
#######################################################
#                                                     #
#                        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   46 (   46),  selected   46 , name T0363TS168_1-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS168_1-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      11      N      11           #
LGA    Q      12      Q      12          3.741
LGA    I      13      I      13          3.398
LGA    N      14      N      14           #
LGA    I      15      I      15          4.274
LGA    E      16      E      16          3.761
LGA    I      17      -       -           -
LGA    A      18      I      17          2.238
LGA    Y      19      A      18          1.889
LGA    A      20      Y      19          2.608
LGA    F      21      A      20          4.682
LGA    P      22      F      21          4.613
LGA    E      23      P      22          4.143
LGA    R      24      E      23          1.927
LGA    Y      25      R      24          5.288
LGA    Y      26      Y      25          2.348
LGA    L      27      Y      26          2.470
LGA    K      28      L      27          2.602
LGA    S      29      K      28          5.269
LGA    F      30      S      29          5.148
LGA    Q      31      F      30           #
LGA    V      32      Q      31           #
LGA    D      33      V      32           #
LGA    E      34      D      33          4.607
LGA    G      35      E      34          4.073
LGA    I      36      G      35          3.316
LGA    T      37      I      36          2.378
LGA    V      38      T      37          4.725
LGA    Q      39      V      38          1.328
LGA    T      40      Q      39          3.770
LGA    A      41      T      40          3.242
LGA    I      42      A      41          3.664
LGA    T      43      I      42          4.184
LGA    Q      44      T      43          1.138
LGA    -       -      Q      44           -
LGA    S      45      S      45          5.034
LGA    G      46      G      46          2.691
LGA    I      47      I      47          2.776
LGA    L      48      L      48          1.500
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    S      49      P      52          2.082
LGA    -       -      E      53           -
LGA    Q      50      I      54          4.676
LGA    F      51      D      55           -
LGA    P      52      L      56           -
LGA    E      53      -       -           -
LGA    I      54      -       -           -
LGA    D      55      -       -           -
LGA    L      56      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     34    3.61    26.47     43.189     0.917

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.186079 * X  +   0.868429 * Y  +   0.459571 * Z  +  23.249252
  Y_new =   0.982529 * X  +   0.162846 * Y  +   0.090101 * Z  +  11.346826
  Z_new =   0.003407 * X  +   0.468308 * Y  +  -0.883559 * Z  +   3.612210 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.654215   -0.487378  [ DEG:   152.0753    -27.9247 ]
  Theta =  -0.003407   -3.138186  [ DEG:    -0.1952   -179.8048 ]
  Phi   =   1.757967   -1.383626  [ DEG:   100.7241    -79.2759 ]
 
# 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: T0363TS168_1-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS168_1-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   46   46   5.0   34   3.61   26.47  43.189
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS168_1-D1
PFRMAT TS
TARGET T0363
MODEL 1
PARENT N/A
ATOM     11  CA  ASN    11      14.880  -2.739   4.370  1.00 25.00           C
ATOM     12  CA  GLN    12      16.059   0.775   5.126  1.00 25.00           C
ATOM     13  CA  ILE    13      17.620   4.231   5.569  1.00 25.00           C
ATOM     14  CA  ASN    14      21.342   4.934   5.508  1.00 25.00           C
ATOM     15  CA  ILE    15      22.582   8.488   4.847  1.00 25.00           C
ATOM     16  CA  GLU    16      22.269  11.306   2.240  1.00 25.00           C
ATOM     17  CA  ILE    17      24.008  13.985   0.109  1.00 25.00           C
ATOM     18  CA  ALA    18      25.670  16.665   2.253  1.00 25.00           C
ATOM     19  CA  TYR    19      27.067  20.233   2.541  1.00 25.00           C
ATOM     20  CA  ALA    20      30.286  20.288   0.515  1.00 25.00           C
ATOM     21  CA  PHE    21      30.247  21.322  -3.154  1.00 25.00           C
ATOM     22  CA  PRO    22      29.305  23.006  -6.398  1.00 25.00           C
ATOM     23  CA  GLU    23      31.377  25.886  -7.654  1.00 25.00           C
ATOM     24  CA  ARG    24      28.632  28.043  -6.180  1.00 25.00           C
ATOM     25  CA  TYR    25      27.998  26.356  -2.868  1.00 25.00           C
ATOM     26  CA  TYR    26      25.405  23.518  -2.863  1.00 25.00           C
ATOM     27  CA  LEU    27      25.036  19.746  -2.257  1.00 25.00           C
ATOM     28  CA  LYS    28      21.984  19.121  -0.074  1.00 25.00           C
ATOM     29  CA  SER    29      20.623  16.894   2.731  1.00 25.00           C
ATOM     30  CA  PHE    30      19.558  14.300   5.311  1.00 25.00           C
ATOM     31  CA  GLN    31      20.092  11.973   8.237  1.00 25.00           C
ATOM     32  CA  VAL    32      19.709   8.210   8.970  1.00 25.00           C
ATOM     33  CA  ASP    33      19.447   8.612  12.738  1.00 25.00           C
ATOM     34  CA  GLU    34      20.184   4.935  13.394  1.00 25.00           C
ATOM     35  CA  GLY    35      23.193   3.342  15.202  1.00 25.00           C
ATOM     36  CA  ILE    36      24.756   6.783  14.718  1.00 25.00           C
ATOM     37  CA  THR    37      24.418   6.270  10.981  1.00 25.00           C
ATOM     38  CA  VAL    38      24.101  10.041  10.761  1.00 25.00           C
ATOM     39  CA  GLN    39      26.691  11.532  13.155  1.00 25.00           C
ATOM     40  CA  THR    40      29.054   8.598  12.466  1.00 25.00           C
ATOM     41  CA  ALA    41      28.615   9.099   8.695  1.00 25.00           C
ATOM     42  CA  ILE    42      29.378  12.833   9.077  1.00 25.00           C
ATOM     43  CA  THR    43      32.525  12.008  11.099  1.00 25.00           C
ATOM     44  CA  GLN    44      33.642   9.534   8.398  1.00 25.00           C
ATOM     45  CA  SER    45      33.081  12.191   5.697  1.00 25.00           C
ATOM     46  CA  GLY    46      34.809  10.044   3.093  1.00 25.00           C
ATOM     47  CA  ILE    47      34.862  12.324   0.076  1.00 25.00           C
ATOM     48  CA  LEU    48      35.813  15.362   2.177  1.00 25.00           C
ATOM     49  CA  SER    49      39.350  16.491   3.112  1.00 25.00           C
ATOM     50  CA  GLN    50      38.649  15.718   6.797  1.00 25.00           C
ATOM     51  CA  PHE    51      38.473  12.006   6.122  1.00 25.00           C
ATOM     52  CA  PRO    52      42.007  12.366   4.630  1.00 25.00           C
ATOM     53  CA  GLU    53      43.432  12.994   1.174  1.00 25.00           C
ATOM     54  CA  ILE    54      40.465  11.252  -0.534  1.00 25.00           C
ATOM     55  CA  ASP    55      41.412   8.150   1.530  1.00 25.00           C
ATOM     56  CA  LEU    56      38.161   6.405   2.310  1.00 25.00           C
TER
END
