
#######################################################
#                                                     #
#                        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   95 (   95),  selected   95 , name T0306TS599_1
# Molecule2: number of CA atoms   95 (  694),  selected   95 , name T0306.pdb
# PARAMETERS: T0306TS599_1.T0306.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    K       2      -       -           -
LGA    L       3      -       -           -
LGA    A       4      M       1          3.672
LGA    V       5      K       2          3.228
LGA    V       6      -       -           -
LGA    T       7      -       -           -
LGA    G       8      -       -           -
LGA    Q       9      L       3          2.911
LGA    I      10      A       4          2.204
LGA    V      11      V       5          1.840
LGA    C      12      V       6          2.839
LGA    T      13      T       7          4.248
LGA    V      14      G       8          4.764
LGA    R      15      Q       9          1.330
LGA    H      16      -       -           -
LGA    H      17      -       -           -
LGA    G      18      I      10          5.023
LGA    L      19      V      11          2.850
LGA    A      20      -       -           -
LGA    H      21      C      12          5.194
LGA    D      22      T      13          3.941
LGA    -       -      V      14           -
LGA    -       -      R      15           -
LGA    -       -      H      16           -
LGA    -       -      H      17           -
LGA    -       -      G      18           -
LGA    -       -      L      19           -
LGA    -       -      A      20           -
LGA    -       -      H      21           -
LGA    -       -      D      22           -
LGA    K      23      K      23          4.154
LGA    L      24      L      24          2.743
LGA    L      25      L      25          1.840
LGA    M      26      M      26          1.498
LGA    V      27      V      27          1.998
LGA    E      28      E      28          1.648
LGA    M      29      M      29          1.238
LGA    I      30      I      30          0.801
LGA    D      31      D      31          1.130
LGA    P      32      P      32          2.510
LGA    Q      33      Q      33          2.531
LGA    G      34      G      34          1.839
LGA    N      35      N      35          1.571
LGA    P      36      P      36          1.373
LGA    D      37      D      37          0.610
LGA    G      38      G      38          1.431
LGA    Q      39      Q      39          1.369
LGA    C      40      C      40          1.023
LGA    A      41      A      41          1.796
LGA    V      42      V      42          1.788
LGA    A      43      A      43          3.509
LGA    I      44      I      44           #
LGA    D      45      D      45           #
LGA    N      46      N      46           -
LGA    I      47      I      47           -
LGA    G      48      G      48           -
LGA    A      49      A      49           -
LGA    G      50      G      50           -
LGA    T      51      T      51           -
LGA    G      52      G      52           -
LGA    E      53      E      53           -
LGA    W      54      W      54           -
LGA    V      55      V      55           -
LGA    L      56      L      56           -
LGA    L      57      L      57           -
LGA    V      58      V      58           #
LGA    S      59      S      59          1.056
LGA    G      60      G      60          1.857
LGA    S      61      -       -           -
LGA    S      62      -       -           -
LGA    A      63      -       -           -
LGA    R      64      -       -           -
LGA    Q      65      S      61          3.175
LGA    A      66      -       -           -
LGA    H      67      -       -           -
LGA    K      68      -       -           -
LGA    S      69      -       -           -
LGA    E      70      -       -           -
LGA    T      71      -       -           -
LGA    S      72      S      62          1.684
LGA    P      73      A      63          2.938
LGA    V      74      R      64          4.882
LGA    -       -      Q      65           -
LGA    -       -      A      66           -
LGA    -       -      H      67           -
LGA    -       -      K      68           -
LGA    -       -      S      69           -
LGA    -       -      E      70           -
LGA    -       -      T      71           -
LGA    -       -      S      72           -
LGA    -       -      P      73           -
LGA    -       -      V      74           -
LGA    -       -      D      75           -
LGA    D      75      L      76          2.388
LGA    L      76      C      77          4.761
LGA    C      77      V      78           -
LGA    V      78      I      79           -
LGA    I      79      G      80           -
LGA    G      80      I      81           -
LGA    I      81      V      82           -
LGA    V      82      D      83           -
LGA    D      83      E      84           -
LGA    E      84      V      85           -
LGA    V      85      V      86           -
LGA    V      86      S      87           -
LGA    S      87      G      88           -
LGA    G      88      G      89           -
LGA    G      89      Q      90           -
LGA    Q      90      V      91           -
LGA    V      91      I      92           -
LGA    I      92      F      93           -
LGA    F      93      H      94           -
LGA    H      94      K      95           -
LGA    K      95      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   95   95    5.0     42    2.80    61.90     28.982     1.446

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.356674 * X  +  -0.348394 * Y  +   0.866837 * Z  +  33.557198
  Y_new =  -0.527953 * X  +   0.840662 * Y  +   0.120639 * Z  +  30.181561
  Z_new =  -0.770746 * X  +  -0.414620 * Y  +  -0.483777 * Z  +  69.417587 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.433022    0.708571  [ DEG:  -139.4019     40.5981 ]
  Theta =   0.880011    2.261581  [ DEG:    50.4209    129.5791 ]
  Phi   =  -2.164943    0.976649  [ DEG:  -124.0421     55.9579 ]
 
# 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: T0306TS599_1                                  
REMARK     2: T0306.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0306TS599_1.T0306.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   95   95   5.0   42   2.80   61.90  28.982
REMARK  ---------------------------------------------------------- 
MOLECULE T0306TS599_1
PFRMAT TS                                                                       
TARGET T0306                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      47.017  37.766  57.991  1.00  0.00              
ATOM      2  CA  LYS     2      43.879  38.117  59.710  1.00  0.00              
ATOM      3  CA  LEU     3      45.748  36.236  57.281  1.00  0.00              
ATOM      4  CA  ALA     4      45.506  37.347  61.327  1.00  0.00              
ATOM      5  CA  VAL     5      44.133  33.876  62.054  1.00  0.00              
ATOM      6  CA  VAL     6      47.148  32.238  60.335  1.00  0.00              
ATOM      7  CA  THR     7      49.905  34.530  61.678  1.00  0.00              
ATOM      8  CA  GLY     8      48.753  34.265  65.258  1.00  0.00              
ATOM      9  CA  GLN     9      48.774  30.520  65.188  1.00  0.00              
ATOM     10  CA  ILE    10      45.544  28.979  65.448  1.00  0.00              
ATOM     11  CA  VAL    11      45.288  25.629  66.795  1.00  0.00              
ATOM     12  CA  CYS    12      42.026  23.833  66.414  1.00  0.00              
ATOM     13  CA  THR    13      40.983  21.041  68.704  1.00  0.00              
ATOM     14  CA  VAL    14      37.953  18.984  67.899  1.00  0.00              
ATOM     15  CA  ARG    15      36.210  17.180  70.504  1.00  0.00              
ATOM     16  CA  HIS    16      33.534  14.914  69.432  1.00  0.00              
ATOM     17  CA  HIS    17      33.988  11.990  71.763  1.00  0.00              
ATOM     18  CA  GLY    18      33.867  14.296  74.730  1.00  0.00              
ATOM     19  CA  LEU    19      30.484  15.723  74.096  1.00  0.00              
ATOM     20  CA  ALA    20      28.542  12.474  73.573  1.00  0.00              
ATOM     21  CA  HIS    21      27.200  13.077  70.018  1.00  0.00              
ATOM     22  CA  ASP    22      27.755  16.785  70.169  1.00  0.00              
ATOM     23  CA  LYS    23      30.402  18.484  68.160  1.00  0.00              
ATOM     24  CA  LEU    24      32.803  20.604  70.273  1.00  0.00              
ATOM     25  CA  LEU    25      35.365  22.783  68.742  1.00  0.00              
ATOM     26  CA  MET    26      38.145  24.152  70.773  1.00  0.00              
ATOM     27  CA  VAL    27      40.198  26.975  69.514  1.00  0.00              
ATOM     28  CA  GLU    28      43.557  27.605  70.914  1.00  0.00              
ATOM     29  CA  MET    29      45.422  30.649  70.157  1.00  0.00              
ATOM     30  CA  ILE    30      49.071  30.473  70.206  1.00  0.00              
ATOM     31  CA  ASP    31      51.034  33.635  69.924  1.00  0.00              
ATOM     32  CA  PRO    32      53.902  33.993  67.541  1.00  0.00              
ATOM     33  CA  GLN    33      56.577  32.652  69.832  1.00  0.00              
ATOM     34  CA  GLY    34      54.672  29.540  70.813  1.00  0.00              
ATOM     35  CA  ASN    35      53.728  30.859  74.280  1.00  0.00              
ATOM     36  CA  PRO    36      50.237  30.130  75.488  1.00  0.00              
ATOM     37  CA  ASP    37      48.540  33.580  75.585  1.00  0.00              
ATOM     38  CA  GLY    38      45.522  32.756  77.678  1.00  0.00              
ATOM     39  CA  GLN    39      42.871  32.823  75.003  1.00  0.00              
ATOM     40  CA  CYS    40      40.764  29.747  74.639  1.00  0.00              
ATOM     41  CA  ALA    41      37.739  29.897  72.432  1.00  0.00              
ATOM     42  CA  VAL    42      35.028  27.315  72.643  1.00  0.00              
ATOM     43  CA  ALA    43      32.696  26.746  69.846  1.00  0.00              
ATOM     44  CA  ILE    44      29.561  24.744  70.379  1.00  0.00              
ATOM     45  CA  ASP    45      27.725  23.140  67.531  1.00  0.00              
ATOM     46  CA  ASN    46      24.232  21.941  68.200  1.00  0.00              
ATOM     47  CA  ILE    47      24.480  18.228  67.995  1.00  0.00              
ATOM     48  CA  GLY    48      23.094  17.017  71.381  1.00  0.00              
ATOM     49  CA  ALA    49      23.811  19.948  73.640  1.00  0.00              
ATOM     50  CA  GLY    50      21.091  20.781  76.079  1.00  0.00              
ATOM     51  CA  THR    51      19.100  23.881  76.706  1.00  0.00              
ATOM     52  CA  GLY    52      21.083  25.582  79.447  1.00  0.00              
ATOM     53  CA  GLU    53      24.532  24.487  78.349  1.00  0.00              
ATOM     54  CA  TRP    54      26.880  27.482  77.894  1.00  0.00              
ATOM     55  CA  VAL    55      28.483  27.967  74.484  1.00  0.00              
ATOM     56  CA  LEU    56      31.404  30.268  73.836  1.00  0.00              
ATOM     57  CA  LEU    57      31.882  31.560  70.285  1.00  0.00              
ATOM     58  CA  VAL    58      35.270  32.593  69.041  1.00  0.00              
ATOM     59  CA  SER    59      35.823  35.117  66.206  1.00  0.00              
ATOM     60  CA  GLY    60      33.832  37.717  64.361  1.00  0.00              
ATOM     61  CA  SER    61      34.433  40.687  66.583  1.00  0.00              
ATOM     62  CA  SER    62      31.630  40.999  69.096  1.00  0.00              
ATOM     63  CA  ALA    63      30.363  44.298  67.698  1.00  0.00              
ATOM     64  CA  ARG    64      30.281  43.047  64.107  1.00  0.00              
ATOM     65  CA  GLN    65      28.161  39.998  65.022  1.00  0.00              
ATOM     66  CA  ALA    66      25.648  41.551  67.349  1.00  0.00              
ATOM     67  CA  HIS    67      24.457  44.634  65.421  1.00  0.00              
ATOM     68  CA  LYS    68      24.430  42.957  62.067  1.00  0.00              
ATOM     69  CA  SER    69      27.633  44.619  60.714  1.00  0.00              
ATOM     70  CA  GLU    70      28.421  42.042  58.137  1.00  0.00              
ATOM     71  CA  THR    71      32.032  41.248  58.867  1.00  0.00              
ATOM     72  CA  SER    72      32.052  37.468  58.789  1.00  0.00              
ATOM     73  CA  PRO    73      34.547  35.518  60.837  1.00  0.00              
ATOM     74  CA  VAL    74      32.829  33.629  63.701  1.00  0.00              
ATOM     75  CA  ASP    75      34.278  30.226  64.267  1.00  0.00              
ATOM     76  CA  LEU    76      31.680  28.113  65.952  1.00  0.00              
ATOM     77  CA  CYS    77      28.133  28.973  66.742  1.00  0.00              
ATOM     78  CA  VAL    78      26.125  27.551  69.567  1.00  0.00              
ATOM     79  CA  ILE    79      22.439  27.503  68.921  1.00  0.00              
ATOM     80  CA  GLY    80      20.209  26.922  71.890  1.00  0.00              
ATOM     81  CA  ILE    81      22.498  29.139  73.894  1.00  0.00              
ATOM     82  CA  VAL    82      22.449  32.108  71.466  1.00  0.00              
ATOM     83  CA  ASP    83      18.709  32.041  71.233  1.00  0.00              
ATOM     84  CA  GLU    84      18.273  31.565  74.935  1.00  0.00              
ATOM     85  CA  VAL    85      20.265  34.606  75.790  1.00  0.00              
ATOM     86  CA  VAL    86      19.620  37.299  73.379  1.00  0.00              
ATOM     87  CA  SER    87      20.323  40.678  74.251  1.00  0.00              
ATOM     88  CA  GLY    88      19.669  43.032  71.587  1.00  0.00              
ATOM     89  CA  GLY    89      21.447  40.827  68.941  1.00  0.00              
ATOM     90  CA  GLN    90      24.339  40.305  71.122  1.00  0.00              
ATOM     91  CA  VAL    91      24.589  36.772  71.974  1.00  0.00              
ATOM     92  CA  ILE    92      25.456  35.859  75.333  1.00  0.00              
ATOM     93  CA  PHE    93      27.070  32.703  75.830  1.00  0.00              
ATOM     94  CA  HIS    94      28.237  31.782  79.101  1.00  0.00              
ATOM     95  CA  LYS    95      30.426  28.900  79.488  1.00  0.00              
TER                                                                             
END
