
#######################################################
#                                                     #
#                        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   96 (   96),  selected   96 , name T0321TS599_4-D1
# Molecule2: number of CA atoms   96 (  710),  selected   96 , name T0321_D1.pdb
# PARAMETERS: T0321TS599_4-D1.T0321_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    W       2      W       2           -
LGA    E       3      E       3           -
LGA    I       4      I       4           -
LGA    Y       5      Y       5           -
LGA    D       6      D       6           -
LGA    A       7      A       7           -
LGA    M       8      M       8           -
LGA    I       9      I       9           -
LGA    N      10      N      10           -
LGA    G      11      -       -           -
LGA    I      12      -       -           -
LGA    P      13      -       -           -
LGA    E      14      -       -           -
LGA    D      15      -       -           -
LGA    F      16      -       -           -
LGA    L      17      -       -           -
LGA    V      18      -       -           -
LGA    D      19      -       -           -
LGA    E      20      G      11           #
LGA    L      21      I      12           #
LGA    V      22      -       -           -
LGA    C      23      -       -           -
LGA    G      24      -       -           -
LGA    T      25      -       -           -
LGA    T      26      -       -           -
LGA    H      27      -       -           -
LGA    S      28      -       -           -
LGA    V      29      -       -           -
LGA    I      30      -       -           -
LGA    R      31      -       -           -
LGA    S      32      -       -           -
LGA    G      33      -       -           -
LGA    N      34      -       -           -
LGA    G      35      -       -           -
LGA    V      36      -       -           -
LGA    G      37      -       -           -
LGA    L      38      P      13          4.808
LGA    G      39      E      14          3.340
LGA    P      40      D      15          1.458
LGA    N      41      F      16          4.954
LGA    R      42      L      17          3.892
LGA    P      43      -       -           -
LGA    F      44      -       -           -
LGA    E      45      V      18          3.700
LGA    T      46      D      19          3.535
LGA    -       -      E      20           -
LGA    -       -      L      21           -
LGA    -       -      V      22           -
LGA    -       -      C      23           -
LGA    -       -      G      24           -
LGA    -       -      T      25           -
LGA    -       -      T      26           -
LGA    -       -      H      27           -
LGA    -       -      S      28           -
LGA    -       -      V      29           -
LGA    -       -      I      30           -
LGA    R      47      R      31           #
LGA    -       -      S      32           -
LGA    -       -      G      33           -
LGA    -       -      N      34           -
LGA    -       -      G      35           -
LGA    -       -      V      36           -
LGA    -       -      G      37           -
LGA    -       -      L      38           -
LGA    -       -      G      39           -
LGA    -       -      P      40           -
LGA    -       -      N      41           -
LGA    -       -      R      42           -
LGA    -       -      P      43           -
LGA    -       -      F      44           -
LGA    -       -      E      45           -
LGA    -       -      T      46           -
LGA    -       -      R      47           -
LGA    -       -      M      48           -
LGA    -       -      P      49           -
LGA    -       -      M      50           -
LGA    -       -      L      51           -
LGA    -       -      T      52           -
LGA    -       -      Q      53           -
LGA    -       -      N      54           -
LGA    -       -      L      55           -
LGA    -       -      L      56           -
LGA    -       -      G      57           -
LGA    -       -      L      58           -
LGA    -       -      P      59           -
LGA    M      48      L      60          2.791
LGA    P      49      R      61          1.492
LGA    M      50      V      62          1.189
LGA    L      51      A      63          2.358
LGA    T      52      A      64          2.420
LGA    Q      53      G      65          4.594
LGA    N      54      -       -           -
LGA    L      55      -       -           -
LGA    L      56      -       -           -
LGA    G      57      -       -           -
LGA    L      58      -       -           -
LGA    P      59      -       -           -
LGA    L      60      -       -           -
LGA    R      61      -       -           -
LGA    V      62      -       -           -
LGA    A      63      C      66           #
LGA    A      64      V      67           -
LGA    G      65      K      68           -
LGA    C      66      S      69          1.757
LGA    V      67      W      70          1.783
LGA    K      68      N      71          3.100
LGA    S      69      -       -           -
LGA    W      70      Y      72          1.313
LGA    N      71      V      73          0.765
LGA    Y      72      E      74          0.745
LGA    V      73      A      75          0.705
LGA    E      74      S      76          0.736
LGA    A      75      I      77          1.407
LGA    S      76      G      78          1.333
LGA    I      77      L      79          0.680
LGA    G      78      A      80          1.672
LGA    L      79      A      81          2.827
LGA    A      80      I      82          1.577
LGA    A      81      N      83          1.428
LGA    I      82      A      84          3.389
LGA    N      83      Y      85          2.038
LGA    A      84      Y      86          0.749
LGA    Y      85      N      87          1.975
LGA    Y      86      N      88          1.985
LGA    -       -      P      89           -
LGA    -       -      Q      90           -
LGA    N      87      V      91          1.392
LGA    N      88      A      92          2.340
LGA    P      89      R      93          2.094
LGA    Q      90      E      94          3.715
LGA    V      91      H      95           -
LGA    A      92      G      96           -
LGA    R      93      -       -           -
LGA    E      94      -       -           -
LGA    H      95      -       -           -
LGA    G      96      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   96   96    5.0     37    2.52     0.00     27.563     1.412

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.865365 * X  +  -0.287130 * Y  +  -0.410731 * Z  +  -8.423713
  Y_new =  -0.267879 * X  +   0.427644 * Y  +  -0.863343 * Z  +  45.087955
  Z_new =   0.423539 * X  +   0.857133 * Y  +   0.293152 * Z  +  67.810699 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.241253   -1.900340  [ DEG:    71.1186   -108.8814 ]
  Theta =  -0.437348   -2.704245  [ DEG:   -25.0582   -154.9418 ]
  Phi   =  -0.300200    2.841392  [ DEG:   -17.2002    162.7998 ]
 
# 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: T0321TS599_4-D1                               
REMARK     2: T0321_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS599_4-D1.T0321_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   96   96   5.0   37   2.52    0.00  27.563
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS599_4-D1
PFRMAT TS                                                                       
TARGET T0321                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -23.998  52.322  80.428  1.00  0.00              
ATOM      2  CA  TRP     2     -28.071  51.909  81.228  1.00  0.00              
ATOM      3  CA  GLU     3     -31.496  50.844  81.219  1.00  0.00              
ATOM      4  CA  ILE     4     -29.160  49.563  78.155  1.00  0.00              
ATOM      5  CA  TYR     5     -27.371  47.180  80.469  1.00  0.00              
ATOM      6  CA  ASP     6     -30.791  45.971  81.662  1.00  0.00              
ATOM      7  CA  ALA     7     -31.911  45.491  77.993  1.00  0.00              
ATOM      8  CA  MET     8     -28.750  43.539  77.191  1.00  0.00              
ATOM      9  CA  ILE     9     -29.253  41.251  80.278  1.00  0.00              
ATOM     10  CA  ASN    10     -32.889  40.634  79.222  1.00  0.00              
ATOM     11  CA  GLY    11     -31.891  39.731  75.561  1.00  0.00              
ATOM     12  CA  ILE    12     -29.379  37.154  76.899  1.00  0.00              
ATOM     13  CA  PRO    13     -31.078  34.998  79.528  1.00  0.00              
ATOM     14  CA  GLU    14     -29.583  35.347  82.941  1.00  0.00              
ATOM     15  CA  ASP    15     -27.425  32.166  83.039  1.00  0.00              
ATOM     16  CA  PHE    16     -25.256  32.861  79.966  1.00  0.00              
ATOM     17  CA  LEU    17     -21.624  33.774  80.656  1.00  0.00              
ATOM     18  CA  VAL    18     -20.545  37.686  78.871  1.00  0.00              
ATOM     19  CA  ASP    19     -17.386  36.738  77.120  1.00  0.00              
ATOM     20  CA  GLU    20     -17.459  38.886  74.737  1.00  0.00              
ATOM     21  CA  LEU    21     -20.480  41.668  74.949  1.00  0.00              
ATOM     22  CA  VAL    22     -21.364  43.489  72.157  1.00  0.00              
ATOM     23  CA  CYS    23     -24.413  46.162  72.366  1.00  0.00              
ATOM     24  CA  GLY    24     -24.962  48.581  69.604  1.00  0.00              
ATOM     25  CA  THR    25     -28.547  49.538  68.920  1.00  0.00              
ATOM     26  CA  THR    26     -28.226  52.915  67.558  1.00  0.00              
ATOM     27  CA  HIS    27     -25.678  51.776  65.230  1.00  0.00              
ATOM     28  CA  SER    28     -27.140  48.561  63.796  1.00  0.00              
ATOM     29  CA  VAL    29     -25.061  45.315  64.425  1.00  0.00              
ATOM     30  CA  ILE    30     -26.157  42.171  62.722  1.00  0.00              
ATOM     31  CA  ARG    31     -25.188  38.768  64.335  1.00  0.00              
ATOM     32  CA  SER    32     -26.648  35.552  62.441  1.00  0.00              
ATOM     33  CA  GLY    33     -26.973  32.524  64.791  1.00  0.00              
ATOM     34  CA  ASN    34     -23.713  30.979  63.586  1.00  0.00              
ATOM     35  CA  GLY    35     -21.554  34.067  63.694  1.00  0.00              
ATOM     36  CA  VAL    36     -22.745  35.596  66.914  1.00  0.00              
ATOM     37  CA  GLY    37     -23.065  39.374  65.698  1.00  0.00              
ATOM     38  CA  LEU    38     -22.301  42.316  67.710  1.00  0.00              
ATOM     39  CA  GLY    39     -23.570  45.759  66.802  1.00  0.00              
ATOM     40  CA  PRO    40     -22.847  48.558  69.438  1.00  0.00              
ATOM     41  CA  ASN    41     -22.589  52.238  68.515  1.00  0.00              
ATOM     42  CA  ARG    42     -19.928  54.342  70.438  1.00  0.00              
ATOM     43  CA  PRO    43     -21.380  57.740  70.588  1.00  0.00              
ATOM     44  CA  PHE    44     -18.973  59.782  68.526  1.00  0.00              
ATOM     45  CA  GLU    45     -18.639  57.550  65.486  1.00  0.00              
ATOM     46  CA  THR    46     -14.884  56.587  65.522  1.00  0.00              
ATOM     47  CA  ARG    47     -15.047  54.078  63.685  1.00  0.00              
ATOM     48  CA  MET    48     -12.428  51.013  64.375  1.00  0.00              
ATOM     49  CA  PRO    49     -14.573  47.977  64.282  1.00  0.00              
ATOM     50  CA  MET    50     -16.270  48.479  60.877  1.00  0.00              
ATOM     51  CA  LEU    51     -12.890  49.194  59.218  1.00  0.00              
ATOM     52  CA  THR    52     -11.144  46.148  60.669  1.00  0.00              
ATOM     53  CA  GLN    53     -13.924  43.731  59.571  1.00  0.00              
ATOM     54  CA  ASN    54     -13.886  45.102  56.064  1.00  0.00              
ATOM     55  CA  LEU    55     -10.071  44.819  55.641  1.00  0.00              
ATOM     56  CA  LEU    56      -9.765  41.311  57.037  1.00  0.00              
ATOM     57  CA  GLY    57     -12.612  39.909  54.944  1.00  0.00              
ATOM     58  CA  LEU    58     -11.260  41.347  51.738  1.00  0.00              
ATOM     59  CA  PRO    59      -9.910  40.019  48.642  1.00  0.00              
ATOM     60  CA  LEU    60      -6.234  40.388  47.837  1.00  0.00              
ATOM     61  CA  ARG    61      -6.726  43.177  45.402  1.00  0.00              
ATOM     62  CA  VAL    62      -8.758  45.173  47.899  1.00  0.00              
ATOM     63  CA  ALA    63      -6.138  44.830  50.527  1.00  0.00              
ATOM     64  CA  ALA    64      -3.511  45.881  48.245  1.00  0.00              
ATOM     65  CA  GLY    65      -5.463  48.974  47.249  1.00  0.00              
ATOM     66  CA  CYS    66      -5.633  49.852  51.019  1.00  0.00              
ATOM     67  CA  VAL    67      -1.890  49.225  51.439  1.00  0.00              
ATOM     68  CA  LYS    68      -1.170  51.471  48.473  1.00  0.00              
ATOM     69  CA  SER    69      -3.191  54.134  50.265  1.00  0.00              
ATOM     70  CA  TRP    70      -0.826  54.085  53.221  1.00  0.00              
ATOM     71  CA  ASN    71      -2.626  56.823  55.144  1.00  0.00              
ATOM     72  CA  TYR    72      -5.958  55.037  55.326  1.00  0.00              
ATOM     73  CA  VAL    73      -4.220  51.882  56.547  1.00  0.00              
ATOM     74  CA  GLU    74      -2.326  53.707  59.286  1.00  0.00              
ATOM     75  CA  ALA    75      -5.437  55.459  60.646  1.00  0.00              
ATOM     76  CA  SER    76      -7.307  52.057  60.734  1.00  0.00              
ATOM     77  CA  ILE    77      -4.445  50.243  62.515  1.00  0.00              
ATOM     78  CA  GLY    78      -4.259  52.932  65.293  1.00  0.00              
ATOM     79  CA  LEU    79      -7.929  53.413  66.440  1.00  0.00              
ATOM     80  CA  ALA    80      -8.605  49.651  66.252  1.00  0.00              
ATOM     81  CA  ALA    81      -5.384  48.708  68.159  1.00  0.00              
ATOM     82  CA  ILE    82      -6.122  51.282  71.088  1.00  0.00              
ATOM     83  CA  ASN    83      -9.611  49.849  71.403  1.00  0.00              
ATOM     84  CA  ALA    84      -8.247  46.202  71.398  1.00  0.00              
ATOM     85  CA  TYR    85      -5.743  47.060  74.124  1.00  0.00              
ATOM     86  CA  TYR    86      -8.287  48.781  76.352  1.00  0.00              
ATOM     87  CA  ASN    87     -10.735  46.026  75.993  1.00  0.00              
ATOM     88  CA  ASN    88      -8.126  43.370  76.689  1.00  0.00              
ATOM     89  CA  PRO    89      -6.767  44.931  79.830  1.00  0.00              
ATOM     90  CA  GLN    90     -10.269  45.681  81.190  1.00  0.00              
ATOM     91  CA  VAL    91      -9.764  49.432  81.475  1.00  0.00              
ATOM     92  CA  ALA    92     -13.035  51.102  80.679  1.00  0.00              
ATOM     93  CA  ARG    93     -12.413  53.693  77.959  1.00  0.00              
ATOM     94  CA  GLU    94     -14.856  52.505  75.279  1.00  0.00              
ATOM     95  CA  HIS    95     -17.543  51.216  77.581  1.00  0.00              
ATOM     96  CA  GLY    96     -20.607  52.462  75.839  1.00  0.00              
TER                                                                             
END
