
#######################################################
#                                                     #
#                        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   36 (   36),  selected   36 , name T0335TS168_5-D1
# Molecule2: number of CA atoms   36 (  584),  selected   36 , name T0335_D1.pdb
# PARAMETERS: T0335TS168_5-D1.T0335_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    A       5      A       5          1.778
LGA    K       6      K       6          2.286
LGA    I       7      I       7          1.891
LGA    A       8      A       8          0.918
LGA    R       9      R       9          2.118
LGA    I      10      I      10          2.411
LGA    N      11      N      11          1.400
LGA    E      12      E      12          1.819
LGA    L      13      L      13          3.404
LGA    A      14      A      14          2.428
LGA    A      15      A      15          1.304
LGA    K      16      K      16          3.334
LGA    A      17      A      17          4.111
LGA    K      18      K      18          1.519
LGA    A      19      A      19          2.840
LGA    G      20      G      20          1.702
LGA    V      21      V      21          1.037
LGA    I      22      I      22          1.548
LGA    T      23      T      23          0.815
LGA    E      24      E      24          1.321
LGA    E      25      E      25          0.805
LGA    E      26      E      26          1.029
LGA    K      27      K      27          1.192
LGA    A      28      A      28          0.921
LGA    E      29      E      29          0.995
LGA    Q      30      Q      30          1.567
LGA    Q      31      Q      31          1.515
LGA    K      32      K      32          1.693
LGA    L      33      L      33          1.475
LGA    R      34      R      34          1.307
LGA    Q      35      Q      35          0.808
LGA    E      36      E      36          1.733
LGA    Y      37      Y      37          2.107
LGA    L      38      L      38          1.327
LGA    K      39      K      39          2.120
LGA    G      40      G      40          3.179

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   36    5.0     36    1.94   100.00     89.608     1.764

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.557466 * X  +   0.463589 * Y  +   0.688707 * Z  +   4.632933
  Y_new =   0.721199 * X  +   0.681331 * Y  +   0.125142 * Z  +   1.703111
  Z_new =  -0.411223 * X  +   0.566457 * Y  +  -0.714158 * Z  +  -6.413386 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.471023   -0.670569  [ DEG:   141.5792    -38.4208 ]
  Theta =   0.423795    2.717798  [ DEG:    24.2817    155.7183 ]
  Phi   =   2.228837   -0.912755  [ DEG:   127.7030    -52.2970 ]
 
# 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: T0335TS168_5-D1                               
REMARK     2: T0335_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0335TS168_5-D1.T0335_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   36   5.0   36   1.94  100.00  89.608
REMARK  ---------------------------------------------------------- 
MOLECULE T0335TS168_5-D1
PFRMAT TS
TARGET T0335
MODEL 5
PARENT N/A
ATOM      5  CA  ALA     5      -0.106 -10.721  -7.013  1.00 25.00           C
ATOM      6  CA  LYS     6       1.177  -7.118  -7.217  1.00 25.00           C
ATOM      7  CA  ILE     7      -2.346  -5.885  -8.072  1.00 25.00           C
ATOM      8  CA  ALA     8      -3.773  -7.823  -5.092  1.00 25.00           C
ATOM      9  CA  ARG     9      -1.122  -6.289  -2.794  1.00 25.00           C
ATOM     10  CA  ILE    10      -1.983  -2.791  -4.093  1.00 25.00           C
ATOM     11  CA  ASN    11      -5.703  -3.446  -3.462  1.00 25.00           C
ATOM     12  CA  GLU    12      -4.918  -4.624   0.097  1.00 25.00           C
ATOM     13  CA  LEU    13      -2.837  -1.466   0.709  1.00 25.00           C
ATOM     14  CA  ALA    14      -5.714   0.708  -0.583  1.00 25.00           C
ATOM     15  CA  ALA    15      -8.162  -1.112   1.733  1.00 25.00           C
ATOM     16  CA  LYS    16      -5.803  -0.560   4.699  1.00 25.00           C
ATOM     17  CA  ALA    17      -5.542   3.161   3.832  1.00 25.00           C
ATOM     18  CA  LYS    18      -9.359   3.411   3.645  1.00 25.00           C
ATOM     19  CA  ALA    19      -9.663   1.696   7.057  1.00 25.00           C
ATOM     20  CA  GLY    20     -10.387   1.581  10.821  1.00 25.00           C
ATOM     21  CA  VAL    21      -7.649   4.132  11.019  1.00 25.00           C
ATOM     22  CA  ILE    22      -4.696   2.680   9.026  1.00 25.00           C
ATOM     23  CA  THR    23      -2.646   4.920  11.314  1.00 25.00           C
ATOM     24  CA  GLU    24       0.860   6.395  11.321  1.00 25.00           C
ATOM     25  CA  GLU    25       3.295   3.473  10.868  1.00 25.00           C
ATOM     26  CA  GLU    26       0.644   1.537   8.895  1.00 25.00           C
ATOM     27  CA  LYS    27       0.031   4.595   6.672  1.00 25.00           C
ATOM     28  CA  ALA    28       3.796   4.932   6.055  1.00 25.00           C
ATOM     29  CA  GLU    29       4.002   1.222   5.132  1.00 25.00           C
ATOM     30  CA  GLN    30       1.066   1.636   2.708  1.00 25.00           C
ATOM     31  CA  GLN    31       2.780   4.667   1.111  1.00 25.00           C
ATOM     32  CA  LYS    32       6.022   2.663   0.728  1.00 25.00           C
ATOM     33  CA  LEU    33       4.082  -0.208  -0.904  1.00 25.00           C
ATOM     34  CA  ARG    34       2.415   2.256  -3.315  1.00 25.00           C
ATOM     35  CA  GLN    35       5.834   3.735  -4.206  1.00 25.00           C
ATOM     36  CA  GLU    36       7.214   0.221  -4.847  1.00 25.00           C
ATOM     37  CA  TYR    37       4.217  -0.574  -7.095  1.00 25.00           C
ATOM     38  CA  LEU    38       4.778   2.680  -9.035  1.00 25.00           C
ATOM     39  CA  LYS    39       8.481   1.807  -9.474  1.00 25.00           C
ATOM     40  CA  GLY    40       7.535  -1.680 -10.743  1.00 25.00           C
TER
END
