
#######################################################
#                                                     #
#                        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  103 (  103),  selected  103 , name T0314TS599_4-D1
# Molecule2: number of CA atoms  103 ( 1643),  selected  103 , name T0314_D1.pdb
# PARAMETERS: T0314TS599_4-D1.T0314_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    S       2      S       2           -
LGA    -       -      I       3           -
LGA    -       -      T       4           -
LGA    -       -      S       5           -
LGA    -       -      T       6           -
LGA    -       -      D       7           -
LGA    I       3      I       8           #
LGA    T       4      C       9          2.844
LGA    S       5      -       -           -
LGA    T       6      Q      10          2.786
LGA    D       7      A      11          3.942
LGA    I       8      A      12          3.506
LGA    C       9      D      13          2.951
LGA    Q      10      A      14          2.864
LGA    A      11      L      15          3.267
LGA    A      12      -       -           -
LGA    D      13      K      16          1.007
LGA    A      14      -       -           -
LGA    L      15      G      17          4.575
LGA    K      16      F      18          2.993
LGA    G      17      -       -           -
LGA    F      18      -       -           -
LGA    V      19      V      19           #
LGA    G      20      G      20           -
LGA    F      21      F      21           #
LGA    N      22      N      22           #
LGA    R      23      -       -           -
LGA    K      24      -       -           -
LGA    T      25      R      23          2.568
LGA    G      26      K      24          1.319
LGA    R      27      T      25          4.407
LGA    Y      28      -       -           -
LGA    I      29      -       -           -
LGA    V      30      -       -           -
LGA    R      31      -       -           -
LGA    F      32      -       -           -
LGA    S      33      -       -           -
LGA    E      34      -       -           -
LGA    D      35      -       -           -
LGA    S      36      -       -           -
LGA    F      37      -       -           -
LGA    G      38      -       -           -
LGA    M      39      -       -           -
LGA    D      40      -       -           -
LGA    V      41      -       -           -
LGA    A      42      -       -           -
LGA    D      43      -       -           -
LGA    D      44      -       -           -
LGA    S      45      -       -           -
LGA    I      46      -       -           -
LGA    T      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      G      26          4.557
LGA    S      50      R      27          2.654
LGA    E      51      Y      28          0.612
LGA    F      52      I      29          4.188
LGA    V      53      V      30           #
LGA    -       -      R      31           -
LGA    -       -      F      32           -
LGA    -       -      S      33           -
LGA    -       -      E      34           -
LGA    W      54      D      35           #
LGA    S      55      S      36          1.023
LGA    S      56      F      37          3.964
LGA    V      57      -       -           -
LGA    R      58      -       -           -
LGA    D      59      -       -           -
LGA    D      60      G      38           #
LGA    V      61      M      39           -
LGA    M      62      D      40           -
LGA    R      63      V      41           -
LGA    L      64      A      42           -
LGA    G      65      D      43           -
LGA    R      66      D      44           -
LGA    E      67      S      45           -
LGA    Q      68      I      46           -
LGA    L      69      T      47           -
LGA    Q      70      -       -           -
LGA    I      71      -       -           -
LGA    L      72      -       -           -
LGA    L      73      P      48          4.870
LGA    E      74      T      49           -
LGA    Q      75      -       -           -
LGA    N      76      S      50           #
LGA    I      77      E      51          1.446
LGA    N      78      -       -           -
LGA    E      79      F      52           #
LGA    R      80      V      53           #
LGA    L      81      W      54          2.820
LGA    N      82      S      55          2.343
LGA    -       -      S      56           -
LGA    -       -      V      57           -
LGA    -       -      R      58           -
LGA    -       -      D      59           -
LGA    -       -      D      60           -
LGA    -       -      V      61           -
LGA    -       -      M      62           -
LGA    I      83      R      63          3.131
LGA    G      84      L      64          5.610
LGA    E      85      -       -           -
LGA    P      86      -       -           -
LGA    L      87      -       -           -
LGA    L      88      -       -           -
LGA    V      89      -       -           -
LGA    Y      90      G      65          3.543
LGA    L      91      R      66          2.376
LGA    R      92      E      67          5.893
LGA    R      93      Q      68           #
LGA    Q      94      L      69          2.755
LGA    D      95      Q      70          3.554
LGA    L      96      I      71           #
LGA    -       -      L      72           -
LGA    P      97      L      73          1.384
LGA    E      98      E      74          5.126
LGA    I      99      Q      75           #
LGA    T     100      -       -           -
LGA    A     101      N      76          1.590
LGA    Q     102      I      77          2.462
LGA    R     103      N      78           #
LGA    -       -      E      79           -
LGA    -       -      R      80           -
LGA    -       -      L      81           -
LGA    -       -      N      82           -
LGA    -       -      I      83           -
LGA    -       -      G      84           -
LGA    -       -      E      85           -
LGA    -       -      P      86           -
LGA    -       -      L      87           -
LGA    -       -      L      88           -
LGA    -       -      V      89           -
LGA    -       -      Y      90           -
LGA    -       -      L      91           -
LGA    -       -      R      92           -
LGA    -       -      R      93           -
LGA    -       -      Q      94           -
LGA    -       -      D      95           -
LGA    -       -      L      96           -
LGA    -       -      P      97           -
LGA    -       -      E      98           -
LGA    -       -      I      99           -
LGA    -       -      T     100           -
LGA    -       -      A     101           -
LGA    -       -      Q     102           -
LGA    -       -      R     103           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  103  103    5.0     34    3.36     5.88     20.471     0.984

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.427814 * X  +   0.888290 * Y  +   0.167084 * Z  +  21.417969
  Y_new =  -0.597337 * X  +  -0.416589 * Y  +   0.685304 * Z  +   4.526951
  Z_new =   0.678354 * X  +   0.193377 * Y  +   0.708831 * Z  + -15.512926 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.266331   -2.875262  [ DEG:    15.2596   -164.7404 ]
  Theta =  -0.745520   -2.396072  [ DEG:   -42.7152   -137.2848 ]
  Phi   =  -2.192313    0.949279  [ DEG:  -125.6103     54.3897 ]
 
# 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: T0314TS599_4-D1                               
REMARK     2: T0314_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS599_4-D1.T0314_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  103  103   5.0   34   3.36    5.88  20.471
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS599_4-D1
PFRMAT TS                                                                       
TARGET T0314                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       1.928  10.066 -17.539  1.00  0.00              
ATOM      2  CA  SER     2       4.303  12.623 -16.446  1.00  0.00              
ATOM      3  CA  ILE     3       7.192  11.585 -13.641  1.00  0.00              
ATOM      4  CA  THR     4       8.295  13.769 -11.017  1.00  0.00              
ATOM      5  CA  SER     5      11.950  14.844 -11.143  1.00  0.00              
ATOM      6  CA  THR     6      12.774  12.819  -8.090  1.00  0.00              
ATOM      7  CA  ASP     7      11.422   9.590  -9.446  1.00  0.00              
ATOM      8  CA  ILE     8      13.333   9.869 -12.750  1.00  0.00              
ATOM      9  CA  CYS     9      16.618  10.683 -11.183  1.00  0.00              
ATOM     10  CA  GLN    10      16.403   7.779  -8.770  1.00  0.00              
ATOM     11  CA  ALA    11      15.501   5.282 -11.479  1.00  0.00              
ATOM     12  CA  ALA    12      18.393   6.486 -13.657  1.00  0.00              
ATOM     13  CA  ASP    13      20.917   6.231 -10.846  1.00  0.00              
ATOM     14  CA  ALA    14      19.870   2.661  -9.939  1.00  0.00              
ATOM     15  CA  LEU    15      20.066   1.535 -13.590  1.00  0.00              
ATOM     16  CA  LYS    16      23.493   3.045 -13.994  1.00  0.00              
ATOM     17  CA  GLY    17      24.917   1.441 -10.879  1.00  0.00              
ATOM     18  CA  PHE    18      23.798  -1.892 -12.205  1.00  0.00              
ATOM     19  CA  VAL    19      24.609  -2.290 -15.852  1.00  0.00              
ATOM     20  CA  GLY    20      22.596  -4.793 -17.966  1.00  0.00              
ATOM     21  CA  PHE    21      24.310  -6.764 -20.620  1.00  0.00              
ATOM     22  CA  ASN    22      22.656  -7.702 -23.851  1.00  0.00              
ATOM     23  CA  ARG    23      23.703 -10.957 -25.357  1.00  0.00              
ATOM     24  CA  LYS    24      24.154  -9.964 -29.022  1.00  0.00              
ATOM     25  CA  THR    25      27.080  -7.561 -28.555  1.00  0.00              
ATOM     26  CA  GLY    26      28.732  -9.048 -25.491  1.00  0.00              
ATOM     27  CA  ARG    27      27.737  -6.462 -23.053  1.00  0.00              
ATOM     28  CA  TYR    28      29.890  -5.334 -20.129  1.00  0.00              
ATOM     29  CA  ILE    29      28.253  -4.021 -17.066  1.00  0.00              
ATOM     30  CA  VAL    30      30.112  -1.615 -14.822  1.00  0.00              
ATOM     31  CA  ARG    31      29.166  -1.125 -11.216  1.00  0.00              
ATOM     32  CA  PHE    32      29.941   2.161  -9.424  1.00  0.00              
ATOM     33  CA  SER    33      28.961   1.770  -5.825  1.00  0.00              
ATOM     34  CA  GLU    34      27.231   4.943  -4.514  1.00  0.00              
ATOM     35  CA  ASP    35      30.298   6.293  -2.700  1.00  0.00              
ATOM     36  CA  SER    36      32.739   5.685  -5.568  1.00  0.00              
ATOM     37  CA  PHE    37      30.715   7.160  -8.411  1.00  0.00              
ATOM     38  CA  GLY    38      32.540   6.988 -11.680  1.00  0.00              
ATOM     39  CA  MET    39      31.399   9.163 -14.599  1.00  0.00              
ATOM     40  CA  ASP    40      33.096   8.911 -18.009  1.00  0.00              
ATOM     41  CA  VAL    41      30.738   9.111 -20.907  1.00  0.00              
ATOM     42  CA  ALA    42      32.610   8.002 -24.083  1.00  0.00              
ATOM     43  CA  ASP    43      30.429   7.121 -27.043  1.00  0.00              
ATOM     44  CA  ASP    44      31.445   3.527 -27.587  1.00  0.00              
ATOM     45  CA  SER    45      31.309   2.739 -23.916  1.00  0.00              
ATOM     46  CA  ILE    46      27.606   3.488 -23.576  1.00  0.00              
ATOM     47  CA  THR    47      25.884   1.495 -26.245  1.00  0.00              
ATOM     48  CA  PRO    48      22.105   1.023 -26.593  1.00  0.00              
ATOM     49  CA  THR    49      21.670  -2.619 -27.607  1.00  0.00              
ATOM     50  CA  SER    50      19.013  -3.646 -25.055  1.00  0.00              
ATOM     51  CA  GLU    51      21.001  -2.107 -22.275  1.00  0.00              
ATOM     52  CA  PHE    52      24.597  -2.500 -22.678  1.00  0.00              
ATOM     53  CA  VAL    53      26.964  -0.730 -20.424  1.00  0.00              
ATOM     54  CA  TRP    54      30.546  -0.639 -21.498  1.00  0.00              
ATOM     55  CA  SER    55      33.190   0.317 -19.147  1.00  0.00              
ATOM     56  CA  SER    56      36.220   2.129 -20.635  1.00  0.00              
ATOM     57  CA  VAL    57      38.139   3.004 -17.493  1.00  0.00              
ATOM     58  CA  ARG    58      41.626   3.785 -18.679  1.00  0.00              
ATOM     59  CA  ASP    59      41.173   5.055 -22.224  1.00  0.00              
ATOM     60  CA  ASP    60      38.143   7.250 -21.904  1.00  0.00              
ATOM     61  CA  VAL    61      38.402   8.804 -18.391  1.00  0.00              
ATOM     62  CA  MET    62      36.248   7.932 -15.447  1.00  0.00              
ATOM     63  CA  ARG    63      35.936  11.171 -13.555  1.00  0.00              
ATOM     64  CA  LEU    64      34.330  10.993 -10.070  1.00  0.00              
ATOM     65  CA  GLY    65      33.874  13.743  -7.551  1.00  0.00              
ATOM     66  CA  ARG    66      30.491  13.517  -5.787  1.00  0.00              
ATOM     67  CA  GLU    67      29.168  16.847  -6.975  1.00  0.00              
ATOM     68  CA  GLN    68      30.127  15.967 -10.534  1.00  0.00              
ATOM     69  CA  LEU    69      28.398  12.541 -10.361  1.00  0.00              
ATOM     70  CA  GLN    70      25.240  14.259  -9.076  1.00  0.00              
ATOM     71  CA  ILE    71      25.543  16.754 -11.984  1.00  0.00              
ATOM     72  CA  LEU    72      26.136  14.054 -14.618  1.00  0.00              
ATOM     73  CA  LEU    73      23.011  12.220 -13.369  1.00  0.00              
ATOM     74  CA  GLU    74      20.518  15.082 -12.924  1.00  0.00              
ATOM     75  CA  GLN    75      21.018  16.698 -16.290  1.00  0.00              
ATOM     76  CA  ASN    76      21.009  13.509 -18.342  1.00  0.00              
ATOM     77  CA  ILE    77      18.213  11.319 -17.080  1.00  0.00              
ATOM     78  CA  ASN    78      15.603  13.977 -16.567  1.00  0.00              
ATOM     79  CA  GLU    79      16.136  15.441 -19.942  1.00  0.00              
ATOM     80  CA  ARG    80      16.311  12.193 -22.000  1.00  0.00              
ATOM     81  CA  LEU    81      12.812  11.367 -20.706  1.00  0.00              
ATOM     82  CA  ASN    82      10.847  14.558 -19.873  1.00  0.00              
ATOM     83  CA  ILE    83       9.169  13.835 -16.610  1.00  0.00              
ATOM     84  CA  GLY    84       8.174  16.861 -14.590  1.00  0.00              
ATOM     85  CA  GLU    85       4.912  15.945 -13.016  1.00  0.00              
ATOM     86  CA  PRO    86       3.821  12.928 -11.058  1.00  0.00              
ATOM     87  CA  LEU    87       2.457  10.336 -13.393  1.00  0.00              
ATOM     88  CA  LEU    88       1.681   6.752 -12.798  1.00  0.00              
ATOM     89  CA  VAL    89       1.453   5.394 -16.391  1.00  0.00              
ATOM     90  CA  TYR    90       4.810   7.115 -17.267  1.00  0.00              
ATOM     91  CA  LEU    91       6.415   5.584 -14.127  1.00  0.00              
ATOM     92  CA  ARG    92       5.017   2.052 -13.983  1.00  0.00              
ATOM     93  CA  ARG    93       5.531   0.941 -17.587  1.00  0.00              
ATOM     94  CA  GLN    94       9.081   2.205 -17.799  1.00  0.00              
ATOM     95  CA  ASP    95      10.430   0.691 -14.580  1.00  0.00              
ATOM     96  CA  LEU    96       9.389  -2.922 -14.892  1.00  0.00              
ATOM     97  CA  PRO    97      12.650  -4.470 -16.015  1.00  0.00              
ATOM     98  CA  GLU    98      14.562  -2.734 -13.194  1.00  0.00              
ATOM     99  CA  ILE    99      12.107  -3.855 -10.486  1.00  0.00              
ATOM    100  CA  THR   100      12.249  -7.474 -11.729  1.00  0.00              
ATOM    101  CA  ALA   101      16.078  -7.551 -11.738  1.00  0.00              
ATOM    102  CA  GLN   102      16.506  -6.164  -8.229  1.00  0.00              
ATOM    103  CA  ARG   103      14.061  -8.605  -6.578  1.00  0.00              
TER                                                                             
END
