
#######################################################
#                                                     #
#                        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   32 (  128),  selected   32 , name T0347TS383_4-D1
# Molecule2: number of CA atoms   89 (  730),  selected   89 , name T0347_D1.pdb
# PARAMETERS: T0347TS383_4-D1.T0347_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      P       7           -
LGA    -       -      R       8           -
LGA    -       -      L       9           -
LGA    -       -      S      10           -
LGA    -       -      R      11           -
LGA    H      51      I      12          2.543
LGA    -       -      A      13           -
LGA    -       -      I      14           -
LGA    -       -      D      15           -
LGA    -       -      K      16           -
LGA    -       -      L      17           -
LGA    I      52      R      18          1.612
LGA    V      53      P      19          3.924
LGA    P      54      T      20          2.148
LGA    -       -      Q      21           -
LGA    V      55      I      22          3.255
LGA    V      56      A      23          2.079
LGA    A      57      V      24          1.944
LGA    G      58      G      25          0.501
LGA    P      59      F      26          4.317
LGA    K      60      R      27          1.116
LGA    -       -      E      28           -
LGA    -       -      V      29           -
LGA    D      61      E      30          5.258
LGA    -       -      L      31           -
LGA    R      62      K      32           #
LGA    A      63      R      33           -
LGA    Y      64      K      34           -
LGA    L      65      E      35           -
LGA    -       -      W      36           -
LGA    -       -      R      37           -
LGA    -       -      H      51           -
LGA    -       -      I      52           -
LGA    -       -      V      53           -
LGA    I      66      P      54           #
LGA    D      67      V      55          4.849
LGA    G      79      V      56          4.044
LGA    -       -      A      57           -
LGA    -       -      G      58           -
LGA    -       -      P      59           -
LGA    -       -      K      60           -
LGA    -       -      D      61           -
LGA    -       -      R      62           -
LGA    -       -      A      63           -
LGA    V      80      Y      64          4.740
LGA    E      81      -       -           -
LGA    H      82      -       -           -
LGA    V      83      L      65           #
LGA    L      84      I      66          3.585
LGA    T      85      D      67          2.291
LGA    -       -      H      68           -
LGA    S      86      H      69          4.027
LGA    E      87      H      70          3.554
LGA    -       -      L      71           -
LGA    -       -      V      72           -
LGA    V      88      L      73          1.726
LGA    A      89      A      74          1.428
LGA    G      95      L      75          2.252
LGA    -       -      S      76           -
LGA    -       -      K      77           -
LGA    -       -      E      78           -
LGA    -       -      G      79           -
LGA    -       -      V      80           -
LGA    -       -      E      81           -
LGA    -       -      H      82           -
LGA    K      96      V      83          6.394
LGA    D      97      L      84           -
LGA    E      98      T      85           #
LGA    -       -      S      86           -
LGA    -       -      E      87           -
LGA    -       -      V      88           -
LGA    -       -      A      89           -
LGA    -       -      K      90           -
LGA    -       -      F      91           -
LGA    -       -      S      92           -
LGA    -       -      H      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      K      96           -
LGA    -       -      D      97           -
LGA    -       -      E      98           -
LGA    -       -      F      99           -
LGA    -       -      W     100           -
LGA    -       -      S     101           -
LGA    -       -      V     102           -
LGA    -       -      M     103           -
LGA    -       -      D     104           -
LGA    -       -      H     105           -
LGA    -       -      R     106           -
LGA    -       -      N     107           -
LGA    -       -      L     108           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   32   89    5.0     22    3.41     9.09     14.869     0.627

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.574140 * X  +  -0.756921 * Y  +  -0.312144 * Z  +  13.563876
  Y_new =   0.451193 * X  +   0.610627 * Y  +  -0.650815 * Z  +  65.164864
  Z_new =   0.683219 * X  +   0.232821 * Y  +   0.692103 * Z  + -41.123737 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.324505   -2.817088  [ DEG:    18.5928   -161.4072 ]
  Theta =  -0.752162   -2.389431  [ DEG:   -43.0957   -136.9043 ]
  Phi   =   0.666059   -2.475533  [ DEG:    38.1624   -141.8376 ]
 
# 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: T0347TS383_4-D1                               
REMARK     2: T0347_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0347TS383_4-D1.T0347_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   32   89   5.0   22   3.41    9.09  14.869
REMARK  ---------------------------------------------------------- 
MOLECULE T0347TS383_4-D1
PFRMAT TS
TARGET T0347
MODEL 4
PARENT 1rwiB
ATOM     29  N   HIS    51       3.634  31.036 -12.142  1.00  0.00
ATOM     30  CA  HIS    51       3.268  30.668 -10.777  1.00  0.00
ATOM     31  C   HIS    51       2.103  31.504 -10.257  1.00  0.00
ATOM     32  O   HIS    51       1.856  32.606 -10.744  1.00  0.00
ATOM     33  N   ILE    52      -0.053  37.015  -3.338  1.00  0.00
ATOM     34  CA  ILE    52       0.572  38.218  -2.787  1.00  0.00
ATOM     35  C   ILE    52       0.496  38.249  -1.258  1.00  0.00
ATOM     36  O   ILE    52      -0.575  37.994  -0.746  1.00  0.00
ATOM     37  N   VAL    53       1.583  38.588  -0.577  1.00  0.00
ATOM     38  CA  VAL    53       1.585  38.755   0.881  1.00  0.00
ATOM     39  C   VAL    53       2.057  40.128   1.335  1.00  0.00
ATOM     40  O   VAL    53       2.002  40.434   2.511  1.00  0.00
ATOM     41  N   PRO    54       2.521  40.942   0.400  1.00  0.00
ATOM     42  CA  PRO    54       3.080  42.242   0.694  1.00  0.00
ATOM     43  C   PRO    54       3.073  43.047  -0.600  1.00  0.00
ATOM     44  O   PRO    54       3.106  42.474  -1.677  1.00  0.00
ATOM     45  N   VAL    55       2.973  44.370  -0.470  1.00  0.00
ATOM     46  CA  VAL    55       2.962  45.285  -1.619  1.00  0.00
ATOM     47  C   VAL    55       3.716  46.558  -1.272  1.00  0.00
ATOM     48  O   VAL    55       3.624  47.068  -0.159  1.00  0.00
ATOM     49  N   VAL    56       4.451  47.073  -2.255  1.00  0.00
ATOM     50  CA  VAL    56       5.206  48.295  -2.101  1.00  0.00
ATOM     51  C   VAL    56       5.312  49.004  -3.454  1.00  0.00
ATOM     52  O   VAL    56       5.272  48.386  -4.504  1.00  0.00
ATOM     53  N   ALA    57       5.427  50.312  -3.388  1.00  0.00
ATOM     54  CA  ALA    57       5.524  51.173  -4.555  1.00  0.00
ATOM     55  C   ALA    57       6.672  52.164  -4.347  1.00  0.00
ATOM     56  O   ALA    57       6.765  52.795  -3.309  1.00  0.00
ATOM     57  N   GLY    58       7.567  52.278  -5.333  1.00  0.00
ATOM     58  CA  GLY    58       8.701  53.186  -5.272  1.00  0.00
ATOM     59  C   GLY    58       8.373  54.524  -5.934  1.00  0.00
ATOM     60  O   GLY    58       7.255  54.727  -6.401  1.00  0.00
ATOM     61  N   PRO    59       9.375  55.410  -5.922  1.00  0.00
ATOM     62  CA  PRO    59       9.371  56.739  -6.568  1.00  0.00
ATOM     63  C   PRO    59       8.736  56.797  -7.936  1.00  0.00
ATOM     64  O   PRO    59       7.990  57.743  -8.225  1.00  0.00
ATOM     65  N   LYS    60       9.067  55.813  -8.770  1.00  0.00
ATOM     66  CA  LYS    60       8.706  55.749 -10.180  1.00  0.00
ATOM     67  C   LYS    60       7.419  55.014 -10.489  1.00  0.00
ATOM     68  O   LYS    60       7.142  54.746 -11.660  1.00  0.00
ATOM     69  N   ASP    61       6.642  54.653  -9.465  1.00  0.00
ATOM     70  CA  ASP    61       5.439  53.864  -9.663  1.00  0.00
ATOM     71  C   ASP    61       5.606  52.393 -10.006  1.00  0.00
ATOM     72  O   ASP    61       4.638  51.765 -10.421  1.00  0.00
ATOM     73  N   ARG    62       6.815  51.846  -9.871  1.00  0.00
ATOM     74  CA  ARG    62       7.017  50.402 -10.014  1.00  0.00
ATOM     75  C   ARG    62       6.298  49.717  -8.835  1.00  0.00
ATOM     76  O   ARG    62       6.386  50.204  -7.769  1.00  0.00
ATOM     77  N   ALA    63       5.610  48.610  -9.023  1.00  0.00
ATOM     78  CA  ALA    63       4.908  47.954  -7.902  1.00  0.00
ATOM     79  C   ALA    63       5.616  46.624  -7.588  1.00  0.00
ATOM     80  O   ALA    63       5.897  45.858  -8.486  1.00  0.00
ATOM     81  N   TYR    64       5.918  46.395  -6.316  1.00  0.00
ATOM     82  CA  TYR    64       6.636  45.205  -5.884  1.00  0.00
ATOM     83  C   TYR    64       5.691  44.403  -4.982  1.00  0.00
ATOM     84  O   TYR    64       5.037  44.966  -4.091  1.00  0.00
ATOM     85  N   LEU    65       5.645  43.095  -5.214  1.00  0.00
ATOM     86  CA  LEU    65       4.790  42.191  -4.465  1.00  0.00
ATOM     87  C   LEU    65       5.640  40.980  -4.009  1.00  0.00
ATOM     88  O   LEU    65       6.416  40.439  -4.793  1.00  0.00
ATOM     89  N   ILE    66       5.498  40.582  -2.752  1.00  0.00
ATOM     90  CA  ILE    66       5.996  39.282  -2.305  1.00  0.00
ATOM     91  C   ILE    66       4.994  38.215  -2.701  1.00  0.00
ATOM     92  O   ILE    66       3.797  38.370  -2.514  1.00  0.00
ATOM     93  N   ASP    67       5.502  37.126  -3.254  1.00  0.00
ATOM     94  CA  ASP    67       4.712  36.019  -3.730  1.00  0.00
ATOM     95  C   ASP    67       4.989  34.871  -2.775  1.00  0.00
ATOM     96  O   ASP    67       6.093  34.334  -2.741  1.00  0.00
ATOM     97  N   GLY    79       3.976  34.541  -1.991  1.00  0.00
ATOM     98  CA  GLY    79       4.111  33.672  -0.836  1.00  0.00
ATOM     99  C   GLY    79       3.898  32.222  -1.224  1.00  0.00
ATOM    100  O   GLY    79       2.768  31.773  -1.426  1.00  0.00
ATOM    101  N   VAL    80       5.001  31.509  -1.382  1.00  0.00
ATOM    102  CA  VAL    80       4.994  30.065  -1.517  1.00  0.00
ATOM    103  C   VAL    80       6.224  29.473  -0.851  1.00  0.00
ATOM    104  O   VAL    80       7.122  30.200  -0.386  1.00  0.00
ATOM    105  N   GLU    81       6.281  28.150  -0.790  1.00  0.00
ATOM    106  CA  GLU    81       7.491  27.457  -0.243  1.00  0.00
ATOM    107  C   GLU    81       8.713  27.989  -1.033  1.00  0.00
ATOM    108  O   GLU    81       9.749  28.365  -0.462  1.00  0.00
ATOM    109  N   HIS    82       8.526  28.008  -2.362  1.00  0.00
ATOM    110  CA  HIS    82       9.374  28.848  -3.221  1.00  0.00
ATOM    111  C   HIS    82       8.933  30.332  -3.210  1.00  0.00
ATOM    112  O   HIS    82       7.978  30.713  -3.861  1.00  0.00
ATOM    113  N   VAL    83       9.659  31.179  -2.500  1.00  0.00
ATOM    114  CA  VAL    83       9.285  32.578  -2.395  1.00  0.00
ATOM    115  C   VAL    83       9.826  33.429  -3.531  1.00  0.00
ATOM    116  O   VAL    83      10.938  33.200  -4.039  1.00  0.00
ATOM    117  N   LEU    84       9.060  34.443  -3.914  1.00  0.00
ATOM    118  CA  LEU    84       9.528  35.417  -4.899  1.00  0.00
ATOM    119  C   LEU    84       9.130  36.856  -4.530  1.00  0.00
ATOM    120  O   LEU    84       8.181  37.085  -3.770  1.00  0.00
ATOM    121  N   THR    85       9.887  37.812  -5.057  1.00  0.00
ATOM    122  CA  THR    85       9.479  39.209  -5.104  1.00  0.00
ATOM    123  C   THR    85       9.329  39.522  -6.589  1.00  0.00
ATOM    124  O   THR    85      10.296  39.402  -7.363  1.00  0.00
ATOM    125  N   SER    86       8.102  39.875  -6.979  1.00  0.00
ATOM    126  CA  SER    86       7.744  40.220  -8.350  1.00  0.00
ATOM    127  C   SER    86       7.632  41.743  -8.492  1.00  0.00
ATOM    128  O   SER    86       7.133  42.434  -7.597  1.00  0.00
ATOM    129  N   GLU    87       8.092  42.268  -9.621  1.00  0.00
ATOM    130  CA  GLU    87       8.027  43.698  -9.897  1.00  0.00
ATOM    131  C   GLU    87       7.226  43.952 -11.182  1.00  0.00
ATOM    132  O   GLU    87       7.475  43.331 -12.206  1.00  0.00
ATOM    133  N   VAL    88       6.262  44.869 -11.109  1.00  0.00
ATOM    134  CA  VAL    88       5.520  45.351 -12.278  1.00  0.00
ATOM    135  C   VAL    88       6.025  46.757 -12.609  1.00  0.00
ATOM    136  O   VAL    88       5.766  47.698 -11.869  1.00  0.00
ATOM    137  N   ALA    89       6.789  46.889 -13.697  1.00  0.00
ATOM    138  CA  ALA    89       7.352  48.189 -14.098  1.00  0.00
ATOM    139  C   ALA    89       6.347  48.983 -14.918  1.00  0.00
ATOM    140  O   ALA    89       5.235  48.513 -15.162  1.00  0.00
ATOM    141  N   GLY    95       6.495  42.858 -16.076  1.00  0.00
ATOM    142  CA  GLY    95       6.675  41.828 -15.039  1.00  0.00
ATOM    143  C   GLY    95       8.075  41.174 -15.022  1.00  0.00
ATOM    144  O   GLY    95       8.454  40.509 -15.985  1.00  0.00
ATOM    145  N   LYS    96       8.835  41.369 -13.940  1.00  0.00
ATOM    146  CA  LYS    96      10.048  40.589 -13.692  1.00  0.00
ATOM    147  C   LYS    96      10.034  39.960 -12.288  1.00  0.00
ATOM    148  O   LYS    96       9.449  40.505 -11.357  1.00  0.00
ATOM    149  N   ASP    97      10.685  38.812 -12.152  1.00  0.00
ATOM    150  CA  ASP    97      10.974  38.246 -10.846  1.00  0.00
ATOM    151  C   ASP    97      12.364  38.732 -10.439  1.00  0.00
ATOM    152  O   ASP    97      13.341  38.523 -11.158  1.00  0.00
ATOM    153  N   GLU    98      12.449  39.421  -9.306  1.00  0.00
ATOM    154  CA  GLU    98      13.701  39.962  -8.793  1.00  0.00
ATOM    155  C   GLU    98      14.670  38.816  -8.383  1.00  0.00
ATOM    156  O   GLU    98      14.203  37.764  -7.942  1.00  0.00
TER
END
