
#######################################################
#                                                     #
#                        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_5-D1
# Molecule2: number of CA atoms   96 (  710),  selected   96 , name T0321_D1.pdb
# PARAMETERS: T0321TS599_5-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    G      11      D      19          4.670
LGA    I      12      E      20          2.160
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    P      13      R      31          2.137
LGA    E      14      S      32          2.013
LGA    -       -      G      33           -
LGA    D      15      N      34           #
LGA    F      16      G      35           #
LGA    L      17      V      36          5.266
LGA    V      18      G      37          2.445
LGA    D      19      L      38          4.015
LGA    E      20      G      39          2.715
LGA    L      21      P      40          2.915
LGA    V      22      N      41          2.578
LGA    C      23      R      42          3.751
LGA    G      24      P      43          4.880
LGA    T      25      F      44          2.496
LGA    T      26      E      45          3.441
LGA    H      27      T      46          1.892
LGA    S      28      R      47          3.150
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    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      M      48          1.519
LGA    T      52      P      49          1.169
LGA    Q      53      M      50          1.834
LGA    N      54      L      51          1.797
LGA    L      55      T      52          0.982
LGA    L      56      Q      53          1.170
LGA    G      57      N      54          2.297
LGA    L      58      L      55          2.147
LGA    P      59      L      56          3.246
LGA    L      60      G      57          2.888
LGA    R      61      L      58          2.616
LGA    V      62      P      59          4.610
LGA    A      63      L      60          4.953
LGA    A      64      R      61          4.603
LGA    G      65      V      62          2.972
LGA    C      66      A      63          2.782
LGA    V      67      A      64          3.419
LGA    K      68      -       -           -
LGA    S      69      G      65          3.664
LGA    W      70      C      66           #
LGA    N      71      V      67          3.900
LGA    Y      72      K      68          1.098
LGA    V      73      S      69          3.721
LGA    E      74      -       -           -
LGA    A      75      W      70          2.311
LGA    S      76      N      71          1.448
LGA    I      77      Y      72          1.877
LGA    G      78      V      73           #
LGA    L      79      E      74           #
LGA    A      80      A      75           -
LGA    A      81      S      76           -
LGA    I      82      I      77           -
LGA    N      83      G      78           -
LGA    A      84      L      79           -
LGA    Y      85      A      80           -
LGA    Y      86      A      81           -
LGA    N      87      I      82           -
LGA    N      88      N      83           -
LGA    P      89      A      84           -
LGA    Q      90      Y      85           -
LGA    V      91      Y      86           -
LGA    A      92      N      87           -
LGA    R      93      N      88           -
LGA    E      94      P      89           -
LGA    H      95      Q      90           -
LGA    G      96      V      91           -
LGA    -       -      A      92           -
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     40    3.06     2.50     25.318     1.265

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.847633 * X  +   0.528926 * Y  +   0.041894 * Z  +  -5.183163
  Y_new =  -0.078605 * X  +   0.047096 * Y  +   0.995793 * Z  +  49.489601
  Z_new =   0.524728 * X  +  -0.847360 * Y  +   0.081496 * Z  +  44.703236 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.474915    1.666678  [ DEG:   -84.5064     95.4936 ]
  Theta =  -0.552395   -2.589197  [ DEG:   -31.6499   -148.3501 ]
  Phi   =  -0.092470    3.049123  [ DEG:    -5.2981    174.7019 ]
 
# 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_5-D1                               
REMARK     2: T0321_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS599_5-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   40   3.06    2.50  25.318
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS599_5-D1
PFRMAT TS                                                                       
TARGET T0321                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -3.345  68.612  57.967  1.00  0.00              
ATOM      2  CA  TRP     2      -1.880  67.223  61.121  1.00  0.00              
ATOM      3  CA  GLU     3      -5.212  69.686  61.775  1.00  0.00              
ATOM      4  CA  ILE     4      -7.590  67.231  59.823  1.00  0.00              
ATOM      5  CA  TYR     5      -6.108  64.189  61.494  1.00  0.00              
ATOM      6  CA  ASP     6      -6.498  65.818  64.920  1.00  0.00              
ATOM      7  CA  ALA     7     -10.181  66.619  64.183  1.00  0.00              
ATOM      8  CA  MET     8     -10.863  63.089  62.937  1.00  0.00              
ATOM      9  CA  ILE     9      -9.267  61.509  66.078  1.00  0.00              
ATOM     10  CA  ASN    10     -11.351  63.886  68.329  1.00  0.00              
ATOM     11  CA  GLY    11     -14.729  63.162  66.595  1.00  0.00              
ATOM     12  CA  ILE    12     -14.184  59.197  66.969  1.00  0.00              
ATOM     13  CA  PRO    13     -12.963  58.356  70.260  1.00  0.00              
ATOM     14  CA  GLU    14     -15.489  56.128  71.430  1.00  0.00              
ATOM     15  CA  ASP    15     -13.769  52.707  71.351  1.00  0.00              
ATOM     16  CA  PHE    16     -12.218  53.067  68.621  1.00  0.00              
ATOM     17  CA  LEU    17      -8.346  51.459  68.631  1.00  0.00              
ATOM     18  CA  VAL    18      -5.800  52.702  67.080  1.00  0.00              
ATOM     19  CA  ASP    19      -2.744  50.544  67.947  1.00  0.00              
ATOM     20  CA  GLU    20      -0.057  52.006  65.723  1.00  0.00              
ATOM     21  CA  LEU    21      -0.916  54.103  62.449  1.00  0.00              
ATOM     22  CA  VAL    22       1.838  54.487  59.975  1.00  0.00              
ATOM     23  CA  CYS    23       1.524  57.398  57.663  1.00  0.00              
ATOM     24  CA  GLY    24       3.747  57.622  54.318  1.00  0.00              
ATOM     25  CA  THR    25       4.221  61.175  53.209  1.00  0.00              
ATOM     26  CA  THR    26       2.182  61.511  49.936  1.00  0.00              
ATOM     27  CA  HIS    27      -0.373  59.816  51.964  1.00  0.00              
ATOM     28  CA  SER    28      -0.933  61.420  55.264  1.00  0.00              
ATOM     29  CA  VAL    29      -0.071  58.994  58.190  1.00  0.00              
ATOM     30  CA  ILE    30      -1.413  59.501  61.731  1.00  0.00              
ATOM     31  CA  ARG    31       0.484  57.945  64.541  1.00  0.00              
ATOM     32  CA  SER    32      -1.400  56.986  67.874  1.00  0.00              
ATOM     33  CA  GLY    33       0.923  56.544  70.823  1.00  0.00              
ATOM     34  CA  ASN    34       1.160  52.775  70.602  1.00  0.00              
ATOM     35  CA  GLY    35       1.707  52.356  66.927  1.00  0.00              
ATOM     36  CA  VAL    36       4.313  55.255  66.193  1.00  0.00              
ATOM     37  CA  GLY    37       2.761  57.648  63.613  1.00  0.00              
ATOM     38  CA  LEU    38       4.624  59.475  60.700  1.00  0.00              
ATOM     39  CA  GLY    39       3.018  62.103  59.059  1.00  0.00              
ATOM     40  CA  PRO    40       3.582  62.801  55.188  1.00  0.00              
ATOM     41  CA  ASN    41       2.622  66.185  53.421  1.00  0.00              
ATOM     42  CA  ARG    42       1.251  65.713  50.104  1.00  0.00              
ATOM     43  CA  PRO    43       2.973  68.240  48.058  1.00  0.00              
ATOM     44  CA  PHE    44       3.147  71.086  50.552  1.00  0.00              
ATOM     45  CA  GLU    45      -0.511  72.006  50.643  1.00  0.00              
ATOM     46  CA  THR    46      -1.706  71.316  54.151  1.00  0.00              
ATOM     47  CA  ARG    47      -5.090  69.792  53.406  1.00  0.00              
ATOM     48  CA  MET    48      -5.175  66.946  50.902  1.00  0.00              
ATOM     49  CA  PRO    49      -8.681  66.913  49.413  1.00  0.00              
ATOM     50  CA  MET    50      -9.552  63.260  49.035  1.00  0.00              
ATOM     51  CA  LEU    51      -8.178  62.477  52.472  1.00  0.00              
ATOM     52  CA  THR    52      -9.943  65.212  54.362  1.00  0.00              
ATOM     53  CA  GLN    53     -13.333  64.460  52.851  1.00  0.00              
ATOM     54  CA  ASN    54     -13.051  60.723  53.629  1.00  0.00              
ATOM     55  CA  LEU    55     -12.066  61.277  57.203  1.00  0.00              
ATOM     56  CA  LEU    56     -14.725  63.912  57.993  1.00  0.00              
ATOM     57  CA  GLY    57     -17.490  61.905  56.557  1.00  0.00              
ATOM     58  CA  LEU    58     -16.629  58.755  58.265  1.00  0.00              
ATOM     59  CA  PRO    59     -18.850  57.277  60.850  1.00  0.00              
ATOM     60  CA  LEU    60     -17.506  56.229  64.239  1.00  0.00              
ATOM     61  CA  ARG    61     -18.335  52.547  63.318  1.00  0.00              
ATOM     62  CA  VAL    62     -16.394  52.898  60.001  1.00  0.00              
ATOM     63  CA  ALA    63     -13.326  54.288  61.795  1.00  0.00              
ATOM     64  CA  ALA    64     -13.408  51.388  64.235  1.00  0.00              
ATOM     65  CA  GLY    65     -13.779  49.018  61.439  1.00  0.00              
ATOM     66  CA  CYS    66     -10.751  50.485  59.669  1.00  0.00              
ATOM     67  CA  VAL    67      -8.666  50.325  62.796  1.00  0.00              
ATOM     68  CA  LYS    68      -9.527  46.644  63.102  1.00  0.00              
ATOM     69  CA  SER    69      -8.704  45.898  59.575  1.00  0.00              
ATOM     70  CA  TRP    70      -5.162  47.073  59.964  1.00  0.00              
ATOM     71  CA  ASN    71      -3.787  45.237  56.931  1.00  0.00              
ATOM     72  CA  TYR    72      -6.060  46.856  54.395  1.00  0.00              
ATOM     73  CA  VAL    73      -5.310  50.347  55.717  1.00  0.00              
ATOM     74  CA  GLU    74      -1.523  49.732  55.536  1.00  0.00              
ATOM     75  CA  ALA    75      -1.811  48.391  51.969  1.00  0.00              
ATOM     76  CA  SER    76      -3.835  51.484  50.836  1.00  0.00              
ATOM     77  CA  ILE    77      -1.464  54.003  52.372  1.00  0.00              
ATOM     78  CA  GLY    78       1.527  52.199  50.860  1.00  0.00              
ATOM     79  CA  LEU    79       0.055  52.080  47.372  1.00  0.00              
ATOM     80  CA  ALA    80      -0.822  55.767  47.369  1.00  0.00              
ATOM     81  CA  ALA    81       2.752  56.688  48.444  1.00  0.00              
ATOM     82  CA  ILE    82       4.279  54.375  45.840  1.00  0.00              
ATOM     83  CA  ASN    83       2.199  55.791  42.956  1.00  0.00              
ATOM     84  CA  ALA    84       2.899  59.360  43.852  1.00  0.00              
ATOM     85  CA  TYR    85       6.649  58.714  44.041  1.00  0.00              
ATOM     86  CA  TYR    86       6.735  56.843  40.762  1.00  0.00              
ATOM     87  CA  ASN    87       4.924  59.595  38.908  1.00  0.00              
ATOM     88  CA  ASN    88       7.225  62.303  40.357  1.00  0.00              
ATOM     89  CA  PRO    89      10.403  60.518  39.368  1.00  0.00              
ATOM     90  CA  GLN    90       9.188  59.680  35.817  1.00  0.00              
ATOM     91  CA  VAL    91      10.302  56.113  35.818  1.00  0.00              
ATOM     92  CA  ALA    92       7.750  53.669  34.373  1.00  0.00              
ATOM     93  CA  ARG    93       9.937  50.512  34.128  1.00  0.00              
ATOM     94  CA  GLU    94       8.434  48.234  36.731  1.00  0.00              
ATOM     95  CA  HIS    95      11.388  48.218  39.046  1.00  0.00              
ATOM     96  CA  GLY    96      10.132  50.159  42.231  1.00  0.00              
TER                                                                             
END
