
#######################################################
#                                                     #
#                        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  119 (  119),  selected  119 , name T0382TS168_1-D1
# Molecule2: number of CA atoms  119 (  920),  selected  119 , name T0382_D1.pdb
# PARAMETERS: T0382TS168_1-D1.T0382_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L       4      L       4           -
LGA    D       5      D       5           -
LGA    L       6      L       6           -
LGA    H       7      H       7           -
LGA    Q       8      Q       8           -
LGA    M       9      M       9           -
LGA    T      10      T      10           -
LGA    T      11      T      11           -
LGA    Q      12      Q      12           -
LGA    D      13      D      13           -
LGA    L      14      L      14           -
LGA    V      15      V      15           -
LGA    A      16      A      16           -
LGA    L      17      L      17           -
LGA    F      18      -       -           -
LGA    A      19      -       -           -
LGA    K      20      -       -           -
LGA    V      21      -       -           -
LGA    T      22      -       -           -
LGA    V      23      -       -           -
LGA    E      24      -       -           -
LGA    Q      25      -       -           -
LGA    D      26      -       -           -
LGA    D      27      -       -           -
LGA    A      28      -       -           -
LGA    L      29      -       -           -
LGA    L      30      -       -           -
LGA    G      31      -       -           -
LGA    N      32      -       -           -
LGA    Q      33      -       -           -
LGA    I      34      -       -           -
LGA    S      35      -       -           -
LGA    R      36      -       -           -
LGA    F      37      -       -           -
LGA    N      38      -       -           -
LGA    R      39      -       -           -
LGA    L      40      F      18           #
LGA    F      41      A      19           -
LGA    G      42      K      20           -
LGA    V      43      V      21           -
LGA    -       -      T      22           -
LGA    -       -      V      23           -
LGA    M      44      E      24           #
LGA    A      45      Q      25          5.369
LGA    E      46      D      26          3.962
LGA    I      47      D      27          3.236
LGA    A      48      A      28          1.964
LGA    D      49      L      29          2.226
LGA    E      50      L      30          1.997
LGA    L      51      G      31          3.078
LGA    K      52      N      32          3.477
LGA    A      53      Q      33          1.666
LGA    R      54      I      34          3.578
LGA    -       -      S      35           -
LGA    -       -      R      36           -
LGA    D      55      F      37          2.040
LGA    G      56      N      38           #
LGA    D      57      R      39           #
LGA    Q      58      L      40           #
LGA    R      59      F      41          2.992
LGA    T      60      G      42          2.269
LGA    A      61      V      43          3.911
LGA    L      62      M      44          4.181
LGA    L      63      A      45          2.344
LGA    S      64      E      46          1.335
LGA    L      65      I      47          3.691
LGA    F      66      A      48          4.896
LGA    E      67      D      49          3.789
LGA    Y      68      E      50          2.955
LGA    -       -      L      51           -
LGA    P      69      K      52           #
LGA    N      70      A      53          2.522
LGA    M      71      R      54          2.291
LGA    -       -      D      55           -
LGA    Q      72      G      56          4.787
LGA    V      73      -       -           -
LGA    R      74      -       -           -
LGA    L      75      D      57          3.460
LGA    Q      76      Q      58          2.212
LGA    A      77      -       -           -
LGA    A      78      R      59          2.464
LGA    K      79      T      60          2.421
LGA    L      80      A      61          2.898
LGA    T      81      L      62          2.559
LGA    L      82      L      63           #
LGA    A      83      S      64           #
LGA    V      84      L      65          3.063
LGA    -       -      F      66           -
LGA    -       -      E      67           -
LGA    -       -      Y      68           -
LGA    -       -      P      69           -
LGA    -       -      N      70           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    -       -      V      73           -
LGA    -       -      R      74           -
LGA    -       -      L      75           -
LGA    -       -      Q      76           -
LGA    A      85      A      77          2.387
LGA    P      86      A      78          2.321
LGA    V      87      K      79           -
LGA    K      88      L      80           -
LGA    -       -      T      81           -
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    -       -      A      85           -
LGA    -       -      P      86           -
LGA    -       -      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    -       -      Q      92           -
LGA    -       -      L      93           -
LGA    A      89      E      94           #
LGA    R      90      A      95          2.661
LGA    E      91      I      96          3.776
LGA    Q      92      -       -           -
LGA    L      93      V      97          2.240
LGA    E      94      S      98          3.053
LGA    A      95      S      99          2.520
LGA    I      96      K     100          1.044
LGA    V      97      -       -           -
LGA    S      98      -       -           -
LGA    S      99      W     101           #
LGA    K     100      -       -           -
LGA    W     101      -       -           -
LGA    F     102      -       -           -
LGA    P     103      F     102           #
LGA    Q     104      P     103           -
LGA    A     105      Q     104           -
LGA    G     106      A     105           -
LGA    D     107      -       -           -
LGA    A     108      G     106          4.500
LGA    G     109      D     107          2.554
LGA    M     110      -       -           -
LGA    C     111      A     108          1.650
LGA    L     112      G     109          2.305
LGA    D     113      M     110          2.146
LGA    L     114      C     111          1.074
LGA    L     115      L     112          0.818
LGA    D     116      D     113          2.348
LGA    -       -      L     114           -
LGA    -       -      L     115           -
LGA    D     117      D     116           #
LGA    G     118      -       -           -
LGA    T     119      -       -           -
LGA    F     120      D     117           #
LGA    K     121      G     118           -
LGA    P     122      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    -       -      P     122           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  119  119    5.0     47    2.96    10.64     24.208     1.535

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.557046 * X  +  -0.823869 * Y  +  -0.104598 * Z  + -11.205064
  Y_new =  -0.097913 * X  +   0.190223 * Y  +  -0.976846 * Z  +  50.195057
  Z_new =   0.824690 * X  +  -0.533906 * Y  +  -0.186630 * Z  +   6.344415 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.907076    1.234517  [ DEG:  -109.2674     70.7326 ]
  Theta =  -0.969653   -2.171939  [ DEG:   -55.5570   -124.4429 ]
  Phi   =  -2.967597    0.173995  [ DEG:  -170.0308      9.9692 ]
 
# 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: T0382TS168_1-D1                               
REMARK     2: T0382_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS168_1-D1.T0382_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  119  119   5.0   47   2.96   10.64  24.208
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS168_1-D1
PFRMAT TS
TARGET T0382
MODEL 1
PARENT N/A
ATOM      4  CA  LEU     4       8.224  49.920  12.478  1.00 25.00           C
ATOM      5  CA  ASP     5       5.146  48.074  11.274  1.00 25.00           C
ATOM      6  CA  LEU     6       6.593  48.949   7.838  1.00 25.00           C
ATOM      7  CA  HIS     7       3.569  47.338   6.126  1.00 25.00           C
ATOM      8  CA  GLN     8       1.201  49.335   8.379  1.00 25.00           C
ATOM      9  CA  MET     9       3.076  52.564   7.529  1.00 25.00           C
ATOM     10  CA  THR    10       2.822  51.759   3.794  1.00 25.00           C
ATOM     11  CA  THR    11      -0.936  51.122   4.163  1.00 25.00           C
ATOM     12  CA  GLN    12      -1.348  54.461   5.992  1.00 25.00           C
ATOM     13  CA  ASP    13       0.582  56.251   3.210  1.00 25.00           C
ATOM     14  CA  LEU    14      -1.649  54.602   0.569  1.00 25.00           C
ATOM     15  CA  VAL    15      -4.775  55.697   2.489  1.00 25.00           C
ATOM     16  CA  ALA    16      -3.430  59.278   2.685  1.00 25.00           C
ATOM     17  CA  LEU    17      -2.742  59.252  -1.081  1.00 25.00           C
ATOM     18  CA  PHE    18      -6.297  57.993  -1.747  1.00 25.00           C
ATOM     19  CA  ALA    19      -7.722  60.769   0.473  1.00 25.00           C
ATOM     20  CA  LYS    20      -5.644  63.377  -1.410  1.00 25.00           C
ATOM     21  CA  VAL    21      -6.912  62.008  -4.755  1.00 25.00           C
ATOM     22  CA  THR    22      -8.591  64.995  -6.469  1.00 25.00           C
ATOM     23  CA  VAL    23     -11.421  67.082  -7.964  1.00 25.00           C
ATOM     24  CA  GLU    24     -13.295  67.442  -4.643  1.00 25.00           C
ATOM     25  CA  GLN    25     -15.788  64.745  -5.730  1.00 25.00           C
ATOM     26  CA  ASP    26     -12.897  62.421  -6.683  1.00 25.00           C
ATOM     27  CA  ASP    27     -11.256  63.025  -3.275  1.00 25.00           C
ATOM     28  CA  ALA    28     -14.565  62.238  -1.515  1.00 25.00           C
ATOM     29  CA  LEU    29     -14.904  59.007  -3.544  1.00 25.00           C
ATOM     30  CA  LEU    30     -11.326  58.016  -2.609  1.00 25.00           C
ATOM     31  CA  GLY    31     -12.077  58.690   1.086  1.00 25.00           C
ATOM     32  CA  ASN    32     -15.243  56.547   0.858  1.00 25.00           C
ATOM     33  CA  GLN    33     -13.240  53.717  -0.767  1.00 25.00           C
ATOM     34  CA  ILE    34     -10.617  53.941   2.015  1.00 25.00           C
ATOM     35  CA  SER    35     -13.379  53.793   4.664  1.00 25.00           C
ATOM     36  CA  ARG    36     -14.890  50.719   2.952  1.00 25.00           C
ATOM     37  CA  PHE    37     -11.452  49.034   2.887  1.00 25.00           C
ATOM     38  CA  ASN    38     -10.983  49.794   6.612  1.00 25.00           C
ATOM     39  CA  ARG    39     -14.432  48.314   7.373  1.00 25.00           C
ATOM     40  CA  LEU    40     -13.551  45.168   5.375  1.00 25.00           C
ATOM     41  CA  PHE    41     -10.256  44.840   7.298  1.00 25.00           C
ATOM     42  CA  GLY    42     -12.129  45.199  10.619  1.00 25.00           C
ATOM     43  CA  VAL    43     -14.622  42.502   9.532  1.00 25.00           C
ATOM     44  CA  MET    44     -11.731  40.179   8.579  1.00 25.00           C
ATOM     45  CA  ALA    45     -10.090  40.782  11.987  1.00 25.00           C
ATOM     46  CA  GLU    46     -13.400  39.996  13.747  1.00 25.00           C
ATOM     47  CA  ILE    47     -13.738  36.765  11.719  1.00 25.00           C
ATOM     48  CA  ALA    48     -10.159  35.773  12.653  1.00 25.00           C
ATOM     49  CA  ASP    49     -10.911  36.448  16.348  1.00 25.00           C
ATOM     50  CA  GLU    50     -14.077  34.305  16.119  1.00 25.00           C
ATOM     51  CA  LEU    51     -12.074  31.474  14.495  1.00 25.00           C
ATOM     52  CA  LYS    52      -9.451  31.700  17.277  1.00 25.00           C
ATOM     53  CA  ALA    53      -6.825  33.142  14.842  1.00 25.00           C
ATOM     54  CA  ARG    54      -5.765  33.824  11.245  1.00 25.00           C
ATOM     55  CA  ASP    55      -7.416  35.386   8.191  1.00 25.00           C
ATOM     56  CA  GLY    56      -7.912  34.190   4.637  1.00 25.00           C
ATOM     57  CA  ASP    57      -9.638  36.977   2.680  1.00 25.00           C
ATOM     58  CA  GLN    58     -10.649  40.611   3.045  1.00 25.00           C
ATOM     59  CA  ARG    59      -7.566  42.881   3.130  1.00 25.00           C
ATOM     60  CA  THR    60      -5.829  40.658   0.539  1.00 25.00           C
ATOM     61  CA  ALA    61      -8.930  40.806  -1.703  1.00 25.00           C
ATOM     62  CA  LEU    62      -9.004  44.622  -1.392  1.00 25.00           C
ATOM     63  CA  LEU    63      -5.291  44.795  -2.315  1.00 25.00           C
ATOM     64  CA  SER    64      -5.920  42.563  -5.363  1.00 25.00           C
ATOM     65  CA  LEU    65      -8.829  44.810  -6.438  1.00 25.00           C
ATOM     66  CA  PHE    66      -6.604  47.906  -6.074  1.00 25.00           C
ATOM     67  CA  GLU    67      -3.883  46.229  -8.183  1.00 25.00           C
ATOM     68  CA  TYR    68      -5.676  43.868 -10.594  1.00 25.00           C
ATOM     69  CA  PRO    69      -6.934  46.708 -12.872  1.00 25.00           C
ATOM     70  CA  ASN    70      -9.874  48.783 -14.211  1.00 25.00           C
ATOM     71  CA  MET    71     -11.482  45.782 -15.928  1.00 25.00           C
ATOM     72  CA  GLN    72     -14.902  47.473 -15.590  1.00 25.00           C
ATOM     73  CA  VAL    73     -16.372  44.261 -14.111  1.00 25.00           C
ATOM     74  CA  ARG    74     -13.474  44.053 -11.616  1.00 25.00           C
ATOM     75  CA  LEU    75     -14.042  47.706 -10.616  1.00 25.00           C
ATOM     76  CA  GLN    76     -17.775  47.013 -10.112  1.00 25.00           C
ATOM     77  CA  ALA    77     -16.942  43.969  -7.941  1.00 25.00           C
ATOM     78  CA  ALA    78     -14.530  46.088  -5.853  1.00 25.00           C
ATOM     79  CA  LYS    79     -17.232  48.765  -5.402  1.00 25.00           C
ATOM     80  CA  LEU    80     -19.737  46.084  -4.301  1.00 25.00           C
ATOM     81  CA  THR    81     -17.196  44.707  -1.788  1.00 25.00           C
ATOM     82  CA  LEU    82     -16.606  48.233  -0.415  1.00 25.00           C
ATOM     83  CA  ALA    83     -20.383  48.755  -0.059  1.00 25.00           C
ATOM     84  CA  VAL    84     -20.693  45.416   1.791  1.00 25.00           C
ATOM     85  CA  ALA    85     -17.840  46.422   4.139  1.00 25.00           C
ATOM     86  CA  PRO    86     -19.552  49.780   4.819  1.00 25.00           C
ATOM     87  CA  VAL    87     -22.843  47.975   5.582  1.00 25.00           C
ATOM     88  CA  LYS    88     -21.019  45.613   7.982  1.00 25.00           C
ATOM     89  CA  ALA    89     -19.393  48.606   9.733  1.00 25.00           C
ATOM     90  CA  ARG    90     -22.813  50.297  10.070  1.00 25.00           C
ATOM     91  CA  GLU    91     -24.283  47.085  11.549  1.00 25.00           C
ATOM     92  CA  GLN    92     -21.385  46.877  14.044  1.00 25.00           C
ATOM     93  CA  LEU    93     -21.952  50.530  15.045  1.00 25.00           C
ATOM     94  CA  GLU    94     -25.686  49.837  15.548  1.00 25.00           C
ATOM     95  CA  ALA    95     -24.853  46.793  17.719  1.00 25.00           C
ATOM     96  CA  ILE    96     -22.441  48.912  19.807  1.00 25.00           C
ATOM     97  CA  VAL    97     -25.143  51.587  20.258  1.00 25.00           C
ATOM     98  CA  SER    98     -27.648  48.908  21.359  1.00 25.00           C
ATOM     99  CA  SER    99     -25.107  47.531  23.873  1.00 25.00           C
ATOM    100  CA  LYS   100     -22.738  48.054  26.852  1.00 25.00           C
ATOM    101  CA  TRP   101     -19.983  45.564  26.026  1.00 25.00           C
ATOM    102  CA  PHE   102     -17.720  46.460  23.094  1.00 25.00           C
ATOM    103  CA  PRO   103     -15.616  48.357  25.590  1.00 25.00           C
ATOM    104  CA  GLN   104     -13.613  50.157  28.218  1.00 25.00           C
ATOM    105  CA  ALA   105     -10.609  50.691  25.970  1.00 25.00           C
ATOM    106  CA  GLY   106      -6.934  50.824  25.137  1.00 25.00           C
ATOM    107  CA  ASP   107      -8.190  51.638  21.597  1.00 25.00           C
ATOM    108  CA  ALA   108     -10.113  51.609  18.275  1.00 25.00           C
ATOM    109  CA  GLY   109     -10.512  49.881  14.909  1.00 25.00           C
ATOM    110  CA  MET   110     -10.333  50.476  11.131  1.00 25.00           C
ATOM    111  CA  CYS   111     -13.961  51.702  11.127  1.00 25.00           C
ATOM    112  CA  LEU   112     -13.188  54.076  14.031  1.00 25.00           C
ATOM    113  CA  ASP   113     -10.136  55.422  12.149  1.00 25.00           C
ATOM    114  CA  LEU   114     -12.277  55.976   9.023  1.00 25.00           C
ATOM    115  CA  LEU   115     -14.894  57.834  11.114  1.00 25.00           C
ATOM    116  CA  ASP   116     -14.621  61.122  13.062  1.00 25.00           C
ATOM    117  CA  ASP   117     -16.573  63.737  15.029  1.00 25.00           C
ATOM    118  CA  GLY   118     -17.544  67.280  15.904  1.00 25.00           C
ATOM    119  CA  THR   119     -15.072  69.186  18.166  1.00 25.00           C
ATOM    120  CA  PHE   120     -11.620  69.344  16.593  1.00 25.00           C
ATOM    121  CA  LYS   121     -10.148  70.081  20.026  1.00 25.00           C
ATOM    122  CA  PRO   122      -6.338  70.453  19.569  1.00 25.00           C
TER
END
