
#######################################################
#                                                     #
#                        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 T0349TS599_2-D1
# Molecule2: number of CA atoms   57 (  873),  selected   57 , name T0349_D1.pdb
# PARAMETERS: T0349TS599_2-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           -
LGA    R       2      E       3           #
LGA    E       3      L       4           -
LGA    L       4      -       -           -
LGA    L       5      -       -           -
LGA    R       6      -       -           -
LGA    T       7      -       -           -
LGA    N       8      -       -           -
LGA    D       9      -       -           -
LGA    A      10      -       -           -
LGA    V      11      -       -           -
LGA    L      12      -       -           -
LGA    L      13      L       5           #
LGA    S      14      -       -           -
LGA    A      15      -       -           -
LGA    V      16      R       6          2.578
LGA    G      17      T       7          4.084
LGA    A      18      N       8          1.432
LGA    L      19      D       9          3.043
LGA    L      20      -       -           -
LGA    D      21      A      10          2.487
LGA    G      22      -       -           -
LGA    A      23      V      11          5.076
LGA    D      24      L      12          3.881
LGA    I      25      L      13           #
LGA    G      26      S      14          3.811
LGA    H      27      A      15          4.729
LGA    L      28      V      16          4.267
LGA    V      29      G      17           #
LGA    P      45      A      18          3.349
LGA    R      46      L      19          4.119
LGA    R      47      L      20          2.980
LGA    V      48      D      21          3.021
LGA    -       -      G      22           -
LGA    -       -      A      23           -
LGA    -       -      D      24           -
LGA    L      49      I      25          3.077
LGA    V      50      G      26          1.877
LGA    -       -      H      27           -
LGA    -       -      L      28           -
LGA    -       -      V      29           -
LGA    -       -      P      45           -
LGA    -       -      R      46           -
LGA    -       -      R      47           -
LGA    -       -      V      48           -
LGA    -       -      L      49           -
LGA    -       -      V      50           -
LGA    H      51      H      51          2.111
LGA    E      52      E      52          1.472
LGA    D      53      D      53          1.859
LGA    D      54      D      54          1.082
LGA    L      55      L      55          0.395
LGA    A      56      A      56          0.443
LGA    G      57      G      57          0.484
LGA    A      58      A      58          0.311
LGA    R      59      R      59          0.225
LGA    R      60      R      60          0.583
LGA    L      61      L      61          0.634
LGA    L      62      L      62          0.550
LGA    T      63      T      63          0.447
LGA    D      64      D      64          1.918
LGA    -       -      A      65           -
LGA    A      65      G      66          0.992
LGA    G      66      L      67          0.806
LGA    L      67      A      68          3.800
LGA    A      68      H      69          1.487
LGA    H      69      E      70           #
LGA    E      70      -       -           -
LGA    L      71      -       -           -
LGA    R      72      L      71           #
LGA    -       -      R      72           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   57   57    5.0     34    2.61    41.18     43.226     1.256

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.983061 * X  +   0.149752 * Y  +   0.105665 * Z  +   0.070528
  Y_new =   0.183246 * X  +  -0.813845 * Y  +  -0.551431 * Z  +   2.279300
  Z_new =   0.003417 * X  +   0.561454 * Y  +  -0.827501 * Z  +   1.152279 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.545447   -0.596145  [ DEG:   145.8434    -34.1566 ]
  Theta =  -0.003417   -3.138175  [ DEG:    -0.1958   -179.8042 ]
  Phi   =   0.184288   -2.957305  [ DEG:    10.5589   -169.4411 ]
 
# 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: T0349TS599_2-D1                               
REMARK     2: T0349_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS599_2-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   34   2.61   41.18  43.226
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS599_2-D1
PFRMAT TS                                                                       
TARGET T0349                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       1.102  -3.576 -10.802  1.00  0.00              
ATOM      2  CA  ARG     2       3.396  -0.427 -10.568  1.00  0.00              
ATOM      3  CA  GLU     3       2.470  -3.024 -13.740  1.00  0.00              
ATOM      4  CA  LEU     4      -0.459  -1.655 -12.189  1.00  0.00              
ATOM      5  CA  LEU     5       0.213   1.922 -13.218  1.00  0.00              
ATOM      6  CA  ARG     6       0.902   1.171 -16.838  1.00  0.00              
ATOM      7  CA  THR     7      -2.167  -0.904 -17.462  1.00  0.00              
ATOM      8  CA  ASN     8      -4.639   0.754 -15.109  1.00  0.00              
ATOM      9  CA  ASP     9      -5.472  -2.516 -13.450  1.00  0.00              
ATOM     10  CA  ALA    10      -4.486  -2.433  -9.723  1.00  0.00              
ATOM     11  CA  VAL    11      -2.137  -5.250  -8.789  1.00  0.00              
ATOM     12  CA  LEU    12       0.794  -3.924  -6.674  1.00  0.00              
ATOM     13  CA  LEU    13      -1.406  -1.633  -4.556  1.00  0.00              
ATOM     14  CA  SER    14      -3.823  -4.503  -3.860  1.00  0.00              
ATOM     15  CA  ALA    15      -1.079  -6.929  -2.795  1.00  0.00              
ATOM     16  CA  VAL    16       0.441  -4.272  -0.538  1.00  0.00              
ATOM     17  CA  GLY    17      -2.950  -3.526   0.977  1.00  0.00              
ATOM     18  CA  ALA    18      -3.643  -7.064   1.938  1.00  0.00              
ATOM     19  CA  LEU    19      -0.225  -7.390   3.639  1.00  0.00              
ATOM     20  CA  LEU    20      -0.742  -4.147   5.531  1.00  0.00              
ATOM     21  CA  ASP    21      -4.237  -5.077   6.789  1.00  0.00              
ATOM     22  CA  GLY    22      -2.868  -8.392   8.026  1.00  0.00              
ATOM     23  CA  ALA    23      -0.321  -6.623  10.251  1.00  0.00              
ATOM     24  CA  ASP    24      -2.945  -4.325  11.788  1.00  0.00              
ATOM     25  CA  ILE    25      -1.148  -1.144  10.671  1.00  0.00              
ATOM     26  CA  GLY    26      -3.476   1.635   9.647  1.00  0.00              
ATOM     27  CA  HIS    27      -1.201   3.779   7.402  1.00  0.00              
ATOM     28  CA  LEU    28      -2.256   4.879   3.971  1.00  0.00              
ATOM     29  CA  VAL    29       0.003   6.855   1.708  1.00  0.00              
ATOM     45  CA  PRO    45      -7.641   4.857   6.805  1.00  0.00              
ATOM     46  CA  ARG    46      -6.052   4.868  10.219  1.00  0.00              
ATOM     47  CA  ARG    47      -3.434   7.464   9.256  1.00  0.00              
ATOM     48  CA  VAL    48      -3.777   8.740   5.745  1.00  0.00              
ATOM     49  CA  LEU    49      -1.065  10.550   4.086  1.00  0.00              
ATOM     50  CA  VAL    50      -1.951  12.410   0.953  1.00  0.00              
ATOM     51  CA  HIS    51      -0.372  14.293  -1.676  1.00  0.00              
ATOM     52  CA  GLU    52       2.692  13.962  -3.792  1.00  0.00              
ATOM     53  CA  ASP    53       4.167  17.325  -2.621  1.00  0.00              
ATOM     54  CA  ASP    54       3.782  16.156   1.025  1.00  0.00              
ATOM     55  CA  LEU    55       5.429  12.822   0.560  1.00  0.00              
ATOM     56  CA  ALA    56       8.223  13.431   3.126  1.00  0.00              
ATOM     57  CA  GLY    57       5.629  14.193   5.827  1.00  0.00              
ATOM     58  CA  ALA    58       3.615  11.046   4.963  1.00  0.00              
ATOM     59  CA  ARG    59       6.701   8.833   5.024  1.00  0.00              
ATOM     60  CA  ARG    60       7.615  10.322   8.422  1.00  0.00              
ATOM     61  CA  LEU    61       4.175   9.447   9.821  1.00  0.00              
ATOM     62  CA  LEU    62       4.478   5.837   8.559  1.00  0.00              
ATOM     63  CA  THR    63       7.977   5.558  10.090  1.00  0.00              
ATOM     64  CA  ASP    64       6.804   6.898  13.426  1.00  0.00              
ATOM     65  CA  ALA    65       4.008   4.302  13.448  1.00  0.00              
ATOM     66  CA  GLY    66       6.432   1.442  12.576  1.00  0.00              
ATOM     67  CA  LEU    67       4.825   0.344   9.365  1.00  0.00              
ATOM     68  CA  ALA    68       8.004  -0.636   7.438  1.00  0.00              
ATOM     69  CA  HIS    69       9.320  -2.752  10.283  1.00  0.00              
ATOM     70  CA  GLU    70       5.973  -4.590  10.629  1.00  0.00              
ATOM     71  CA  LEU    71       5.724  -5.349   6.897  1.00  0.00              
ATOM     72  CA  ARG    72       9.332  -6.247   6.391  1.00  0.00              
TER                                                                             
END
