
#######################################################
#                                                     #
#                        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_5-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS393_5-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N      11           -
LGA    N      11      Q      12           #
LGA    Q      12      I      13          3.695
LGA    I      13      N      14          2.523
LGA    N      14      I      15          2.939
LGA    I      15      E      16          2.370
LGA    E      16      I      17          1.673
LGA    I      17      A      18          1.301
LGA    A      18      Y      19          5.126
LGA    Y      19      -       -           -
LGA    A      20      A      20           #
LGA    F      21      F      21          2.013
LGA    P      22      P      22          4.060
LGA    E      23      E      23          3.439
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      R      24          2.952
LGA    L      27      Y      25          1.921
LGA    K      28      Y      26          5.223
LGA    S      29      L      27          2.899
LGA    F      30      K      28          1.120
LGA    Q      31      S      29          0.653
LGA    V      32      F      30          1.479
LGA    D      33      Q      31          3.527
LGA    -       -      V      32           -
LGA    E      34      D      33          5.291
LGA    G      35      E      34           -
LGA    -       -      G      35           -
LGA    I      36      I      36          4.451
LGA    -       -      T      37           -
LGA    -       -      V      38           -
LGA    -       -      Q      39           -
LGA    -       -      T      40           -
LGA    T      37      A      41          2.322
LGA    V      38      I      42          5.135
LGA    Q      39      T      43          2.530
LGA    T      40      Q      44          2.177
LGA    A      41      S      45          2.876
LGA    -       -      G      46           -
LGA    I      42      I      47          2.688
LGA    T      43      L      48          3.144
LGA    Q      44      S      49          2.340
LGA    S      45      Q      50          2.783
LGA    G      46      F      51          3.577
LGA    I      47      P      52           #
LGA    L      48      -       -           -
LGA    S      49      -       -           -
LGA    Q      50      E      53          0.780
LGA    F      51      I      54          2.318
LGA    P      52      -       -           -
LGA    E      53      -       -           -
LGA    I      54      -       -           -
LGA    D      55      D      55          3.260
LGA    L      56      L      56          0.691

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   46   46    5.0     34    3.07    20.59     43.357     1.072

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.782162 * X  +   0.502477 * Y  +  -0.368428 * Z  +  25.185547
  Y_new =   0.363682 * X  +   0.111953 * Y  +   0.924771 * Z  +  15.473065
  Z_new =   0.505923 * X  +  -0.857312 * Y  +  -0.095176 * Z  +   3.851936 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.681360    1.460232  [ DEG:   -96.3348     83.6652 ]
  Theta =  -0.530452   -2.611141  [ DEG:   -30.3926   -149.6074 ]
  Phi   =   0.435233   -2.706360  [ DEG:    24.9370   -155.0630 ]
 
# 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_5-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS393_5-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   3.07   20.59  43.357
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS393_5-D1
PFRMAT TS
TARGET T0363
MODEL 5
PARENT N/A
ATOM     11  CA  ASN    11      11.371   7.324   9.027  1.00 25.00           C
ATOM     12  CA  GLN    12      14.717   8.884   8.105  1.00 25.00           C
ATOM     13  CA  ILE    13      18.131  10.407   7.529  1.00 25.00           C
ATOM     14  CA  ASN    14      21.497  11.472   8.984  1.00 25.00           C
ATOM     15  CA  ILE    15      22.942  13.370   6.039  1.00 25.00           C
ATOM     16  CA  GLU    16      23.510  16.779   4.412  1.00 25.00           C
ATOM     17  CA  ILE    17      24.685  19.280   1.730  1.00 25.00           C
ATOM     18  CA  ALA    18      26.575  18.194  -1.431  1.00 25.00           C
ATOM     19  CA  TYR    19      28.243  17.985  -4.854  1.00 25.00           C
ATOM     20  CA  ALA    20      30.734  20.877  -4.412  1.00 25.00           C
ATOM     21  CA  PHE    21      30.909  24.677  -4.418  1.00 25.00           C
ATOM     22  CA  PRO    22      32.568  26.397  -7.387  1.00 25.00           C
ATOM     23  CA  GLU    23      31.542  29.753  -8.777  1.00 25.00           C
ATOM     24  CA  ARG    24      29.908  27.924 -11.631  1.00 25.00           C
ATOM     25  CA  TYR    25      27.717  26.493  -8.889  1.00 25.00           C
ATOM     26  CA  TYR    26      26.271  24.119  -6.341  1.00 25.00           C
ATOM     27  CA  LEU    27      25.931  23.093  -2.653  1.00 25.00           C
ATOM     28  CA  LYS    28      22.629  21.147  -2.441  1.00 25.00           C
ATOM     29  CA  SER    29      21.529  17.519  -2.760  1.00 25.00           C
ATOM     30  CA  PHE    30      22.905  14.964  -0.258  1.00 25.00           C
ATOM     31  CA  GLN    31      21.389  11.911   1.446  1.00 25.00           C
ATOM     32  CA  VAL    32      23.068   8.972   3.120  1.00 25.00           C
ATOM     33  CA  ASP    33      23.439   5.734   5.175  1.00 25.00           C
ATOM     34  CA  GLU    34      25.541   2.820   6.407  1.00 25.00           C
ATOM     35  CA  GLY    35      28.293   3.250   9.002  1.00 25.00           C
ATOM     36  CA  ILE    36      27.288   6.945   9.434  1.00 25.00           C
ATOM     37  CA  THR    37      26.273   9.724   7.030  1.00 25.00           C
ATOM     38  CA  VAL    38      28.577   8.614   4.238  1.00 25.00           C
ATOM     39  CA  GLN    39      31.215   9.409   6.898  1.00 25.00           C
ATOM     40  CA  THR    40      33.861   7.520   4.873  1.00 25.00           C
ATOM     41  CA  ALA    41      32.878   9.467   1.725  1.00 25.00           C
ATOM     42  CA  ILE    42      33.148  12.766   3.651  1.00 25.00           C
ATOM     43  CA  THR    43      36.612  11.759   4.939  1.00 25.00           C
ATOM     44  CA  GLN    44      37.713  10.895   1.374  1.00 25.00           C
ATOM     45  CA  SER    45      36.441  14.288   0.133  1.00 25.00           C
ATOM     46  CA  GLY    46      36.322  16.828   2.942  1.00 25.00           C
ATOM     47  CA  ILE    47      34.608  19.850   4.461  1.00 25.00           C
ATOM     48  CA  LEU    48      34.879  23.617   4.660  1.00 25.00           C
ATOM     49  CA  SER    49      37.981  24.786   2.741  1.00 25.00           C
ATOM     50  CA  GLN    50      39.338  21.204   2.704  1.00 25.00           C
ATOM     51  CA  PHE    51      39.429  19.346   6.032  1.00 25.00           C
ATOM     52  CA  PRO    52      42.559  21.288   6.861  1.00 25.00           C
ATOM     53  CA  GLU    53      40.202  23.782   8.612  1.00 25.00           C
ATOM     54  CA  ILE    54      38.302  23.366  11.866  1.00 25.00           C
ATOM     55  CA  ASP    55      39.783  19.821  11.931  1.00 25.00           C
ATOM     56  CA  LEU    56      36.262  18.461  11.196  1.00 25.00           C
TER
END
