
#######################################################
#                                                     #
#                        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  126 (  126),  selected  126 , name T0372TS599_2-D1
# Molecule2: number of CA atoms  126 ( 1027),  selected  126 , name T0372_D1.pdb
# PARAMETERS: T0372TS599_2-D1.T0372_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    I       2      I       2           -
LGA    P       3      P       3           -
LGA    F       4      -       -           -
LGA    K       5      F       4           #
LGA    -       -      K       5           -
LGA    -       -      D       6           -
LGA    D       6      I       7          3.425
LGA    I       7      T       8          5.611
LGA    -       -      L       9           -
LGA    -       -      A      10           -
LGA    T       8      D      11          2.790
LGA    L       9      R      12          2.774
LGA    A      10      D      13           #
LGA    D      11      T      14           -
LGA    R      12      -       -           -
LGA    D      13      -       -           -
LGA    T      14      -       -           -
LGA    I      15      I      15           #
LGA    T      16      -       -           -
LGA    A      17      -       -           -
LGA    F      18      T      16           #
LGA    T      19      A      17           -
LGA    M      20      F      18           -
LGA    -       -      T      19           -
LGA    -       -      M      20           -
LGA    -       -      K      21           -
LGA    -       -      S      22           -
LGA    -       -      D      23           -
LGA    -       -      R      24           -
LGA    K      21      R      25          4.702
LGA    S      22      N      26          4.632
LGA    D      23      C      27          2.226
LGA    R      24      D      28          4.019
LGA    -       -      L      29           -
LGA    -       -      S      30           -
LGA    -       -      F      31           -
LGA    R      25      S      32           #
LGA    N      26      N      33          3.964
LGA    C      27      -       -           -
LGA    D      28      -       -           -
LGA    L      29      -       -           -
LGA    S      30      -       -           -
LGA    F      31      -       -           -
LGA    S      32      -       -           -
LGA    N      33      -       -           -
LGA    L      34      L      34           #
LGA    C      35      C      35          1.487
LGA    S      36      S      36          3.422
LGA    W      37      W      37          1.352
LGA    R      38      R      38           -
LGA    F      39      F      39           -
LGA    L      40      L      40          2.824
LGA    Y      41      Y      41          2.899
LGA    D      42      D      42          3.394
LGA    T      43      T      43          2.808
LGA    Q      44      Q      44          2.500
LGA    F      45      F      45          2.731
LGA    A      46      A      46          2.329
LGA    V      47      V      47          2.324
LGA    I      48      I      48          2.143
LGA    D      49      D      49          3.852
LGA    D      50      D      50          1.517
LGA    F      51      F      51          2.480
LGA    L      52      L      52          3.077
LGA    V      53      V      53          1.961
LGA    F      54      F      54          1.839
LGA    K      55      K      55          1.326
LGA    F      56      F      56          1.863
LGA    W      57      W      57          1.659
LGA    A      58      A      58          1.268
LGA    G      59      G      59          1.070
LGA    E      60      E      60          1.413
LGA    Q      61      Q      61          2.776
LGA    L      62      L      62          2.709
LGA    A      63      A      63          1.983
LGA    Y      64      Y      64          1.721
LGA    M      65      M      65          5.063
LGA    M      66      M      66          3.165
LGA    P      67      P      67          4.203
LGA    V      68      V      68          4.673
LGA    G      69      G      69          3.324
LGA    N      70      N      70          3.256
LGA    G      71      -       -           -
LGA    D      72      G      71          2.148
LGA    L      73      D      72          2.673
LGA    K      74      -       -           -
LGA    A      75      -       -           -
LGA    V      76      L      73          5.118
LGA    L      77      K      74          4.882
LGA    R      78      -       -           -
LGA    K      79      -       -           -
LGA    L      80      A      75          4.364
LGA    I      81      V      76           -
LGA    E      82      L      77           -
LGA    -       -      R      78           -
LGA    -       -      K      79           -
LGA    -       -      L      80           -
LGA    -       -      I      81           -
LGA    D      83      E      82           #
LGA    A      84      D      83           -
LGA    D      85      A      84           -
LGA    K      86      D      85           -
LGA    E      87      K      86           -
LGA    K      88      E      87           -
LGA    H      89      K      88           -
LGA    N      90      H      89           -
LGA    F      91      N      90           -
LGA    C      92      F      91           -
LGA    M      93      C      92           -
LGA    L      94      M      93           -
LGA    G      95      L      94           -
LGA    V      96      -       -           -
LGA    C      97      -       -           -
LGA    S      98      -       -           -
LGA    N      99      -       -           -
LGA    M     100      -       -           -
LGA    R     101      -       -           -
LGA    A     102      -       -           -
LGA    D     103      -       -           -
LGA    L     104      -       -           -
LGA    E     105      -       -           -
LGA    A     106      -       -           -
LGA    I     107      -       -           -
LGA    L     108      G      95          4.056
LGA    P     109      V      96          4.363
LGA    -       -      C      97           -
LGA    -       -      S      98           -
LGA    -       -      N      99           -
LGA    -       -      M     100           -
LGA    -       -      R     101           -
LGA    -       -      A     102           -
LGA    -       -      D     103           -
LGA    -       -      L     104           -
LGA    -       -      E     105           -
LGA    -       -      A     106           -
LGA    -       -      I     107           -
LGA    -       -      L     108           -
LGA    -       -      P     109           -
LGA    -       -      E     110           -
LGA    -       -      R     111           -
LGA    -       -      F     112           -
LGA    -       -      I     113           -
LGA    -       -      F     114           -
LGA    -       -      T     115           -
LGA    -       -      E     116           -
LGA    -       -      D     117           -
LGA    E     110      K     290          3.378
LGA    R     111      Y     291          4.496
LGA    F     112      M     292          2.278
LGA    I     113      A     293           #
LGA    F     114      C     294          4.545
LGA    T     115      L     295           #
LGA    E     116      K     296           -
LGA    -       -      D     297           -
LGA    D     117      H     298           #
LGA    K     290      -       -           -
LGA    Y     291      -       -           -
LGA    M     292      -       -           -
LGA    A     293      -       -           -
LGA    C     294      -       -           -
LGA    L     295      -       -           -
LGA    K     296      -       -           -
LGA    D     297      -       -           -
LGA    H     298      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  126  126    5.0     54    3.23    64.81     26.213     1.619

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.127859 * X  +  -0.951533 * Y  +  -0.279709 * Z  +  32.749283
  Y_new =  -0.142537 * X  +  -0.296726 * Y  +   0.944265 * Z  +  46.346569
  Z_new =  -0.981496 * X  +  -0.080864 * Y  +  -0.173568 * Z  + -10.717071 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.705599    0.435993  [ DEG:  -155.0194     24.9806 ]
  Theta =   1.378126    1.763466  [ DEG:    78.9608    101.0392 ]
  Phi   =  -0.839626    2.301966  [ DEG:   -48.1071    131.8929 ]
 
# 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: T0372TS599_2-D1                               
REMARK     2: T0372_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS599_2-D1.T0372_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  126  126   5.0   54   3.23   64.81  26.213
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS599_2-D1
PFRMAT TS                                                                       
TARGET T0372                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      40.688  60.623  12.923  1.00  0.00              
ATOM      2  CA  ILE     2      41.237  57.095  10.782  1.00  0.00              
ATOM      3  CA  PRO     3      41.909  56.558   7.170  1.00  0.00              
ATOM      4  CA  PHE     4      45.141  55.255   6.465  1.00  0.00              
ATOM      5  CA  LYS     5      47.288  54.220   3.551  1.00  0.00              
ATOM      6  CA  ASP     6      50.086  52.954   5.842  1.00  0.00              
ATOM      7  CA  ILE     7      50.171  55.642   8.550  1.00  0.00              
ATOM      8  CA  THR     8      50.685  54.126  11.964  1.00  0.00              
ATOM      9  CA  LEU     9      49.575  55.892  15.122  1.00  0.00              
ATOM     10  CA  ALA    10      51.362  54.476  18.132  1.00  0.00              
ATOM     11  CA  ASP    11      49.083  55.313  21.025  1.00  0.00              
ATOM     12  CA  ARG    12      47.677  51.873  21.954  1.00  0.00              
ATOM     13  CA  ASP    13      44.436  53.251  23.065  1.00  0.00              
ATOM     14  CA  THR    14      43.959  55.220  19.910  1.00  0.00              
ATOM     15  CA  ILE    15      44.786  52.241  17.741  1.00  0.00              
ATOM     16  CA  THR    16      42.340  50.043  19.633  1.00  0.00              
ATOM     17  CA  ALA    17      39.631  52.744  19.161  1.00  0.00              
ATOM     18  CA  PHE    18      40.325  52.920  15.433  1.00  0.00              
ATOM     19  CA  THR    19      40.117  49.168  15.082  1.00  0.00              
ATOM     20  CA  MET    20      36.820  49.064  17.061  1.00  0.00              
ATOM     21  CA  LYS    21      35.103  51.531  14.808  1.00  0.00              
ATOM     22  CA  SER    22      35.971  49.767  11.638  1.00  0.00              
ATOM     23  CA  ASP    23      35.163  46.243  12.782  1.00  0.00              
ATOM     24  CA  ARG    24      38.575  44.795  12.070  1.00  0.00              
ATOM     25  CA  ARG    25      40.324  42.208  14.196  1.00  0.00              
ATOM     26  CA  ASN    26      43.975  43.094  14.165  1.00  0.00              
ATOM     27  CA  CYS    27      45.992  39.970  13.897  1.00  0.00              
ATOM     28  CA  ASP    28      48.650  40.969  11.436  1.00  0.00              
ATOM     29  CA  LEU    29      49.898  44.212  12.559  1.00  0.00              
ATOM     30  CA  SER    30      51.432  45.888  15.465  1.00  0.00              
ATOM     31  CA  PHE    31      49.805  49.127  16.406  1.00  0.00              
ATOM     32  CA  SER    32      52.348  51.262  14.615  1.00  0.00              
ATOM     33  CA  ASN    33      51.892  49.503  11.308  1.00  0.00              
ATOM     34  CA  LEU    34      48.200  48.891  11.127  1.00  0.00              
ATOM     35  CA  CYS    35      47.041  45.593   9.799  1.00  0.00              
ATOM     36  CA  SER    36      43.467  44.431   9.704  1.00  0.00              
ATOM     37  CA  TRP    37      42.745  40.674   9.260  1.00  0.00              
ATOM     38  CA  ARG    38      39.208  39.385   9.268  1.00  0.00              
ATOM     39  CA  PHE    39      39.019  36.026   7.609  1.00  0.00              
ATOM     40  CA  LEU    40      42.129  36.310   5.501  1.00  0.00              
ATOM     41  CA  TYR    41      40.983  39.242   3.438  1.00  0.00              
ATOM     42  CA  ASP    42      43.485  42.004   3.441  1.00  0.00              
ATOM     43  CA  THR    43      42.192  45.373   4.288  1.00  0.00              
ATOM     44  CA  GLN    44      43.587  48.460   2.667  1.00  0.00              
ATOM     45  CA  PHE    45      42.569  51.814   3.660  1.00  0.00              
ATOM     46  CA  ALA    46      43.302  54.843   1.458  1.00  0.00              
ATOM     47  CA  VAL    47      42.586  58.356   2.546  1.00  0.00              
ATOM     48  CA  ILE    48      42.651  61.071  -0.073  1.00  0.00              
ATOM     49  CA  ASP    49      41.844  64.686   0.821  1.00  0.00              
ATOM     50  CA  ASP    50      38.170  64.236   1.560  1.00  0.00              
ATOM     51  CA  PHE    51      37.591  60.950  -0.058  1.00  0.00              
ATOM     52  CA  LEU    52      37.775  57.532   1.660  1.00  0.00              
ATOM     53  CA  VAL    53      38.736  54.606  -0.181  1.00  0.00              
ATOM     54  CA  PHE    54      38.463  51.150   1.467  1.00  0.00              
ATOM     55  CA  LYS    55      39.941  48.067  -0.174  1.00  0.00              
ATOM     56  CA  PHE    56      38.950  44.699   1.103  1.00  0.00              
ATOM     57  CA  TRP    57      40.591  41.547  -0.125  1.00  0.00              
ATOM     58  CA  ALA    58      38.533  38.361   0.052  1.00  0.00              
ATOM     59  CA  GLY    59      38.931  36.016  -2.857  1.00  0.00              
ATOM     60  CA  GLU    60      37.247  38.233  -5.375  1.00  0.00              
ATOM     61  CA  GLN    61      38.324  41.670  -4.368  1.00  0.00              
ATOM     62  CA  LEU    62      35.897  44.006  -2.695  1.00  0.00              
ATOM     63  CA  ALA    63      36.292  47.746  -3.114  1.00  0.00              
ATOM     64  CA  TYR    64      34.464  50.118  -0.934  1.00  0.00              
ATOM     65  CA  MET    65      34.170  53.758  -1.925  1.00  0.00              
ATOM     66  CA  MET    66      33.265  56.257   0.636  1.00  0.00              
ATOM     67  CA  PRO    67      32.572  59.918  -0.010  1.00  0.00              
ATOM     68  CA  VAL    68      34.311  62.018   2.611  1.00  0.00              
ATOM     69  CA  GLY    69      32.401  64.286   4.907  1.00  0.00              
ATOM     70  CA  ASN    70      30.677  67.484   4.749  1.00  0.00              
ATOM     71  CA  GLY    71      33.156  70.132   3.875  1.00  0.00              
ATOM     72  CA  ASP    72      34.232  68.511   0.698  1.00  0.00              
ATOM     73  CA  LEU    73      31.006  67.896  -1.020  1.00  0.00              
ATOM     74  CA  LYS    74      31.335  70.531  -3.788  1.00  0.00              
ATOM     75  CA  ALA    75      34.701  69.181  -4.963  1.00  0.00              
ATOM     76  CA  VAL    76      33.371  65.662  -5.155  1.00  0.00              
ATOM     77  CA  LEU    77      30.283  66.743  -7.087  1.00  0.00              
ATOM     78  CA  ARG    78      32.318  68.732  -9.589  1.00  0.00              
ATOM     79  CA  LYS    79      34.521  65.782 -10.279  1.00  0.00              
ATOM     80  CA  LEU    80      31.372  63.608 -10.806  1.00  0.00              
ATOM     81  CA  ILE    81      29.961  66.212 -13.221  1.00  0.00              
ATOM     82  CA  GLU    82      33.234  66.197 -15.148  1.00  0.00              
ATOM     83  CA  ASP    83      33.238  62.370 -15.431  1.00  0.00              
ATOM     84  CA  ALA    84      29.681  62.243 -16.594  1.00  0.00              
ATOM     85  CA  ASP    85      30.381  64.938 -19.153  1.00  0.00              
ATOM     86  CA  LYS    86      33.368  63.079 -20.522  1.00  0.00              
ATOM     87  CA  GLU    87      31.392  59.860 -21.115  1.00  0.00              
ATOM     88  CA  LYS    88      28.268  61.642 -22.454  1.00  0.00              
ATOM     89  CA  HIS    89      25.899  60.533 -19.776  1.00  0.00              
ATOM     90  CA  ASN    90      23.563  62.730 -17.794  1.00  0.00              
ATOM     91  CA  PHE    91      23.840  61.634 -14.223  1.00  0.00              
ATOM     92  CA  CYS    92      22.518  63.748 -11.483  1.00  0.00              
ATOM     93  CA  MET    93      24.014  63.086  -8.031  1.00  0.00              
ATOM     94  CA  LEU    94      22.119  64.082  -4.915  1.00  0.00              
ATOM     95  CA  GLY    95      23.762  63.802  -1.603  1.00  0.00              
ATOM     96  CA  VAL    96      21.654  62.740   1.308  1.00  0.00              
ATOM     97  CA  CYS    97      21.930  64.187   4.744  1.00  0.00              
ATOM     98  CA  SER    98      24.514  63.228   7.315  1.00  0.00              
ATOM     99  CA  ASN    99      22.357  60.967   9.379  1.00  0.00              
ATOM    100  CA  MET   100      21.341  59.034   6.471  1.00  0.00              
ATOM    101  CA  ARG   101      24.773  58.629   5.025  1.00  0.00              
ATOM    102  CA  ALA   102      26.177  57.340   8.256  1.00  0.00              
ATOM    103  CA  ASP   103      23.472  54.740   8.543  1.00  0.00              
ATOM    104  CA  LEU   104      23.941  53.511   4.993  1.00  0.00              
ATOM    105  CA  GLU   105      27.691  53.253   5.332  1.00  0.00              
ATOM    106  CA  ALA   106      27.285  51.138   8.480  1.00  0.00              
ATOM    107  CA  ILE   107      24.849  48.760   6.788  1.00  0.00              
ATOM    108  CA  LEU   108      26.739  48.400   3.547  1.00  0.00              
ATOM    109  CA  PRO   109      30.008  47.632   5.279  1.00  0.00              
ATOM    110  CA  GLU   110      28.941  44.598   7.209  1.00  0.00              
ATOM    111  CA  ARG   111      27.018  42.778   4.550  1.00  0.00              
ATOM    112  CA  PHE   112      28.178  44.120   1.372  1.00  0.00              
ATOM    113  CA  ILE   113      30.918  44.996  -0.891  1.00  0.00              
ATOM    114  CA  PHE   114      30.764  48.170  -2.921  1.00  0.00              
ATOM    115  CA  THR   115      32.807  48.628  -6.055  1.00  0.00              
ATOM    116  CA  GLU   116      33.911  52.110  -6.950  1.00  0.00              
ATOM    117  CA  ASP   117      34.646  53.120 -10.475  1.00  0.00              
ATOM    290  CA  LYS   290      20.675  55.807 -22.853  1.00  0.00              
ATOM    291  CA  TYR   291      19.744  56.014 -19.220  1.00  0.00              
ATOM    292  CA  MET   292      20.754  59.236 -17.484  1.00  0.00              
ATOM    293  CA  ALA   293      18.852  61.137 -14.877  1.00  0.00              
ATOM    294  CA  CYS   294      19.230  64.877 -14.339  1.00  0.00              
ATOM    295  CA  LEU   295      17.314  66.342 -11.456  1.00  0.00              
ATOM    296  CA  LYS   296      18.564  69.910 -11.416  1.00  0.00              
ATOM    297  CA  ASP   297      15.581  71.723  -9.928  1.00  0.00              
ATOM    298  CA  HIS   298      15.205  69.350  -7.071  1.00  0.00              
TER                                                                             
END
