
#######################################################
#                                                     #
#                        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_3-D1
# Molecule2: number of CA atoms   96 (  710),  selected   96 , name T0321_D1.pdb
# PARAMETERS: T0321TS599_3-D1.T0321_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      W       2           -
LGA    -       -      E       3           -
LGA    -       -      I       4           -
LGA    -       -      Y       5           -
LGA    -       -      D       6           -
LGA    -       -      A       7           -
LGA    -       -      M       8           -
LGA    -       -      I       9           -
LGA    -       -      N      10           -
LGA    -       -      G      11           -
LGA    -       -      I      12           -
LGA    -       -      P      13           -
LGA    -       -      E      14           -
LGA    M       1      D      15           #
LGA    W       2      F      16          2.869
LGA    E       3      L      17          3.326
LGA    I       4      -       -           -
LGA    Y       5      V      18          1.957
LGA    D       6      D      19          2.349
LGA    A       7      E      20          1.311
LGA    M       8      L      21          1.874
LGA    I       9      -       -           -
LGA    N      10      -       -           -
LGA    G      11      V      22          2.874
LGA    I      12      C      23          3.809
LGA    P      13      -       -           -
LGA    E      14      -       -           -
LGA    D      15      -       -           -
LGA    F      16      -       -           -
LGA    L      17      -       -           -
LGA    V      18      -       -           -
LGA    D      19      -       -           -
LGA    E      20      -       -           -
LGA    L      21      G      24          2.796
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      T      25          2.666
LGA    G      37      T      26          2.602
LGA    L      38      H      27          2.368
LGA    G      39      S      28          4.442
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           -
LGA    P      40      G      39          1.718
LGA    N      41      P      40           #
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      N      41           #
LGA    L      56      -       -           -
LGA    G      57      -       -           -
LGA    L      58      -       -           -
LGA    P      59      R      42          4.425
LGA    L      60      P      43          2.084
LGA    R      61      F      44          1.819
LGA    V      62      E      45          2.471
LGA    A      63      T      46          4.973
LGA    A      64      R      47          3.988
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    -       -      L      60           -
LGA    -       -      R      61           -
LGA    -       -      V      62           -
LGA    -       -      A      63           -
LGA    -       -      A      64           -
LGA    -       -      G      65           -
LGA    -       -      C      66           -
LGA    -       -      V      67           -
LGA    -       -      K      68           -
LGA    -       -      S      69           -
LGA    -       -      W      70           -
LGA    -       -      N      71           -
LGA    G      65      Y      72           #
LGA    C      66      V      73          1.334
LGA    V      67      -       -           -
LGA    K      68      -       -           -
LGA    S      69      -       -           -
LGA    W      70      -       -           -
LGA    N      71      E      74          4.134
LGA    Y      72      A      75          1.776
LGA    V      73      S      76          3.891
LGA    E      74      I      77          3.798
LGA    A      75      G      78          1.641
LGA    S      76      L      79          1.052
LGA    I      77      A      80          1.847
LGA    G      78      A      81          1.908
LGA    L      79      I      82          1.188
LGA    A      80      N      83          0.864
LGA    A      81      A      84          1.307
LGA    I      82      Y      85          1.196
LGA    N      83      Y      86          1.067
LGA    A      84      N      87          0.926
LGA    Y      85      N      88          1.544
LGA    -       -      P      89           -
LGA    Y      86      Q      90          4.530
LGA    N      87      V      91          4.190
LGA    N      88      A      92          4.579
LGA    P      89      -       -           -
LGA    Q      90      R      93          2.640
LGA    V      91      E      94          1.804
LGA    A      92      H      95          2.237
LGA    R      93      G      96           -
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     42    2.79     4.76     28.189     1.453

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.962022 * X  +   0.112048 * Y  +  -0.248914 * Z  +   0.797652
  Y_new =   0.254400 * X  +   0.698612 * Y  +  -0.668746 * Z  +  54.916107
  Z_new =   0.098963 * X  +  -0.706673 * Y  +  -0.700585 * Z  +  79.423447 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.351869    0.789724  [ DEG:  -134.7522     45.2478 ]
  Theta =  -0.099125   -3.042468  [ DEG:    -5.6794   -174.3206 ]
  Phi   =   2.883067   -0.258525  [ DEG:   165.1876    -14.8124 ]
 
# 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_3-D1                               
REMARK     2: T0321_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS599_3-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   42   2.79    4.76  28.189
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS599_3-D1
PFRMAT TS                                                                       
TARGET T0321                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -15.464  49.369  66.852  1.00  0.00              
ATOM      2  CA  TRP     2     -17.247  52.579  67.458  1.00  0.00              
ATOM      3  CA  GLU     3     -17.026  55.588  69.644  1.00  0.00              
ATOM      4  CA  ILE     4     -13.006  55.010  69.121  1.00  0.00              
ATOM      5  CA  TYR     5     -13.543  55.129  65.479  1.00  0.00              
ATOM      6  CA  ASP     6     -15.546  58.333  65.725  1.00  0.00              
ATOM      7  CA  ALA     7     -12.799  59.939  67.888  1.00  0.00              
ATOM      8  CA  MET     8     -10.119  58.970  65.360  1.00  0.00              
ATOM      9  CA  ILE     9     -12.164  60.314  62.432  1.00  0.00              
ATOM     10  CA  ASN    10     -12.664  63.638  64.214  1.00  0.00              
ATOM     11  CA  GLY    11      -9.056  64.027  65.103  1.00  0.00              
ATOM     12  CA  ILE    12      -7.907  63.567  61.253  1.00  0.00              
ATOM     13  CA  PRO    13      -9.925  65.171  59.429  1.00  0.00              
ATOM     14  CA  GLU    14     -11.605  62.869  56.791  1.00  0.00              
ATOM     15  CA  ASP    15     -10.046  63.981  53.512  1.00  0.00              
ATOM     16  CA  PHE    16      -6.337  64.472  55.020  1.00  0.00              
ATOM     17  CA  LEU    17      -4.574  66.838  54.440  1.00  0.00              
ATOM     18  CA  VAL    18      -0.358  66.465  54.648  1.00  0.00              
ATOM     19  CA  ASP    19       0.571  68.469  57.054  1.00  0.00              
ATOM     20  CA  GLU    20      -1.893  67.155  59.475  1.00  0.00              
ATOM     21  CA  LEU    21      -0.856  65.810  63.035  1.00  0.00              
ATOM     22  CA  VAL    22      -2.921  62.763  64.302  1.00  0.00              
ATOM     23  CA  CYS    23      -2.270  61.501  67.808  1.00  0.00              
ATOM     24  CA  GLY    24      -3.206  58.098  68.788  1.00  0.00              
ATOM     25  CA  THR    25      -2.212  57.492  72.243  1.00  0.00              
ATOM     26  CA  THR    26      -0.984  53.792  72.773  1.00  0.00              
ATOM     27  CA  HIS    27       1.044  54.506  69.345  1.00  0.00              
ATOM     28  CA  SER    28       1.990  57.590  69.619  1.00  0.00              
ATOM     29  CA  VAL    29       1.486  60.024  66.544  1.00  0.00              
ATOM     30  CA  ILE    30       2.906  63.667  66.443  1.00  0.00              
ATOM     31  CA  ARG    31       1.374  66.215  64.138  1.00  0.00              
ATOM     32  CA  SER    32       3.738  68.967  62.800  1.00  0.00              
ATOM     33  CA  GLY    33       2.390  71.132  60.055  1.00  0.00              
ATOM     34  CA  ASN    34       4.971  70.640  57.380  1.00  0.00              
ATOM     35  CA  GLY    35       5.902  67.118  57.814  1.00  0.00              
ATOM     36  CA  VAL    36       2.814  65.189  58.257  1.00  0.00              
ATOM     37  CA  GLY    37       2.720  62.726  61.430  1.00  0.00              
ATOM     38  CA  LEU    38       0.819  60.238  61.683  1.00  0.00              
ATOM     39  CA  GLY    39       0.681  57.740  64.894  1.00  0.00              
ATOM     40  CA  PRO    40       0.207  53.951  64.439  1.00  0.00              
ATOM     41  CA  ASN    41      -1.104  51.261  66.480  1.00  0.00              
ATOM     42  CA  ARG    42       1.108  48.096  66.508  1.00  0.00              
ATOM     43  CA  PRO    43      -1.346  45.298  66.224  1.00  0.00              
ATOM     44  CA  PHE    44      -0.573  43.120  69.204  1.00  0.00              
ATOM     45  CA  GLU    45       1.481  45.301  71.417  1.00  0.00              
ATOM     46  CA  THR    46       4.714  43.425  71.667  1.00  0.00              
ATOM     47  CA  ARG    47       7.390  45.724  70.232  1.00  0.00              
ATOM     48  CA  MET    48       7.763  49.193  71.644  1.00  0.00              
ATOM     49  CA  PRO    49      11.251  50.178  70.387  1.00  0.00              
ATOM     50  CA  MET    50      10.930  48.818  66.874  1.00  0.00              
ATOM     51  CA  LEU    51       7.573  50.467  66.307  1.00  0.00              
ATOM     52  CA  THR    52       8.455  53.966  67.511  1.00  0.00              
ATOM     53  CA  GLN    53      11.634  54.024  65.407  1.00  0.00              
ATOM     54  CA  ASN    54       9.782  52.921  62.257  1.00  0.00              
ATOM     55  CA  LEU    55       7.067  55.576  62.639  1.00  0.00              
ATOM     56  CA  LEU    56       9.267  58.477  63.326  1.00  0.00              
ATOM     57  CA  GLY    57      11.495  57.572  60.441  1.00  0.00              
ATOM     58  CA  LEU    58       8.548  57.448  57.928  1.00  0.00              
ATOM     59  CA  PRO    59       8.756  59.687  55.022  1.00  0.00              
ATOM     60  CA  LEU    60       6.312  62.383  54.056  1.00  0.00              
ATOM     61  CA  ARG    61       5.289  60.328  50.928  1.00  0.00              
ATOM     62  CA  VAL    62       4.286  57.386  53.136  1.00  0.00              
ATOM     63  CA  ALA    63       2.166  59.735  55.348  1.00  0.00              
ATOM     64  CA  ALA    64       0.410  61.210  52.267  1.00  0.00              
ATOM     65  CA  GLY    65      -0.185  57.705  50.923  1.00  0.00              
ATOM     66  CA  CYS    66      -1.640  56.650  54.251  1.00  0.00              
ATOM     67  CA  VAL    67      -3.908  59.683  54.467  1.00  0.00              
ATOM     68  CA  LYS    68      -5.307  58.913  50.969  1.00  0.00              
ATOM     69  CA  SER    69      -5.865  55.240  51.931  1.00  0.00              
ATOM     70  CA  TRP    70      -8.545  56.001  54.500  1.00  0.00              
ATOM     71  CA  ASN    71      -9.393  52.309  54.867  1.00  0.00              
ATOM     72  CA  TYR    72      -5.951  51.631  56.155  1.00  0.00              
ATOM     73  CA  VAL    73      -6.480  54.337  58.739  1.00  0.00              
ATOM     74  CA  GLU    74      -9.806  52.925  59.784  1.00  0.00              
ATOM     75  CA  ALA    75      -8.433  49.459  60.230  1.00  0.00              
ATOM     76  CA  SER    76      -5.566  50.658  62.256  1.00  0.00              
ATOM     77  CA  ILE    77      -7.699  52.774  64.608  1.00  0.00              
ATOM     78  CA  GLY    78     -10.192  49.934  65.266  1.00  0.00              
ATOM     79  CA  LEU    79      -7.901  47.163  66.285  1.00  0.00              
ATOM     80  CA  ALA    80      -5.599  49.258  68.503  1.00  0.00              
ATOM     81  CA  ALA    81      -8.506  50.763  70.260  1.00  0.00              
ATOM     82  CA  ILE    82     -10.337  47.577  70.880  1.00  0.00              
ATOM     83  CA  ASN    83      -7.286  45.928  72.541  1.00  0.00              
ATOM     84  CA  ALA    84      -6.551  48.948  74.708  1.00  0.00              
ATOM     85  CA  TYR    85     -10.097  49.218  75.838  1.00  0.00              
ATOM     86  CA  TYR    86     -10.329  45.535  76.876  1.00  0.00              
ATOM     87  CA  ASN    87      -7.117  45.625  78.712  1.00  0.00              
ATOM     88  CA  ASN    88      -8.081  48.746  80.724  1.00  0.00              
ATOM     89  CA  PRO    89     -11.467  47.424  81.756  1.00  0.00              
ATOM     90  CA  GLN    90     -10.265  43.854  82.580  1.00  0.00              
ATOM     91  CA  VAL    91     -12.487  42.125  80.081  1.00  0.00              
ATOM     92  CA  ALA    92     -10.450  39.694  77.901  1.00  0.00              
ATOM     93  CA  ARG    93     -12.834  38.414  75.291  1.00  0.00              
ATOM     94  CA  GLU    94     -11.773  40.475  72.183  1.00  0.00              
ATOM     95  CA  HIS    95     -15.241  41.867  71.626  1.00  0.00              
ATOM     96  CA  GLY    96     -14.792  45.729  71.335  1.00  0.00              
TER                                                                             
END
