
#######################################################
#                                                     #
#                        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   57 (   57),  selected   57 , name T0349TS393_4-D1
# Molecule2: number of CA atoms   57 (  873),  selected   57 , name T0349_D1.pdb
# PARAMETERS: T0349TS393_4-D1.T0349_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    R       2      R       2           -
LGA    E       3      E       3           -
LGA    -       -      L       4           -
LGA    L       4      L       5           #
LGA    L       5      R       6          5.077
LGA    R       6      T       7          3.659
LGA    T       7      N       8          3.727
LGA    N       8      D       9           -
LGA    D       9      A      10           #
LGA    A      10      V      11          4.707
LGA    V      11      L      12          3.530
LGA    L      12      L      13          3.512
LGA    L      13      S      14          1.891
LGA    S      14      A      15          0.924
LGA    A      15      V      16          1.677
LGA    V      16      G      17          2.303
LGA    G      17      A      18          2.827
LGA    A      18      L      19          3.657
LGA    L      19      L      20          5.130
LGA    L      20      -       -           -
LGA    D      21      -       -           -
LGA    G      22      D      21           #
LGA    A      23      -       -           -
LGA    D      24      -       -           -
LGA    I      25      G      22          5.472
LGA    G      26      A      23          1.547
LGA    H      27      D      24          3.423
LGA    L      28      I      25          2.917
LGA    V      29      G      26          4.472
LGA    P      45      -       -           -
LGA    R      46      -       -           -
LGA    R      47      H      27           #
LGA    V      48      L      28          5.460
LGA    -       -      V      29           -
LGA    -       -      P      45           -
LGA    -       -      R      46           -
LGA    -       -      R      47           -
LGA    -       -      V      48           -
LGA    L      49      L      49          3.554
LGA    V      50      V      50          4.244
LGA    H      51      H      51          4.221
LGA    E      52      E      52          3.480
LGA    D      53      D      53          4.337
LGA    D      54      D      54          2.448
LGA    L      55      L      55          1.911
LGA    A      56      A      56          1.462
LGA    G      57      G      57          1.516
LGA    A      58      A      58          1.273
LGA    R      59      R      59          0.458
LGA    R      60      R      60          1.019
LGA    L      61      L      61          1.629
LGA    L      62      L      62          0.947
LGA    T      63      T      63          1.543
LGA    D      64      D      64          2.966
LGA    A      65      A      65          2.684
LGA    -       -      G      66           -
LGA    G      66      L      67          2.299
LGA    L      67      A      68           #
LGA    A      68      H      69           #
LGA    H      69      E      70           -
LGA    E      70      L      71           -
LGA    L      71      R      72           -
LGA    R      72      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   57   57    5.0     37    3.23    51.35     40.748     1.111

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.274630 * X  +   0.240776 * Y  +   0.930916 * Z  +   1.433694
  Y_new =   0.954358 * X  +  -0.049938 * Y  +   0.294461 * Z  +   3.792745
  Z_new =   0.117387 * X  +   0.969295 * Y  +  -0.216072 * Z  +   5.911222 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.790127   -1.351466  [ DEG:   102.5667    -77.4333 ]
  Theta =  -0.117658   -3.023934  [ DEG:    -6.7413   -173.2587 ]
  Phi   =   1.850990   -1.290603  [ DEG:   106.0539    -73.9461 ]
 
# 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: T0349TS393_4-D1                               
REMARK     2: T0349_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS393_4-D1.T0349_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   57   57   5.0   37   3.23   51.35  40.748
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS393_4-D1
PFRMAT TS
TARGET T0349
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1       1.597 -16.521   2.586  1.00 25.00           C
ATOM      2  CA  ARG     2      -0.721 -13.687   1.590  1.00 25.00           C
ATOM      3  CA  GLU     3       0.798 -11.547  -1.161  1.00 25.00           C
ATOM      4  CA  LEU     4       2.887  -8.352  -1.475  1.00 25.00           C
ATOM      5  CA  LEU     5      -0.221  -6.398  -2.563  1.00 25.00           C
ATOM      6  CA  ARG     6      -2.168  -7.778   0.432  1.00 25.00           C
ATOM      7  CA  THR     7       0.679  -6.761   2.783  1.00 25.00           C
ATOM      8  CA  ASN     8       0.700  -3.240   1.274  1.00 25.00           C
ATOM      9  CA  ASP     9      -3.091  -2.988   1.750  1.00 25.00           C
ATOM     10  CA  ALA    10      -2.733  -4.102   5.396  1.00 25.00           C
ATOM     11  CA  VAL    11      -0.003  -1.476   5.958  1.00 25.00           C
ATOM     12  CA  LEU    12      -2.248   1.220   4.419  1.00 25.00           C
ATOM     13  CA  LEU    13      -5.135   0.149   6.696  1.00 25.00           C
ATOM     14  CA  SER    14      -2.825   0.319   9.746  1.00 25.00           C
ATOM     15  CA  ALA    15      -1.677   3.824   8.713  1.00 25.00           C
ATOM     16  CA  VAL    16      -5.322   4.930   8.325  1.00 25.00           C
ATOM     17  CA  GLY    17      -6.142   3.535  11.795  1.00 25.00           C
ATOM     18  CA  ALA    18      -3.149   5.406  13.282  1.00 25.00           C
ATOM     19  CA  LEU    19      -4.307   8.644  11.597  1.00 25.00           C
ATOM     20  CA  LEU    20      -7.835   8.142  12.999  1.00 25.00           C
ATOM     21  CA  ASP    21      -6.389   7.570  16.499  1.00 25.00           C
ATOM     22  CA  GLY    22      -7.561  10.953  17.816  1.00 25.00           C
ATOM     23  CA  ALA    23      -7.376  13.426  14.954  1.00 25.00           C
ATOM     24  CA  ASP    24      -4.244  14.747  16.662  1.00 25.00           C
ATOM     25  CA  ILE    25      -2.377  13.479  13.643  1.00 25.00           C
ATOM     26  CA  GLY    26      -4.371  14.022  10.471  1.00 25.00           C
ATOM     27  CA  HIS    27      -6.414  11.745   8.260  1.00 25.00           C
ATOM     28  CA  LEU    28      -5.402  12.296   4.598  1.00 25.00           C
ATOM     29  CA  VAL    29      -6.812   9.839   1.977  1.00 25.00           C
ATOM     45  CA  PRO    45       7.064   3.189   5.436  1.00 25.00           C
ATOM     46  CA  ARG    46       3.275   2.531   5.516  1.00 25.00           C
ATOM     47  CA  ARG    47       2.212   5.286   3.075  1.00 25.00           C
ATOM     48  CA  VAL    48      -0.409   7.578   1.441  1.00 25.00           C
ATOM     49  CA  LEU    49       0.431   9.273  -1.826  1.00 25.00           C
ATOM     50  CA  VAL    50       0.984  10.501  -5.443  1.00 25.00           C
ATOM     51  CA  HIS    51       3.885  13.008  -5.536  1.00 25.00           C
ATOM     52  CA  GLU    52       7.345  13.772  -4.318  1.00 25.00           C
ATOM     53  CA  ASP    53       6.766  16.180  -1.398  1.00 25.00           C
ATOM     54  CA  ASP    54       3.374  14.548  -0.693  1.00 25.00           C
ATOM     55  CA  LEU    55       5.005  11.082  -0.736  1.00 25.00           C
ATOM     56  CA  ALA    56       7.703  12.295   1.696  1.00 25.00           C
ATOM     57  CA  GLY    57       5.008  13.716   4.017  1.00 25.00           C
ATOM     58  CA  ALA    58       3.119  10.388   3.901  1.00 25.00           C
ATOM     59  CA  ARG    59       6.343   8.499   4.742  1.00 25.00           C
ATOM     60  CA  ARG    60       6.986  10.861   7.688  1.00 25.00           C
ATOM     61  CA  LEU    61       3.411  10.305   8.945  1.00 25.00           C
ATOM     62  CA  LEU    62       3.883   6.514   8.685  1.00 25.00           C
ATOM     63  CA  THR    63       7.167   6.763  10.640  1.00 25.00           C
ATOM     64  CA  ASP    64       5.428   8.845  13.343  1.00 25.00           C
ATOM     65  CA  ALA    65       2.620   6.250  13.571  1.00 25.00           C
ATOM     66  CA  GLY    66       4.465   2.926  12.975  1.00 25.00           C
ATOM     67  CA  LEU    67       5.583  -0.706  12.852  1.00 25.00           C
ATOM     68  CA  ALA    68       7.078  -1.302  16.299  1.00 25.00           C
ATOM     69  CA  HIS    69       7.513  -1.661  20.003  1.00 25.00           C
ATOM     70  CA  GLU    70       9.321  -4.818  21.050  1.00 25.00           C
ATOM     71  CA  LEU    71       7.666  -6.346  17.951  1.00 25.00           C
ATOM     72  CA  ARG    72       7.178  -9.462  20.108  1.00 25.00           C
TER
END
