
#######################################################
#                                                     #
#                        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 T0363TS393_3-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS393_3-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          3.938
LGA    N      14      N      14          4.503
LGA    I      15      I      15          1.841
LGA    E      16      E      16          2.062
LGA    I      17      I      17          4.554
LGA    -       -      A      18           -
LGA    -       -      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    -       -      Y      25           -
LGA    -       -      Y      26           -
LGA    -       -      L      27           -
LGA    A      18      K      28          1.299
LGA    Y      19      S      29           #
LGA    A      20      -       -           -
LGA    F      21      -       -           -
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      -       -           -
LGA    L      27      -       -           -
LGA    K      28      -       -           -
LGA    S      29      -       -           -
LGA    F      30      F      30           #
LGA    Q      31      Q      31           -
LGA    V      32      V      32           #
LGA    -       -      D      33           -
LGA    D      33      E      34          3.860
LGA    E      34      G      35          2.564
LGA    G      35      I      36          3.267
LGA    I      36      T      37           -
LGA    T      37      V      38           -
LGA    V      38      Q      39           -
LGA    Q      39      T      40          4.798
LGA    T      40      A      41          4.051
LGA    A      41      -       -           -
LGA    I      42      I      42          2.085
LGA    T      43      T      43          1.978
LGA    Q      44      Q      44          2.317
LGA    S      45      S      45          4.265
LGA    G      46      G      46          1.132
LGA    I      47      I      47          3.895
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      L      48          2.711
LGA    F      51      S      49          4.877
LGA    -       -      Q      50           -
LGA    P      52      F      51          2.579
LGA    -       -      P      52           -
LGA    E      53      E      53          1.152
LGA    I      54      I      54          2.720
LGA    D      55      D      55          1.449
LGA    L      56      L      56          1.863

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     24    3.15    62.50     30.548     0.739

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.570558 * X  +  -0.745331 * Y  +   0.344884 * Z  +  20.678303
  Y_new =  -0.669082 * X  +   0.178345 * Y  +  -0.721472 * Z  +  12.830517
  Z_new =   0.476227 * X  +  -0.642397 * Y  +  -0.600444 * Z  +   3.604034 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.322452    0.819141  [ DEG:  -133.0667     46.9333 ]
  Theta =  -0.496359   -2.645233  [ DEG:   -28.4393   -151.5607 ]
  Phi   =  -2.276883    0.864709  [ DEG:  -130.4558     49.5442 ]
 
# 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: T0363TS393_3-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS393_3-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   24   3.15   62.50  30.548
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS393_3-D1
PFRMAT TS
TARGET T0363
MODEL 3
PARENT N/A
ATOM     11  CA  ASN    11       9.483   6.334  15.196  1.00 25.00           C
ATOM     12  CA  GLN    12      12.558   6.978  13.033  1.00 25.00           C
ATOM     13  CA  ILE    13      15.101   8.567  10.721  1.00 25.00           C
ATOM     14  CA  ASN    14      17.115  11.460   9.293  1.00 25.00           C
ATOM     15  CA  ILE    15      19.006   9.908   6.426  1.00 25.00           C
ATOM     16  CA  GLU    16      19.969  12.879   4.284  1.00 25.00           C
ATOM     17  CA  ILE    17      22.789  12.652   1.785  1.00 25.00           C
ATOM     18  CA  ALA    18      24.609  14.215  -1.211  1.00 25.00           C
ATOM     19  CA  TYR    19      27.706  15.926  -2.752  1.00 25.00           C
ATOM     20  CA  ALA    20      25.732  15.029  -5.925  1.00 25.00           C
ATOM     21  CA  PHE    21      23.947  18.406  -6.246  1.00 25.00           C
ATOM     22  CA  PRO    22      22.251  21.023  -8.387  1.00 25.00           C
ATOM     23  CA  GLU    23      23.206  23.818 -10.794  1.00 25.00           C
ATOM     24  CA  ARG    24      26.892  22.884 -11.239  1.00 25.00           C
ATOM     25  CA  TYR    25      28.058  23.722  -7.722  1.00 25.00           C
ATOM     26  CA  TYR    26      26.111  22.771  -4.551  1.00 25.00           C
ATOM     27  CA  LEU    27      25.355  20.408  -1.650  1.00 25.00           C
ATOM     28  CA  LYS    28      25.713  18.603   1.676  1.00 25.00           C
ATOM     29  CA  SER    29      24.711  16.654   4.727  1.00 25.00           C
ATOM     30  CA  PHE    30      24.865  13.035   5.760  1.00 25.00           C
ATOM     31  CA  GLN    31      24.622  13.314   9.548  1.00 25.00           C
ATOM     32  CA  VAL    32      22.294  10.623  10.897  1.00 25.00           C
ATOM     33  CA  ASP    33      21.486   7.394  12.636  1.00 25.00           C
ATOM     34  CA  GLU    34      24.434   5.867  14.578  1.00 25.00           C
ATOM     35  CA  GLY    35      26.162   2.958  12.782  1.00 25.00           C
ATOM     36  CA  ILE    36      24.674   2.984   9.235  1.00 25.00           C
ATOM     37  CA  THR    37      21.975   5.296   7.956  1.00 25.00           C
ATOM     38  CA  VAL    38      24.232   7.613   5.850  1.00 25.00           C
ATOM     39  CA  GLN    39      26.237   8.093   9.078  1.00 25.00           C
ATOM     40  CA  THR    40      28.792   5.491   7.906  1.00 25.00           C
ATOM     41  CA  ALA    41      29.099   7.277   4.532  1.00 25.00           C
ATOM     42  CA  ILE    42      29.638  10.620   6.322  1.00 25.00           C
ATOM     43  CA  THR    43      32.343   9.035   8.521  1.00 25.00           C
ATOM     44  CA  GLN    44      34.065   7.603   5.414  1.00 25.00           C
ATOM     45  CA  SER    45      33.961  11.046   3.740  1.00 25.00           C
ATOM     46  CA  GLY    46      32.477   9.448   0.586  1.00 25.00           C
ATOM     47  CA  ILE    47      31.856  12.018  -2.071  1.00 25.00           C
ATOM     48  CA  LEU    48      35.494  13.250  -1.856  1.00 25.00           C
ATOM     49  CA  SER    49      37.572  10.615  -0.011  1.00 25.00           C
ATOM     50  CA  GLN    50      38.801  13.276   2.453  1.00 25.00           C
ATOM     51  CA  PHE    51      36.989  16.618   2.433  1.00 25.00           C
ATOM     52  CA  PRO    52      39.198  18.967   0.414  1.00 25.00           C
ATOM     53  CA  GLU    53      39.094  21.319   3.329  1.00 25.00           C
ATOM     54  CA  ILE    54      38.588  21.531   7.074  1.00 25.00           C
ATOM     55  CA  ASP    55      38.884  18.089   8.731  1.00 25.00           C
ATOM     56  CA  LEU    56      35.293  18.615   9.930  1.00 25.00           C
TER
END
