
#######################################################
#                                                     #
#                        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_4-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS168_4-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           #
LGA    I      13      I      13          5.241
LGA    N      14      N      14          2.986
LGA    I      15      I      15          3.939
LGA    E      16      E      16          0.954
LGA    I      17      I      17          0.478
LGA    A      18      A      18          0.861
LGA    Y      19      Y      19          0.799
LGA    A      20      A      20          3.473
LGA    F      21      F      21          1.644
LGA    P      22      P      22          1.825
LGA    E      23      E      23          3.233
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      -       -           -
LGA    L      27      R      24           #
LGA    K      28      Y      25          4.358
LGA    S      29      Y      26          3.240
LGA    -       -      L      27           -
LGA    F      30      K      28          1.247
LGA    Q      31      S      29          3.745
LGA    V      32      F      30          1.020
LGA    D      33      Q      31          1.638
LGA    E      34      V      32          1.929
LGA    G      35      D      33          3.889
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    I      36      I      36          2.717
LGA    T      37      T      37           #
LGA    -       -      V      38           -
LGA    -       -      Q      39           -
LGA    V      38      T      40           #
LGA    Q      39      A      41          1.700
LGA    T      40      -       -           -
LGA    A      41      -       -           -
LGA    I      42      I      42          0.958
LGA    T      43      T      43          2.301
LGA    -       -      Q      44           -
LGA    Q      44      S      45          3.176
LGA    S      45      G      46          4.853
LGA    G      46      I      47          4.361
LGA    I      47      L      48          4.018
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      S      49          1.470
LGA    F      51      Q      50          3.787
LGA    P      52      F      51           -
LGA    E      53      P      52           -
LGA    I      54      E      53           -
LGA    D      55      I      54           -
LGA    L      56      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     29    2.95    48.28     38.826     0.951

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.186206 * X  +  -0.791858 * Y  +   0.581626 * Z  +  22.281643
  Y_new =   0.850958 * X  +  -0.165928 * Y  +  -0.498335 * Z  +  14.772004
  Z_new =   0.491118 * X  +   0.587732 * Y  +   0.642941 * Z  +   2.962516 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.740568   -2.401025  [ DEG:    42.4314   -137.5686 ]
  Theta =  -0.513373   -2.628220  [ DEG:   -29.4141   -150.5859 ]
  Phi   =   1.355373   -1.786220  [ DEG:    77.6571   -102.3429 ]
 
# 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_4-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS168_4-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   29   2.95   48.28  38.826
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS168_4-D1
PFRMAT TS
TARGET T0363
MODEL 4
PARENT N/A
ATOM     11  CA  ASN    11       8.270   8.780  10.815  1.00 25.00           C
ATOM     12  CA  GLN    12      11.416   9.816   8.980  1.00 25.00           C
ATOM     13  CA  ILE    13      14.740  10.563   7.289  1.00 25.00           C
ATOM     14  CA  ASN    14      17.135  11.232   4.457  1.00 25.00           C
ATOM     15  CA  ILE    15      18.341  14.768   5.073  1.00 25.00           C
ATOM     16  CA  GLU    16      21.696  13.510   3.883  1.00 25.00           C
ATOM     17  CA  ILE    17      25.017  15.417   4.153  1.00 25.00           C
ATOM     18  CA  ALA    18      25.752  19.159   3.561  1.00 25.00           C
ATOM     19  CA  TYR    19      29.011  20.880   2.471  1.00 25.00           C
ATOM     20  CA  ALA    20      29.267  21.284  -1.332  1.00 25.00           C
ATOM     21  CA  PHE    21      30.309  24.915  -1.532  1.00 25.00           C
ATOM     22  CA  PRO    22      29.321  26.864  -4.654  1.00 25.00           C
ATOM     23  CA  GLU    23      29.378  30.206  -6.519  1.00 25.00           C
ATOM     24  CA  ARG    24      28.812  32.343  -3.430  1.00 25.00           C
ATOM     25  CA  TYR    25      29.058  29.823  -0.543  1.00 25.00           C
ATOM     26  CA  TYR    26      26.010  27.525  -0.637  1.00 25.00           C
ATOM     27  CA  LEU    27      25.177  23.955   0.369  1.00 25.00           C
ATOM     28  CA  LYS    28      24.130  20.780  -1.346  1.00 25.00           C
ATOM     29  CA  SER    29      25.036  17.130  -1.134  1.00 25.00           C
ATOM     30  CA  PHE    30      24.423  13.416  -0.574  1.00 25.00           C
ATOM     31  CA  GLN    31      24.208  10.076   1.235  1.00 25.00           C
ATOM     32  CA  VAL    32      21.004   8.596   2.519  1.00 25.00           C
ATOM     33  CA  ASP    33      21.388   5.606   4.907  1.00 25.00           C
ATOM     34  CA  GLU    34      23.084   2.841   6.944  1.00 25.00           C
ATOM     35  CA  GLY    35      25.434   3.460   9.926  1.00 25.00           C
ATOM     36  CA  ILE    36      23.335   6.315  11.228  1.00 25.00           C
ATOM     37  CA  THR    37      21.866   9.030   8.913  1.00 25.00           C
ATOM     38  CA  VAL    38      24.721  11.057   7.345  1.00 25.00           C
ATOM     39  CA  GLN    39      27.017   8.169   8.373  1.00 25.00           C
ATOM     40  CA  THR    40      27.935   7.561   4.705  1.00 25.00           C
ATOM     41  CA  ALA    41      28.715  11.284   4.256  1.00 25.00           C
ATOM     42  CA  ILE    42      30.921  11.223   7.387  1.00 25.00           C
ATOM     43  CA  THR    43      32.770   8.145   6.054  1.00 25.00           C
ATOM     44  CA  GLN    44      33.317   9.899   2.694  1.00 25.00           C
ATOM     45  CA  SER    45      34.673  12.991   4.500  1.00 25.00           C
ATOM     46  CA  GLY    46      36.473  15.759   2.726  1.00 25.00           C
ATOM     47  CA  ILE    47      34.064  15.300  -0.238  1.00 25.00           C
ATOM     48  CA  LEU    48      37.181  16.193  -2.226  1.00 25.00           C
ATOM     49  CA  SER    49      40.127  14.105  -0.949  1.00 25.00           C
ATOM     50  CA  GLN    50      37.774  11.164  -0.255  1.00 25.00           C
ATOM     51  CA  PHE    51      35.527  11.333  -3.320  1.00 25.00           C
ATOM     52  CA  PRO    52      38.538  12.139  -5.399  1.00 25.00           C
ATOM     53  CA  GLU    53      38.410  13.364  -8.978  1.00 25.00           C
ATOM     54  CA  ILE    54      34.636  13.638  -9.573  1.00 25.00           C
ATOM     55  CA  ASP    55      34.465  10.070  -8.218  1.00 25.00           C
ATOM     56  CA  LEU    56      30.659   9.666  -7.705  1.00 25.00           C
TER
END
