  0.00              
ATOM     31  CA  ASP    31       0.380   3.269  12.998  1.00  0.00              
ATOM     32  CA  GLN    32      -1.920   3.463   9.963  1.00  0.00              
ATOM     33  CA  PHE    33       0.963   2.281   7.801  1.00  0.00              
ATOM     34  CA  ASP    34       1.582  -0.836   9.962  1.00  0.00              
ATOM     35  CA  ASP    35      -2.133  -1.714   9.880  1.00  0.00              
ATOM     36  CA  ALA    36      -2.255  -1.349   6.088  1.00  0.00              
ATOM     37  CA  VAL    37       0.765  -3.537   5.747  1.00  0.00              
ATOM     38  CA  ASN    38      -0.806  -6.279   7.764  1.00  0.00              
ATOM     39  CA  PHE    39      -3.968  -6.206   5.604  1.00  0.00              
ATOM     40  CA  LEU    40      -1.868  -6.291   2.427  1.00  0.00              
ATOM     41  CA  LYS    41       0.134  -9.318   3.717  1.00  0.00              
ATOM     42  CA  ARG    42      -2.964 -11.188   4.616  1.00  0.00              
ATOM     43  CA  GLU    43      -4.470 -10.529   1.163  1.00  0.00              
ATOM     44  CA  GLY    44      -1.301 -11.595  -0.662  1.00  0.00              
ATOM     45  CA  TYR    45      -0.492  -8.085  -1.982  1.00  0.00              
ATOM     46  CA  ILE    46       3.232  -8.144  -1.363  1.00  0.00              
ATOM     47  CA  ILE    47       4.200  -5.974   1.279  1.00  0.00              
ATOM     48  CA  GLY    48       7.663  -5.184   1.613  1.00  0.00              
ATOM     49  CA  VAL    49       8.845  -3.430   4.686  1.00  0.00              
ATOM     50  CA  HIS    50      11.960  -1.330   4.386  1.00  0.00              
ATOM     51  CA  TYR    51      13.020   0.493   7.467  1.00  0.00              
ATOM     52  CA  SER    52      14.492   3.972   7.295  1.00  0.00              
ATOM     53  CA  ASP    53      15.681   5.144  10.715  1.00  0.00              
ATOM     54  CA  ASP    54      12.829   3.628  12.796  1.00  0.00              
ATOM     55  CA  ARG    55       9.952   4.488  10.467  1.00  0.00              
ATOM     56  CA  PRO    56       9.026   1.336   8.613  1.00  0.00              
ATOM     57  CA  HIS    57       9.086   2.372   4.975  1.00  0.00              
ATOM     58  CA  LEU    58       6.572   0.293   3.291  1.00  0.00              
ATOM     59  CA  TYR    59       6.902  -1.020  -0.200  1.00  0.00              
ATOM     60  CA  LYS    60       3.725  -2.363  -1.794  1.00  0.00              
ATOM     61  CA  LEU    61       3.888  -4.980  -4.462  1.00  0.00              
ATOM     62  CA  GLY    62       0.833  -6.328  -6.128  1.00  0.00              
ATOM     63  CA  PRO    63      -1.880  -4.142  -7.517  1.00  0.00              
ATOM     64  CA  GLU    64      -3.214  -5.730 -10.663  1.00  0.00              
ATOM     65  CA  LEU    65      -4.232  -3.288 -13.304  1.00  0.00              
ATOM     66  CA  THR    66      -6.647  -3.746 -16.141  1.00  0.00              
ATOM     67  CA  GLU    67      -6.341  -1.695 -19.354  1.00  0.00              
ATOM     68  CA  LYS    68      -9.154   0.821 -18.984  1.00  0.00              
ATOM     69  CA  GLY    69      -8.170   1.090 -15.302  1.00  0.00              
ATOM     70  CA  GLU    70      -4.607   2.126 -16.301  1.00  0.00              
ATOM     71  CA  ASN    71      -5.978   4.798 -18.665  1.00  0.00              
ATOM     72  CA  TYR    72      -8.228   6.107 -15.892  1.00  0.00              
ATOM     73  CA  LEU    73      -5.242   6.217 -13.525  1.00  0.00              
ATOM     74  CA  LYS    74      -3.225   8.159 -16.176  1.00  0.00              
ATOM     75  CA  GLU    75      -5.692  10.775 -17.289  1.00  0.00              
ATOM     76  CA  ASN    76      -6.224  12.196 -13.778  1.00  0.00              
ATOM     77  CA  GLY    77      -2.652  11.733 -12.522  1.00  0.00              
ATOM     78  CA  THR    78      -3.570   9.358  -9.666  1.00  0.00              
ATOM     79  CA  TRP    79      -1.620   6.225 -10.595  1.00  0.00              
ATOM     80  CA  SER    80       1.473   8.173 -11.475  1.00  0.00              
ATOM     81  CA  LYS    81       1.489   9.895  -8.058  1.00  0.00              
ATOM     82  CA  ALA    82       1.016   6.538  -6.294  1.00  0.00              
ATOM     83  CA  TYR    83       3.787   4.868  -8.296  1.00  0.00              
ATOM     84  CA  LYS    84       6.084   7.808  -7.494  1.00  0.00              
ATOM     85  CA  THR    85       5.515   7.110  -3.767  1.00  0.00              
ATOM     86  CA  ILE    86       6.330   3.461  -4.245  1.00  0.00              
ATOM     87  CA  LYS    87       9.542   4.185  -6.224  1.00  0.00              
ATOM     88  CA  GLU    88      10.798   6.566  -3.573  1.00  0.00              
ATOM     89  CA  ILE    89      10.108   4.119  -0.786  1.00  0.00              
ATOM     90  CA  LYS    90      11.962   1.254  -2.554  1.00  0.00              
ATOM     91  CA  ASP    91      15.000   3.469  -3.252  1.00  0.00              
ATOM     92  CA  TRP    92      15.086   4.549   0.430  1.00  0.00              
ATOM     93  CA  ILE    93      14.854   0.966   1.702  1.00  0.00              
ATOM     94  CA  LYS    94      17.652  -0.404  -0.439  1.00  0.00              
ATOM     95  CA  LEU    95      20.170   2.359  -0.208  1.00  0.00              
ATOM     96  CA  GLU    96      20.434   3.021   3.449  1.00  0.00              
ATOM     97  CA  HIS    97      24.145   4.017   3.986  1.00  0.00              
ATOM     98  CA  HIS    98      24.548   2.393   7.400  1.00  0.00              
ATOM     99  CA  HIS    99      25.063  -1.327   7.614  1.00  0.00              
ATOM    100  CA  HIS   100      22.113  -2.611   9.216  1.00  0.00              
ATOM    101  CA  HIS   101      19.187  -5.377   7.979  1.00  0.00              
ATOM    102  CA  HIS   102      15.542  -4.400   7.875  1.00  0.00              
TER                                                                             
END
