
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS599_4
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS599_4.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    -       -      N       5           -
LGA    -       -      L       6           -
LGA    -       -      K       7           -
LGA    -       -      R       8           -
LGA    -       -      E       9           -
LGA    -       -      Q      10           -
LGA    -       -      E      11           -
LGA    -       -      F      12           -
LGA    -       -      V      13           -
LGA    -       -      S      14           -
LGA    -       -      Q      15           -
LGA    -       -      Y      16           -
LGA    -       -      H      17           -
LGA    -       -      F      18           -
LGA    -       -      D      19           -
LGA    -       -      A      20           -
LGA    -       -      R      21           -
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      E      24           -
LGA    -       -      W      25           -
LGA    -       -      E      26           -
LGA    -       -      N      27           -
LGA    -       -      E      28           -
LGA    -       -      N      29           -
LGA    -       -      G      30           -
LGA    -       -      A      31           -
LGA    -       -      P      32           -
LGA    -       -      E      33           -
LGA    -       -      T      34           -
LGA    -       -      K      35           -
LGA    -       -      V      36           -
LGA    -       -      D      37           -
LGA    -       -      V      38           -
LGA    A       3      N      39           #
LGA    M       4      F      40          1.925
LGA    N       5      -       -           -
LGA    L       6      Q      41          2.750
LGA    K       7      L      42          2.040
LGA    R       8      -       -           -
LGA    E       9      -       -           -
LGA    Q      10      -       -           -
LGA    E      11      -       -           -
LGA    F      12      L      43          3.170
LGA    V      13      Q      44          3.070
LGA    S      14      H      45          0.909
LGA    Q      15      D      46          3.722
LGA    Y      16      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    H      17      Q      50           #
LGA    F      18      V      51          3.738
LGA    D      19      T      52           #
LGA    A      20      -       -           -
LGA    R      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      -       -           -
LGA    E      24      -       -           -
LGA    W      25      -       -           -
LGA    E      26      -       -           -
LGA    N      27      -       -           -
LGA    E      28      -       -           -
LGA    N      29      -       -           -
LGA    G      30      -       -           -
LGA    A      31      -       -           -
LGA    P      32      -       -           -
LGA    E      33      -       -           -
LGA    T      34      -       -           -
LGA    K      35      -       -           -
LGA    V      36      -       -           -
LGA    D      37      -       -           -
LGA    V      38      S      53          3.738
LGA    N      39      L      54           #
LGA    F      40      I      55          1.672
LGA    Q      41      V      56          4.016
LGA    L      42      I      57          0.942
LGA    L      43      L      58          4.108
LGA    Q      44      S      59          2.238
LGA    H      45      F      60           #
LGA    D      46      -       -           -
LGA    Q      47      -       -           -
LGA    E      48      M      61          4.435
LGA    N      49      -       -           -
LGA    Q      50      -       -           -
LGA    V      51      -       -           -
LGA    T      52      -       -           -
LGA    S      53      I      62          3.806
LGA    L      54      V      63          2.362
LGA    I      55      F      64          4.273
LGA    V      56      D      65           #
LGA    -       -      K      66           -
LGA    -       -      F      67           -
LGA    I      57      V      68          4.102
LGA    L      58      I      69          4.016
LGA    S      59      S      70          4.560
LGA    -       -      G      71           -
LGA    F      60      T      72           #
LGA    M      61      I      73          3.254
LGA    I      62      S      74          4.939
LGA    V      63      Q      75          3.773
LGA    -       -      V      76           -
LGA    F      64      N      77          4.560
LGA    D      65      H      78          4.916
LGA    K      66      I      79           #
LGA    -       -      D      80           -
LGA    -       -      G      81           -
LGA    -       -      R      82           -
LGA    -       -      I      83           -
LGA    -       -      V      84           -
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    -       -      P      87           -
LGA    -       -      S      88           -
LGA    -       -      E      89           -
LGA    -       -      L      90           -
LGA    -       -      N      91           -
LGA    -       -      Q      92           -
LGA    -       -      E      93           -
LGA    -       -      E      94           -
LGA    -       -      V      95           -
LGA    -       -      E      96           -
LGA    -       -      T      97           -
LGA    F      67      L      98          0.978
LGA    V      68      A      99          2.345
LGA    I      69      R     100          3.125
LGA    -       -      P     101           -
LGA    -       -      C     102           -
LGA    S      70      L     103          1.863
LGA    G      71      N     104          4.629
LGA    -       -      M     105           -
LGA    T      72      L     106          2.135
LGA    -       -      N     107           -
LGA    -       -      R     108           -
LGA    -       -      L     109           -
LGA    I      73      T     110          1.351
LGA    S      74      Y     111           #
LGA    -       -      E     112           -
LGA    Q      75      V     113          3.427
LGA    V      76      T     114          2.610
LGA    N      77      E     115           #
LGA    H      78      -       -           -
LGA    I      79      I     116          2.194
LGA    D      80      -       -           -
LGA    G      81      A     117           #
LGA    R      82      L     118           -
LGA    I      83      D     119           -
LGA    V      84      L     120           -
LGA    N      85      -       -           -
LGA    E      86      -       -           -
LGA    P      87      -       -           -
LGA    S      88      -       -           -
LGA    E      89      -       -           -
LGA    L      90      -       -           -
LGA    N      91      -       -           -
LGA    Q      92      -       -           -
LGA    E      93      -       -           -
LGA    E      94      -       -           -
LGA    V      95      -       -           -
LGA    E      96      -       -           -
LGA    T      97      -       -           -
LGA    L      98      -       -           -
LGA    A      99      -       -           -
LGA    R     100      -       -           -
LGA    P     101      P     121          4.728
LGA    C     102      -       -           -
LGA    L     103      -       -           -
LGA    N     104      -       -           -
LGA    M     105      G     122          1.259
LGA    L     106      I     123          3.090
LGA    N     107      N     124          1.830
LGA    R     108      -       -           -
LGA    L     109      -       -           -
LGA    T     110      L     125          1.875
LGA    Y     111      E     126          3.463
LGA    E     112      F     127          0.917
LGA    V     113      -       -           -
LGA    T     114      -       -           -
LGA    E     115      -       -           -
LGA    I     116      -       -           -
LGA    A     117      -       -           -
LGA    L     118      -       -           -
LGA    D     119      -       -           -
LGA    L     120      -       -           -
LGA    P     121      -       -           -
LGA    G     122      -       -           -
LGA    I     123      -       -           -
LGA    N     124      -       -           -
LGA    L     125      -       -           -
LGA    E     126      -       -           -
LGA    F     127      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     43    3.23    11.63     18.976     1.290

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.677772 * X  +   0.210247 * Y  +   0.704571 * Z  +  14.669872
  Y_new =  -0.181739 * X  +  -0.880610 * Y  +   0.437604 * Z  +  30.809769
  Z_new =   0.712458 * X  +  -0.424644 * Y  +  -0.558643 * Z  +  10.054437 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.491637    0.649956  [ DEG:  -142.7603     37.2397 ]
  Theta =  -0.792994   -2.348598  [ DEG:   -45.4352   -134.5648 ]
  Phi   =  -0.261978    2.879614  [ DEG:   -15.0103    164.9897 ]
 
# 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: T0383TS599_4                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS599_4.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   43   3.23   11.63  18.976
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS599_4
PFRMAT TS                                                                       
TARGET T0383                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  SER     1      -2.815  33.585  13.694  1.00  0.00              
ATOM      2  CA  ASN     2      -0.436  31.611  15.522  1.00  0.00              
ATOM      3  CA  ALA     3       3.007  31.433  16.528  1.00  0.00              
ATOM      4  CA  MET     4       3.043  35.618  16.920  1.00  0.00              
ATOM      5  CA  ASN     5      -0.019  35.200  19.042  1.00  0.00              
ATOM      6  CA  LEU     6       1.386  32.449  21.344  1.00  0.00              
ATOM      7  CA  LYS     7       4.692  34.188  21.889  1.00  0.00              
ATOM      8  CA  ARG     8       3.338  37.650  22.421  1.00  0.00              
ATOM      9  CA  GLU     9       0.771  36.548  24.991  1.00  0.00              
ATOM     10  CA  GLN    10       1.834  38.420  28.056  1.00  0.00              
ATOM     11  CA  GLU    11       1.131  35.394  30.257  1.00  0.00              
ATOM     12  CA  PHE    12       3.171  33.056  28.044  1.00  0.00              
ATOM     13  CA  VAL    13       6.135  35.424  27.934  1.00  0.00              
ATOM     14  CA  SER    14       6.140  35.991  31.702  1.00  0.00              
ATOM     15  CA  GLN    15       5.676  32.298  32.465  1.00  0.00              
ATOM     16  CA  TYR    16       8.647  31.341  30.298  1.00  0.00              
ATOM     17  CA  HIS    17      11.280  34.071  30.865  1.00  0.00              
ATOM     18  CA  PHE    18      12.788  35.372  27.663  1.00  0.00              
ATOM     19  CA  ASP    19      15.530  37.941  27.536  1.00  0.00              
ATOM     20  CA  ALA    20      18.130  37.028  24.857  1.00  0.00              
ATOM     21  CA  ARG    21      20.509  39.934  25.404  1.00  0.00              
ATOM     22  CA  ASN    22      20.812  39.652  29.217  1.00  0.00              
ATOM     23  CA  PHE    23      20.549  35.966  30.073  1.00  0.00              
ATOM     24  CA  GLU    24      20.947  35.969  33.812  1.00  0.00              
ATOM     25  CA  TRP    25      23.254  33.273  35.046  1.00  0.00              
ATOM     26  CA  GLU    26      24.668  33.926  38.350  1.00  0.00              
ATOM     27  CA  ASN    27      25.412  30.844  40.471  1.00  0.00              
ATOM     28  CA  GLU    28      28.876  31.400  42.016  1.00  0.00              
ATOM     29  CA  ASN    29      28.349  35.059  43.060  1.00  0.00              
ATOM     30  CA  GLY    30      25.074  34.377  44.748  1.00  0.00              
ATOM     31  CA  ALA    31      22.820  36.515  42.528  1.00  0.00              
ATOM     32  CA  PRO    32      19.670  34.658  41.629  1.00  0.00              
ATOM     33  CA  GLU    33      19.939  32.346  38.688  1.00  0.00              
ATOM     34  CA  THR    34      17.291  33.497  36.267  1.00  0.00              
ATOM     35  CA  LYS    35      17.958  32.107  32.806  1.00  0.00              
ATOM     36  CA  VAL    36      14.692  31.083  31.049  1.00  0.00              
ATOM     37  CA  ASP    37      14.825  30.972  27.297  1.00  0.00              
ATOM     38  CA  VAL    38      11.664  30.973  25.265  1.00  0.00              
ATOM     39  CA  ASN    39      11.847  30.064  21.634  1.00  0.00              
ATOM     40  CA  PHE    40       8.929  30.901  19.417  1.00  0.00              
ATOM     41  CA  GLN    41       8.861  29.680  15.788  1.00  0.00              
ATOM     42  CA  LEU    42       6.940  31.553  13.300  1.00  0.00              
ATOM     43  CA  LEU    43       6.006  29.894  10.060  1.00  0.00              
ATOM     44  CA  GLN    44       3.858  31.742   7.599  1.00  0.00              
ATOM     45  CA  HIS    45       0.904  29.594   6.689  1.00  0.00              
ATOM     46  CA  ASP    46      -1.621  32.381   6.094  1.00  0.00              
ATOM     47  CA  GLN    47       0.911  34.531   4.266  1.00  0.00              
ATOM     48  CA  GLU    48       1.793  31.610   1.929  1.00  0.00              
ATOM     49  CA  ASN    49      -1.848  31.389   0.748  1.00  0.00              
ATOM     50  CA  GLN    50      -1.634  35.160   0.061  1.00  0.00              
ATOM     51  CA  VAL    51       1.628  34.963  -1.891  1.00  0.00              
ATOM     52  CA  THR    52       4.079  37.241  -0.227  1.00  0.00              
ATOM     53  CA  SER    53       7.107  37.152  -2.618  1.00  0.00              
ATOM     54  CA  LEU    54       8.256  34.003  -4.288  1.00  0.00              
ATOM     55  CA  ILE    55      11.828  33.717  -5.324  1.00  0.00              
ATOM     56  CA  VAL    56      12.691  30.359  -6.965  1.00  0.00              
ATOM     57  CA  ILE    57      10.836  28.982  -3.899  1.00  0.00              
ATOM     58  CA  LEU    58      11.612  30.899  -0.759  1.00  0.00              
ATOM     59  CA  SER    59      10.337  29.812   2.509  1.00  0.00              
ATOM     60  CA  PHE    60      10.705  32.185   5.400  1.00  0.00              
ATOM     61  CA  MET    61      11.028  30.983   8.984  1.00  0.00              
ATOM     62  CA  ILE    62      10.955  33.426  11.733  1.00  0.00              
ATOM     63  CA  VAL    63      12.487  32.602  14.962  1.00  0.00              
ATOM     64  CA  PHE    64      11.625  34.689  17.974  1.00  0.00              
ATOM     65  CA  ASP    65      14.105  35.134  20.782  1.00  0.00              
ATOM     66  CA  LYS    66      15.411  38.527  19.682  1.00  0.00              
ATOM     67  CA  PHE    67      14.483  38.337  15.960  1.00  0.00              
ATOM     68  CA  VAL    68      16.057  35.689  13.794  1.00  0.00              
ATOM     69  CA  ILE    69      15.212  35.333  10.177  1.00  0.00              
ATOM     70  CA  SER    70      15.845  32.066   8.514  1.00  0.00              
ATOM     71  CA  GLY    71      15.388  31.682   4.819  1.00  0.00              
ATOM     72  CA  THR    72      14.715  28.344   3.513  1.00  0.00              
ATOM     73  CA  ILE    73      15.230  27.571   0.114  1.00  0.00              
ATOM     74  CA  SER    74      13.166  25.045  -1.238  1.00  0.00              
ATOM     75  CA  GLN    75      13.998  24.094  -4.639  1.00  0.00              
ATOM     76  CA  VAL    76      17.627  24.741  -3.647  1.00  0.00              
ATOM     77  CA  ASN    77      17.581  22.458  -0.575  1.00  0.00              
ATOM     78  CA  HIS    78      16.093  19.577  -2.457  1.00  0.00              
ATOM     79  CA  ILE    79      18.743  19.948  -5.176  1.00  0.00              
ATOM     80  CA  ASP    80      21.580  20.090  -2.616  1.00  0.00              
ATOM     81  CA  GLY    81      20.682  16.828  -0.991  1.00  0.00              
ATOM     82  CA  ARG    82      20.479  15.076  -4.374  1.00  0.00              
ATOM     83  CA  ILE    83      23.874  16.341  -5.599  1.00  0.00              
ATOM     84  CA  VAL    84      25.610  15.379  -2.375  1.00  0.00              
ATOM     85  CA  ASN    85      24.132  11.874  -2.067  1.00  0.00              
ATOM     86  CA  GLU    86      23.798  11.294   1.548  1.00  0.00              
ATOM     87  CA  PRO    87      26.437  13.049   3.490  1.00  0.00              
ATOM     88  CA  SER    88      28.324   9.941   4.437  1.00  0.00              
ATOM     89  CA  GLU    89      29.010   8.864   0.898  1.00  0.00              
ATOM     90  CA  LEU    90      30.293  12.125  -0.378  1.00  0.00              
ATOM     91  CA  ASN    91      33.938  13.088  -0.502  1.00  0.00              
ATOM     92  CA  GLN    92      35.042  16.369   1.144  1.00  0.00              
ATOM     93  CA  GLU    93      35.599  18.010  -2.205  1.00  0.00              
ATOM     94  CA  GLU    94      32.139  17.007  -3.443  1.00  0.00              
ATOM     95  CA  VAL    95      30.523  18.338  -0.299  1.00  0.00              
ATOM     96  CA  GLU    96      32.370  21.654  -0.612  1.00  0.00              
ATOM     97  CA  THR    97      31.271  21.928  -4.254  1.00  0.00              
ATOM     98  CA  LEU    98      27.684  21.218  -3.147  1.00  0.00              
ATOM     99  CA  ALA    99      27.612  23.773  -0.338  1.00  0.00              
ATOM    100  CA  ARG   100      28.892  26.394  -2.807  1.00  0.00              
ATOM    101  CA  PRO   101      26.457  25.852  -5.691  1.00  0.00              
ATOM    102  CA  CYS   102      23.666  25.932  -3.042  1.00  0.00              
ATOM    103  CA  LEU   103      24.814  29.327  -1.712  1.00  0.00              
ATOM    104  CA  ASN   104      24.822  30.570  -5.333  1.00  0.00              
ATOM    105  CA  MET   105      21.247  29.325  -5.755  1.00  0.00              
ATOM    106  CA  LEU   106      20.158  31.042  -2.549  1.00  0.00              
ATOM    107  CA  ASN   107      21.744  34.252  -3.742  1.00  0.00              
ATOM    108  CA  ARG   108      19.694  34.077  -7.022  1.00  0.00              
ATOM    109  CA  LEU   109      16.596  33.528  -4.922  1.00  0.00              
ATOM    110  CA  THR   110      17.155  36.410  -2.516  1.00  0.00              
ATOM    111  CA  TYR   111      16.939  35.452   1.095  1.00  0.00              
ATOM    112  CA  GLU   112      16.462  37.424   4.114  1.00  0.00              
ATOM    113  CA  VAL   113      18.266  36.774   7.227  1.00  0.00              
ATOM    114  CA  THR   114      16.729  39.189   9.777  1.00  0.00              
ATOM    115  CA  GLU   115      13.675  40.208   8.065  1.00  0.00              
ATOM    116  CA  ILE   116      12.440  41.478   4.794  1.00  0.00              
ATOM    117  CA  ALA   117       8.747  41.106   4.108  1.00  0.00              
ATOM    118  CA  LEU   118       7.297  41.655   0.679  1.00  0.00              
ATOM    119  CA  ASP   119       3.770  43.136   1.134  1.00  0.00              
ATOM    120  CA  LEU   120       1.019  42.044  -1.172  1.00  0.00              
ATOM    121  CA  PRO   121       1.068  44.609  -3.966  1.00  0.00              
ATOM    122  CA  GLY   122       4.868  44.357  -4.068  1.00  0.00              
ATOM    123  CA  ILE   123       5.340  40.547  -4.307  1.00  0.00              
ATOM    124  CA  ASN   124       7.883  39.423  -6.829  1.00  0.00              
ATOM    125  CA  LEU   125       7.474  36.255  -8.476  1.00  0.00              
ATOM    126  CA  GLU   126      10.628  34.412  -9.745  1.00  0.00              
ATOM    127  CA  PHE   127      10.314  30.593 -11.294  1.00  0.00              
TER                                                                             
END
