
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0327TS168_3
# Molecule2: number of CA atoms   73 ( 1169),  selected   73 , name T0327.pdb
# PARAMETERS: T0327TS168_3.T0327.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    N       2      -       -           -
LGA    K       3      -       -           -
LGA    D       4      -       -           -
LGA    K       5      -       -           -
LGA    L       6      -       -           -
LGA    R       7      -       -           -
LGA    Y       8      -       -           -
LGA    A       9      -       -           -
LGA    I      10      -       -           -
LGA    L      11      -       -           -
LGA    K      12      -       -           -
LGA    E      13      -       -           -
LGA    I      14      -       -           -
LGA    F      15      -       -           -
LGA    E      16      -       -           -
LGA    G      17      -       -           -
LGA    N      18      -       -           -
LGA    T      19      -       -           -
LGA    P      20      -       -           -
LGA    L      21      -       -           -
LGA    S      22      -       -           -
LGA    E      23      -       -           -
LGA    N      24      -       -           -
LGA    D      25      -       -           -
LGA    I      26      -       -           -
LGA    G      27      -       -           -
LGA    V      28      -       -           -
LGA    T      29      -       -           -
LGA    E      30      K       5          5.022
LGA    D      31      L       6          2.903
LGA    -       -      R       7           -
LGA    -       -      Y       8           -
LGA    Q      32      A       9          2.038
LGA    F      33      I      10          2.120
LGA    D      34      L      11          2.149
LGA    D      35      K      12          1.720
LGA    A      36      E      13          1.394
LGA    V      37      I      14          1.540
LGA    N      38      F      15          1.511
LGA    F      39      E      16          1.625
LGA    L      40      G      17          0.719
LGA    K      41      N      18          2.405
LGA    R      42      -       -           -
LGA    E      43      -       -           -
LGA    G      44      -       -           -
LGA    Y      45      -       -           -
LGA    I      46      T      19          0.920
LGA    I      47      P      20          4.179
LGA    G      48      L      21           #
LGA    V      49      S      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    -       -      D      25           -
LGA    -       -      I      26           -
LGA    -       -      G      27           -
LGA    -       -      V      28           -
LGA    -       -      T      29           -
LGA    -       -      E      30           -
LGA    -       -      D      31           -
LGA    -       -      Q      32           -
LGA    -       -      F      33           -
LGA    -       -      D      34           -
LGA    -       -      D      35           -
LGA    -       -      A      36           -
LGA    H      50      V      37          3.069
LGA    -       -      N      38           -
LGA    -       -      F      39           -
LGA    Y      51      L      40          2.024
LGA    S      52      K      41          1.714
LGA    D      53      R      42          3.047
LGA    D      54      E      43           -
LGA    R      55      G      44           -
LGA    P      56      Y      45           -
LGA    -       -      I      46           -
LGA    H      57      I      47           #
LGA    L      58      G      48          4.633
LGA    Y      59      V      49          4.335
LGA    K      60      -       -           -
LGA    L      61      H      50           #
LGA    G      62      Y      51          2.189
LGA    P      63      S      52          3.196
LGA    E      64      D      53           -
LGA    -       -      D      54           -
LGA    -       -      R      55           -
LGA    -       -      P      56           -
LGA    L      65      H      57          3.738
LGA    T      66      L      58           #
LGA    E      67      Y      59          4.666
LGA    K      68      -       -           -
LGA    G      69      -       -           -
LGA    E      70      K      60          3.582
LGA    N      71      L      61          4.760
LGA    Y      72      G      62          1.185
LGA    L      73      P      63          4.910
LGA    K      74      -       -           -
LGA    E      75      -       -           -
LGA    N      76      -       -           -
LGA    G      77      -       -           -
LGA    T      78      E      64          2.358
LGA    W      79      -       -           -
LGA    S      80      -       -           -
LGA    K      81      L      65          2.819
LGA    A      82      T      66          4.796
LGA    Y      83      E      67           #
LGA    K      84      K      68          5.691
LGA    T      85      G      69          1.417
LGA    I      86      E      70          2.940
LGA    K      87      -       -           -
LGA    E      88      N      71          1.227
LGA    I      89      Y      72          1.496
LGA    K      90      L      73          3.159
LGA    D      91      K      74          3.517
LGA    W      92      E      75          2.912
LGA    I      93      N      76          2.977
LGA    K      94      G      77           #
LGA    L      95      -       -           -
LGA    E      96      -       -           -
LGA    H      97      -       -           -
LGA    H      98      -       -           -
LGA    H      99      -       -           -
LGA    H     100      -       -           -
LGA    H     101      -       -           -
LGA    H     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   73    5.0     40    3.10     2.50     33.242     1.250

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.479555 * X  +   0.632534 * Y  +   0.608217 * Z  +   0.057628
  Y_new =   0.400370 * X  +   0.774485 * Y  +  -0.489772 * Z  +   3.213556
  Z_new =  -0.780853 * X  +   0.008640 * Y  +  -0.624656 * Z  +  -2.551947 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.127763   -0.013830  [ DEG:   179.2076     -0.7924 ]
  Theta =   0.896029    2.245563  [ DEG:    51.3387    128.6613 ]
  Phi   =   2.445943   -0.695650  [ DEG:   140.1422    -39.8578 ]
 
# 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: T0327TS168_3                                  
REMARK     2: T0327.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0327TS168_3.T0327.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   73   5.0   40   3.10    2.50  33.242
REMARK  ---------------------------------------------------------- 
MOLECULE T0327TS168_3
PFRMAT TS
TARGET T0327
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1     -10.438  14.425 -12.160  1.00 25.00           C
ATOM      2  CA  ASN     2     -10.875  16.720  -9.164  1.00 25.00           C
ATOM      3  CA  LYS     3     -10.498  15.911  -5.468  1.00 25.00           C
ATOM      4  CA  ASP     4      -8.437  13.217  -3.723  1.00 25.00           C
ATOM      5  CA  LYS     5      -6.045  15.783  -2.188  1.00 25.00           C
ATOM      6  CA  LEU     6      -4.032  12.965  -0.553  1.00 25.00           C
ATOM      7  CA  ARG     7      -3.841  11.123  -3.905  1.00 25.00           C
ATOM      8  CA  TYR     8      -2.637  14.327  -5.624  1.00 25.00           C
ATOM      9  CA  ALA     9       0.036  14.802  -2.923  1.00 25.00           C
ATOM     10  CA  ILE    10       1.186  11.179  -3.391  1.00 25.00           C
ATOM     11  CA  LEU    11       1.395  11.708  -7.178  1.00 25.00           C
ATOM     12  CA  LYS    12       3.454  14.893  -6.645  1.00 25.00           C
ATOM     13  CA  GLU    13       5.812  13.003  -4.291  1.00 25.00           C
ATOM     14  CA  ILE    14       6.217  10.220  -6.891  1.00 25.00           C
ATOM     15  CA  PHE    15       7.001  12.823  -9.590  1.00 25.00           C
ATOM     16  CA  GLU    16       9.606  14.447  -7.301  1.00 25.00           C
ATOM     17  CA  GLY    17       9.757  18.188  -6.727  1.00 25.00           C
ATOM     18  CA  ASN    18       7.461  18.697  -3.737  1.00 25.00           C
ATOM     19  CA  THR    19       6.952  21.093  -0.874  1.00 25.00           C
ATOM     20  CA  PRO    20       5.857  22.617   2.415  1.00 25.00           C
ATOM     21  CA  LEU    21       5.203  20.564   5.515  1.00 25.00           C
ATOM     22  CA  SER    22       2.328  20.925   8.033  1.00 25.00           C
ATOM     23  CA  GLU    23       0.742  19.800  11.366  1.00 25.00           C
ATOM     24  CA  ASN    24      -1.920  18.059   9.210  1.00 25.00           C
ATOM     25  CA  ASP    25      -3.342  14.924  10.897  1.00 25.00           C
ATOM     26  CA  ILE    26      -6.389  14.004   8.850  1.00 25.00           C
ATOM     27  CA  GLY    27      -7.835  10.560   8.100  1.00 25.00           C
ATOM     28  CA  VAL    28      -5.987   8.320   5.605  1.00 25.00           C
ATOM     29  CA  THR    29      -3.945   5.285   6.630  1.00 25.00           C
ATOM     30  CA  GLU    30      -6.309   3.343   4.308  1.00 25.00           C
ATOM     31  CA  ASP    31      -7.893   2.531   0.918  1.00 25.00           C
ATOM     32  CA  GLN    32      -7.086   6.058  -0.333  1.00 25.00           C
ATOM     33  CA  PHE    33      -3.462   5.673   0.843  1.00 25.00           C
ATOM     34  CA  ASP    34      -3.208   2.305  -0.962  1.00 25.00           C
ATOM     35  CA  ASP    35      -4.601   3.888  -4.160  1.00 25.00           C
ATOM     36  CA  ALA    36      -2.051   6.734  -3.892  1.00 25.00           C
ATOM     37  CA  VAL    37       0.776   4.190  -3.435  1.00 25.00           C
ATOM     38  CA  ASN    38      -0.435   2.255  -6.511  1.00 25.00           C
ATOM     39  CA  PHE    39      -0.521   5.497  -8.548  1.00 25.00           C
ATOM     40  CA  LEU    40       3.040   6.333  -7.414  1.00 25.00           C
ATOM     41  CA  LYS    41       4.209   2.827  -8.419  1.00 25.00           C
ATOM     42  CA  ARG    42       2.562   3.236 -11.852  1.00 25.00           C
ATOM     43  CA  GLU    43       6.165   2.747 -13.018  1.00 25.00           C
ATOM     44  CA  GLY    44       8.715   3.016 -10.214  1.00 25.00           C
ATOM     45  CA  TYR    45       9.536   4.240  -6.758  1.00 25.00           C
ATOM     46  CA  ILE    46       7.050   5.772  -4.377  1.00 25.00           C
ATOM     47  CA  ILE    47       5.677   2.876  -2.325  1.00 25.00           C
ATOM     48  CA  GLY    48       5.537   1.509   1.223  1.00 25.00           C
ATOM     49  CA  VAL    49       3.301  -1.121  -0.257  1.00 25.00           C
ATOM     50  CA  HIS    50       1.329  -3.115   2.375  1.00 25.00           C
ATOM     51  CA  TYR    51       0.099  -6.219   4.252  1.00 25.00           C
ATOM     52  CA  SER    52       2.995  -8.057   2.509  1.00 25.00           C
ATOM     53  CA  ASP    53       3.009 -11.155   4.666  1.00 25.00           C
ATOM     54  CA  ASP    54       4.284 -12.844   1.438  1.00 25.00           C
ATOM     55  CA  ARG    55       8.047 -12.107   1.495  1.00 25.00           C
ATOM     56  CA  PRO    56       8.006 -11.871   5.235  1.00 25.00           C
ATOM     57  CA  HIS    57      10.402  -8.936   4.569  1.00 25.00           C
ATOM     58  CA  LEU    58       7.775  -6.301   3.786  1.00 25.00           C
ATOM     59  CA  TYR    59       4.977  -4.414   5.542  1.00 25.00           C
ATOM     60  CA  LYS    60       4.662  -0.698   5.898  1.00 25.00           C
ATOM     61  CA  LEU    61       7.970   1.141   5.964  1.00 25.00           C
ATOM     62  CA  GLY    62      11.033  -1.025   6.738  1.00 25.00           C
ATOM     63  CA  PRO    63      11.953   1.966   8.933  1.00 25.00           C
ATOM     64  CA  GLU    64      13.359   3.858   5.874  1.00 25.00           C
ATOM     65  CA  LEU    65      11.369   4.546   2.696  1.00 25.00           C
ATOM     66  CA  THR    66      14.002   4.926  -0.027  1.00 25.00           C
ATOM     67  CA  GLU    67      16.226   2.078   1.093  1.00 25.00           C
ATOM     68  CA  LYS    68      13.782  -0.785   1.798  1.00 25.00           C
ATOM     69  CA  GLY    69      11.240   0.758  -0.615  1.00 25.00           C
ATOM     70  CA  GLU    70      13.948   1.073  -3.305  1.00 25.00           C
ATOM     71  CA  ASN    71      14.931  -2.591  -2.781  1.00 25.00           C
ATOM     72  CA  TYR    72      11.263  -3.645  -3.096  1.00 25.00           C
ATOM     73  CA  LEU    73      10.935  -1.627  -6.334  1.00 25.00           C
ATOM     74  CA  LYS    74      14.098  -3.284  -7.716  1.00 25.00           C
ATOM     75  CA  GLU    75      12.709  -6.739  -6.821  1.00 25.00           C
ATOM     76  CA  ASN    76      10.834 -10.027  -6.315  1.00 25.00           C
ATOM     77  CA  GLY    77       8.426  -8.764  -8.954  1.00 25.00           C
ATOM     78  CA  THR    78       7.562  -6.230  -6.227  1.00 25.00           C
ATOM     79  CA  TRP    79       6.115  -3.523  -8.517  1.00 25.00           C
ATOM     80  CA  SER    80       4.347  -6.201 -10.608  1.00 25.00           C
ATOM     81  CA  LYS    81       2.897  -7.761  -7.425  1.00 25.00           C
ATOM     82  CA  ALA    82       1.659  -4.325  -6.274  1.00 25.00           C
ATOM     83  CA  TYR    83       0.028  -3.742  -9.690  1.00 25.00           C
ATOM     84  CA  LYS    84      -1.678  -7.164  -9.488  1.00 25.00           C
ATOM     85  CA  THR    85      -2.965  -6.343  -5.976  1.00 25.00           C
ATOM     86  CA  ILE    86      -4.322  -2.989  -7.231  1.00 25.00           C
ATOM     87  CA  LYS    87      -6.074  -4.759 -10.141  1.00 25.00           C
ATOM     88  CA  GLU    88      -7.619  -7.282  -7.709  1.00 25.00           C
ATOM     89  CA  ILE    89      -8.841  -4.420  -5.478  1.00 25.00           C
ATOM     90  CA  LYS    90     -10.382  -2.674  -8.518  1.00 25.00           C
ATOM     91  CA  ASP    91     -12.135  -5.928  -9.528  1.00 25.00           C
ATOM     92  CA  TRP    92     -13.496  -6.326  -5.970  1.00 25.00           C
ATOM     93  CA  ILE    93     -14.780  -2.719  -6.031  1.00 25.00           C
ATOM     94  CA  LYS    94     -16.484  -3.357  -9.401  1.00 25.00           C
ATOM     95  CA  LEU    95     -19.850  -5.168  -9.870  1.00 25.00           C
ATOM     96  CA  GLU    96     -21.457  -5.773  -6.437  1.00 25.00           C
ATOM     97  CA  HIS    97     -23.598  -2.659  -5.921  1.00 25.00           C
ATOM     98  CA  HIS    98     -24.498   0.366  -8.113  1.00 25.00           C
ATOM     99  CA  HIS    99     -25.544   3.962  -7.444  1.00 25.00           C
ATOM    100  CA  HIS   100     -25.370   4.552  -3.683  1.00 25.00           C
ATOM    101  CA  HIS   101     -24.465   6.797  -0.786  1.00 25.00           C
ATOM    102  CA  HIS   102     -22.606  10.150  -1.017  1.00 25.00           C
TER
END
