
#######################################################
#                                                     #
#                        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  135 (  135),  selected  135 , name T0319TS599_4
# Molecule2: number of CA atoms  135 ( 1055),  selected  135 , name T0319.pdb
# PARAMETERS: T0319TS599_4.T0319.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1          2.957
LGA    K       2      K       2          5.671
LGA    F       3      -       -           -
LGA    L       4      -       -           -
LGA    T       5      -       -           -
LGA    T       6      -       -           -
LGA    N       7      -       -           -
LGA    F       8      F       3          3.760
LGA    L       9      L       4          2.464
LGA    K      10      -       -           -
LGA    C      11      -       -           -
LGA    S      12      -       -           -
LGA    V      13      -       -           -
LGA    K      14      -       -           -
LGA    A      15      -       -           -
LGA    C      16      T       5           #
LGA    D      17      T       6           -
LGA    T      18      N       7           -
LGA    S      19      -       -           -
LGA    N      20      -       -           -
LGA    D      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      F       8          2.825
LGA    P      24      L       9          3.336
LGA    L      25      K      10           -
LGA    Q      26      C      11           -
LGA    Y      27      S      12           -
LGA    D      28      V      13           -
LGA    -       -      K      14           -
LGA    -       -      A      15           -
LGA    -       -      C      16           -
LGA    -       -      D      17           -
LGA    -       -      T      18           -
LGA    -       -      S      19           -
LGA    -       -      N      20           -
LGA    -       -      D      21           -
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      P      24           -
LGA    -       -      L      25           -
LGA    -       -      Q      26           -
LGA    -       -      Y      27           -
LGA    -       -      D      28           -
LGA    -       -      G      29           -
LGA    -       -      S      30           -
LGA    -       -      K      31           -
LGA    -       -      C      32           -
LGA    G      29      Q      33           #
LGA    S      30      L      34           -
LGA    K      31      -       -           -
LGA    C      32      -       -           -
LGA    Q      33      V      35           #
LGA    L      34      -       -           -
LGA    V      35      -       -           -
LGA    Q      36      Q      36          2.810
LGA    D      37      D      37          4.136
LGA    E      38      E      38          3.842
LGA    S      39      S      39          3.020
LGA    I      40      I      40          1.574
LGA    E      41      E      41          2.169
LGA    F      42      F      42          1.936
LGA    N      43      N      43          1.558
LGA    P      44      P      44          2.791
LGA    E      45      E      45          3.482
LGA    F      46      F      46          2.556
LGA    L      47      L      47          1.905
LGA    L      48      L      48          2.904
LGA    N      49      N      49          2.751
LGA    I      50      I      50          1.568
LGA    V      51      V      51          1.958
LGA    D      52      D      52          2.332
LGA    R      53      R      53          1.260
LGA    V      54      V      54          0.800
LGA    D      55      D      55          0.650
LGA    W      56      W      56          0.613
LGA    P      57      P      57          0.808
LGA    A      58      A      58          0.801
LGA    V      59      V      59          0.563
LGA    L      60      L      60          0.748
LGA    T      61      T      61          0.687
LGA    V      62      V      62          1.164
LGA    A      63      A      63          1.111
LGA    A      64      A      64          0.773
LGA    E      65      E      65          0.684
LGA    L      66      L      66          0.667
LGA    G      67      G      67          0.622
LGA    N      68      N      68          1.113
LGA    N      69      N      69          5.542
LGA    A      70      -       -           -
LGA    L      71      A      70          1.589
LGA    P      72      L      71          4.299
LGA    P      73      -       -           -
LGA    T      74      -       -           -
LGA    K      75      P      72          2.365
LGA    P      76      P      73          5.702
LGA    S      77      -       -           -
LGA    F      78      T      74          3.470
LGA    P      79      -       -           -
LGA    S      80      -       -           -
LGA    S      81      -       -           -
LGA    I      82      -       -           -
LGA    Q      83      -       -           -
LGA    E      84      -       -           -
LGA    L      85      -       -           -
LGA    T      86      -       -           -
LGA    D      87      -       -           -
LGA    D      88      -       -           -
LGA    D      89      -       -           -
LGA    M      90      -       -           -
LGA    A      91      -       -           -
LGA    I      92      -       -           -
LGA    L      93      K      75           #
LGA    N      94      -       -           -
LGA    D      95      P      76           #
LGA    L      96      S      77          1.249
LGA    H      97      -       -           -
LGA    T      98      F      78          3.411
LGA    L      99      P      79          3.827
LGA    L     100      S      80           -
LGA    L     101      S      81          4.528
LGA    Q     102      I      82          1.932
LGA    T     103      -       -           -
LGA    S     104      -       -           -
LGA    I     105      -       -           -
LGA    A     106      -       -           -
LGA    E     107      -       -           -
LGA    G     108      -       -           -
LGA    E     109      -       -           -
LGA    M     110      -       -           -
LGA    K     111      -       -           -
LGA    C     112      -       -           -
LGA    R     113      Q      83          3.720
LGA    N     114      E      84          1.170
LGA    C     115      L      85          4.978
LGA    G     116      T      86          2.745
LGA    H     117      D      87          4.595
LGA    I     118      D      88          1.692
LGA    Y     119      D      89          4.728
LGA    -       -      M      90           -
LGA    Y     120      A      91          3.752
LGA    I     121      I      92           #
LGA    K     122      L      93           -
LGA    N     123      -       -           -
LGA    G     124      -       -           -
LGA    I     125      -       -           -
LGA    P     126      -       -           -
LGA    N     127      -       -           -
LGA    L     128      N      94          3.493
LGA    L     129      D      95          3.745
LGA    L     130      L      96          3.186
LGA    P     131      H      97           -
LGA    P     132      T      98           -
LGA    H     133      L      99           -
LGA    L     134      L     100           -
LGA    V     135      L     101           -
LGA    -       -      Q     102           -
LGA    -       -      T     103           -
LGA    -       -      S     104           -
LGA    -       -      I     105           -
LGA    -       -      A     106           -
LGA    -       -      E     107           -
LGA    -       -      G     108           -
LGA    -       -      E     109           -
LGA    -       -      M     110           -
LGA    -       -      K     111           -
LGA    -       -      C     112           -
LGA    -       -      R     113           -
LGA    -       -      N     114           -
LGA    -       -      C     115           -
LGA    -       -      G     116           -
LGA    -       -      H     117           -
LGA    -       -      I     118           -
LGA    -       -      Y     119           -
LGA    -       -      Y     120           -
LGA    -       -      I     121           -
LGA    -       -      K     122           -
LGA    -       -      N     123           -
LGA    -       -      G     124           -
LGA    -       -      I     125           -
LGA    -       -      P     126           -
LGA    -       -      N     127           -
LGA    -       -      L     128           -
LGA    -       -      L     129           -
LGA    -       -      L     130           -
LGA    -       -      P     131           -
LGA    -       -      P     132           -
LGA    -       -      H     133           -
LGA    -       -      L     134           -
LGA    -       -      V     135           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  135  135    5.0     61    2.89    67.21     29.866     2.039

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.216641 * X  +   0.596595 * Y  +   0.772749 * Z  +  26.004963
  Y_new =   0.728263 * X  +  -0.625907 * Y  +   0.279057 * Z  +  -5.176319
  Z_new =   0.650154 * X  +   0.502309 * Y  +  -0.570075 * Z  +  12.134060 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.419302   -0.722290  [ DEG:   138.6158    -41.3842 ]
  Theta =  -0.707786   -2.433806  [ DEG:   -40.5532   -139.4468 ]
  Phi   =   1.281656   -1.859936  [ DEG:    73.4335   -106.5665 ]
 
# 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: T0319TS599_4                                  
REMARK     2: T0319.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0319TS599_4.T0319.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  135  135   5.0   61   2.89   67.21  29.866
REMARK  ---------------------------------------------------------- 
MOLECULE T0319TS599_4
PFRMAT TS                                                                       
TARGET T0319                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      20.395   6.577  15.258  1.00  0.00              
ATOM      2  CA  LYS     2      21.941   6.527  11.736  1.00  0.00              
ATOM      3  CA  PHE     3      25.469   5.842  11.880  1.00  0.00              
ATOM      4  CA  LEU     4      21.541   5.163  12.012  1.00  0.00              
ATOM      5  CA  THR     5      21.828   1.425  11.361  1.00  0.00              
ATOM      6  CA  THR     6      24.663   0.860  13.876  1.00  0.00              
ATOM      7  CA  ASN     7      22.763   2.683  16.547  1.00  0.00              
ATOM      8  CA  PHE     8      19.619   0.638  15.865  1.00  0.00              
ATOM      9  CA  LEU     9      21.514  -2.660  16.193  1.00  0.00              
ATOM     10  CA  LYS    10      22.947  -1.601  19.582  1.00  0.00              
ATOM     11  CA  CYS    11      19.940   0.012  21.225  1.00  0.00              
ATOM     12  CA  SER    12      20.421   1.975  24.402  1.00  0.00              
ATOM     13  CA  VAL    13      18.140   5.037  24.091  1.00  0.00              
ATOM     14  CA  LYS    14      14.887   4.953  26.010  1.00  0.00              
ATOM     15  CA  ALA    15      12.246   3.272  23.940  1.00  0.00              
ATOM     16  CA  CYS    16      13.997   0.234  22.609  1.00  0.00              
ATOM     17  CA  ASP    17      12.298  -3.090  22.944  1.00  0.00              
ATOM     18  CA  THR    18      14.493  -6.084  22.310  1.00  0.00              
ATOM     19  CA  SER    19      12.324  -9.002  21.060  1.00  0.00              
ATOM     20  CA  ASN    20      14.749 -10.796  18.829  1.00  0.00              
ATOM     21  CA  ASP    21      14.059  -9.566  15.282  1.00  0.00              
ATOM     22  CA  ASN    22      11.860  -6.601  15.932  1.00  0.00              
ATOM     23  CA  PHE    23      13.340  -3.855  18.003  1.00  0.00              
ATOM     24  CA  PRO    24      12.266  -0.269  17.915  1.00  0.00              
ATOM     25  CA  LEU    25      15.010   2.077  18.922  1.00  0.00              
ATOM     26  CA  GLN    26      14.971   5.472  20.210  1.00  0.00              
ATOM     27  CA  TYR    27      17.735   7.917  19.098  1.00  0.00              
ATOM     28  CA  ASP    28      17.786  10.951  21.361  1.00  0.00              
ATOM     29  CA  GLY    29      19.846  13.925  20.285  1.00  0.00              
ATOM     30  CA  SER    30      22.027  13.930  23.420  1.00  0.00              
ATOM     31  CA  LYS    31      22.598  10.165  22.968  1.00  0.00              
ATOM     32  CA  CYS    32      23.527  10.353  19.322  1.00  0.00              
ATOM     33  CA  GLN    33      26.048  13.131  19.972  1.00  0.00              
ATOM     34  CA  LEU    34      27.523  11.060  22.830  1.00  0.00              
ATOM     35  CA  VAL    35      27.850   7.933  20.685  1.00  0.00              
ATOM     36  CA  GLN    36      29.652   9.689  17.807  1.00  0.00              
ATOM     37  CA  ASP    37      32.168  11.299  20.182  1.00  0.00              
ATOM     38  CA  GLU    38      32.931   8.283  22.275  1.00  0.00              
ATOM     39  CA  SER    39      33.723   5.626  19.743  1.00  0.00              
ATOM     40  CA  ILE    40      31.694   2.635  20.784  1.00  0.00              
ATOM     41  CA  GLU    41      34.266  -0.240  20.886  1.00  0.00              
ATOM     42  CA  PHE    42      32.383  -3.397  20.131  1.00  0.00              
ATOM     43  CA  ASN    43      32.074  -5.754  23.122  1.00  0.00              
ATOM     44  CA  PRO    44      31.624  -9.264  21.786  1.00  0.00              
ATOM     45  CA  GLU    45      28.902 -10.184  24.198  1.00  0.00              
ATOM     46  CA  PHE    46      26.601  -7.302  23.454  1.00  0.00              
ATOM     47  CA  LEU    47      27.302  -7.553  19.804  1.00  0.00              
ATOM     48  CA  LEU    48      26.654 -11.288  19.747  1.00  0.00              
ATOM     49  CA  ASN    49      23.196 -10.792  21.283  1.00  0.00              
ATOM     50  CA  ILE    50      22.458  -8.111  18.665  1.00  0.00              
ATOM     51  CA  VAL    51      23.703 -10.284  15.794  1.00  0.00              
ATOM     52  CA  ASP    52      21.467 -13.207  16.734  1.00  0.00              
ATOM     53  CA  ARG    53      18.418 -10.867  16.368  1.00  0.00              
ATOM     54  CA  VAL    54      19.513  -9.023  13.256  1.00  0.00              
ATOM     55  CA  ASP    55      17.174  -9.090  10.343  1.00  0.00              
ATOM     56  CA  TRP    56      19.519  -8.939   7.401  1.00  0.00              
ATOM     57  CA  PRO    57      16.867  -7.553   5.003  1.00  0.00              
ATOM     58  CA  ALA    58      16.175  -4.654   7.363  1.00  0.00              
ATOM     59  CA  VAL    59      19.839  -3.910   7.710  1.00  0.00              
ATOM     60  CA  LEU    60      20.460  -3.942   3.952  1.00  0.00              
ATOM     61  CA  THR    61      17.525  -1.552   3.431  1.00  0.00              
ATOM     62  CA  VAL    62      18.818   0.764   6.132  1.00  0.00              
ATOM     63  CA  ALA    63      22.317   0.830   4.583  1.00  0.00              
ATOM     64  CA  ALA    64      20.935   1.776   1.165  1.00  0.00              
ATOM     65  CA  GLU    65      18.822   4.548   2.623  1.00  0.00              
ATOM     66  CA  LEU    66      21.666   6.102   4.587  1.00  0.00              
ATOM     67  CA  GLY    67      23.959   6.062   1.495  1.00  0.00              
ATOM     68  CA  ASN    68      26.665   3.940   3.046  1.00  0.00              
ATOM     69  CA  ASN    69      29.723   4.840   1.072  1.00  0.00              
ATOM     70  CA  ALA    70      31.948   2.064   2.485  1.00  0.00              
ATOM     71  CA  LEU    71      29.501  -0.819   2.141  1.00  0.00              
ATOM     72  CA  PRO    72      29.602  -3.005  -0.930  1.00  0.00              
ATOM     73  CA  PRO    73      26.966  -2.157  -3.563  1.00  0.00              
ATOM     74  CA  THR    74      24.695  -5.094  -2.719  1.00  0.00              
ATOM     75  CA  LYS    75      26.948  -7.674  -1.025  1.00  0.00              
ATOM     76  CA  PRO    76      27.626 -10.134  -3.821  1.00  0.00              
ATOM     77  CA  SER    77      26.773 -13.545  -2.497  1.00  0.00              
ATOM     78  CA  PHE    78      23.514 -12.564  -0.814  1.00  0.00              
ATOM     79  CA  PRO    79      20.501 -14.701  -1.506  1.00  0.00              
ATOM     80  CA  SER    80      17.588 -12.422  -2.062  1.00  0.00              
ATOM     81  CA  SER    81      15.654 -13.044   1.107  1.00  0.00              
ATOM     82  CA  ILE    82      17.892 -15.419   3.099  1.00  0.00              
ATOM     83  CA  GLN    83      14.736 -16.966   4.471  1.00  0.00              
ATOM     84  CA  GLU    84      13.306 -17.845   1.011  1.00  0.00              
ATOM     85  CA  LEU    85      15.984 -20.240  -0.090  1.00  0.00              
ATOM     86  CA  THR    86      15.898 -21.945   3.261  1.00  0.00              
ATOM     87  CA  ASP    87      18.734 -24.302   3.381  1.00  0.00              
ATOM     88  CA  ASP    88      21.310 -22.185   1.678  1.00  0.00              
ATOM     89  CA  ASP    89      20.639 -18.985   3.699  1.00  0.00              
ATOM     90  CA  MET    90      20.857 -20.974   6.913  1.00  0.00              
ATOM     91  CA  ALA    91      24.394 -22.120   6.090  1.00  0.00              
ATOM     92  CA  ILE    92      25.625 -18.586   5.335  1.00  0.00              
ATOM     93  CA  LEU    93      24.079 -17.379   8.572  1.00  0.00              
ATOM     94  CA  ASN    94      25.730 -20.133  10.656  1.00  0.00              
ATOM     95  CA  ASP    95      29.153 -19.231   9.259  1.00  0.00              
ATOM     96  CA  LEU    96      28.453 -15.597  10.106  1.00  0.00              
ATOM     97  CA  HIS    97      27.388 -16.533  13.654  1.00  0.00              
ATOM     98  CA  THR    98      30.595 -18.509  14.173  1.00  0.00              
ATOM     99  CA  LEU    99      32.690 -15.544  12.888  1.00  0.00              
ATOM    100  CA  LEU   100      30.881 -13.121  15.190  1.00  0.00              
ATOM    101  CA  LEU   101      31.530 -15.370  18.209  1.00  0.00              
ATOM    102  CA  GLN   102      35.253 -15.294  17.445  1.00  0.00              
ATOM    103  CA  THR   103      35.920 -11.737  16.462  1.00  0.00              
ATOM    104  CA  SER   104      39.000  -9.797  17.560  1.00  0.00              
ATOM    105  CA  ILE   105      38.946  -6.123  16.872  1.00  0.00              
ATOM    106  CA  ALA   106      42.194  -4.279  16.435  1.00  0.00              
ATOM    107  CA  GLU   107      42.296  -0.693  15.225  1.00  0.00              
ATOM    108  CA  GLY   108      39.696  -0.977  12.421  1.00  0.00              
ATOM    109  CA  GLU   109      40.961  -4.471  11.528  1.00  0.00              
ATOM    110  CA  MET   110      38.818  -7.476  12.371  1.00  0.00              
ATOM    111  CA  LYS   111      40.625 -10.757  12.929  1.00  0.00              
ATOM    112  CA  CYS   112      38.726 -14.004  13.253  1.00  0.00              
ATOM    113  CA  ARG   113      40.347 -16.350  15.819  1.00  0.00              
ATOM    114  CA  ASN   114      38.901 -19.545  14.469  1.00  0.00              
ATOM    115  CA  CYS   115      39.115 -19.264  10.737  1.00  0.00              
ATOM    116  CA  GLY   116      41.774 -16.642  10.290  1.00  0.00              
ATOM    117  CA  HIS   117      39.773 -14.473   7.961  1.00  0.00              
ATOM    118  CA  ILE   118      40.747 -10.889   7.920  1.00  0.00              
ATOM    119  CA  TYR   119      38.070  -8.266   7.582  1.00  0.00              
ATOM    120  CA  TYR   120      38.904  -4.653   6.985  1.00  0.00              
ATOM    121  CA  ILE   121      36.449  -2.074   8.168  1.00  0.00              
ATOM    122  CA  LYS   122      37.014   1.477   7.087  1.00  0.00              
ATOM    123  CA  ASN   123      33.690   3.339   7.429  1.00  0.00              
ATOM    124  CA  GLY   124      32.273   1.773  10.538  1.00  0.00              
ATOM    125  CA  ILE   125      35.235   1.514  12.862  1.00  0.00              
ATOM    126  CA  PRO   126      34.298   3.070  16.173  1.00  0.00              
ATOM    127  CA  ASN   127      31.064   1.070  15.917  1.00  0.00              
ATOM    128  CA  LEU   128      32.021  -2.450  14.856  1.00  0.00              
ATOM    129  CA  LEU   129      29.650  -3.129  11.933  1.00  0.00              
ATOM    130  CA  LEU   130      30.211  -6.507  10.296  1.00  0.00              
ATOM    131  CA  PRO   131      29.408  -7.216   6.700  1.00  0.00              
ATOM    132  CA  PRO   132      27.266 -10.411   6.733  1.00  0.00              
ATOM    133  CA  HIS   133      30.510 -12.427   4.984  1.00  0.00              
ATOM    134  CA  LEU   134      33.251  -9.381   4.040  1.00  0.00              
ATOM    135  CA  VAL   135      35.253  -5.761   3.909  1.00  0.00              
TER                                                                             
END
