
#######################################################
#                                                     #
#                        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_3-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS168_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           -
LGA    N      11      Q      12          4.045
LGA    Q      12      I      13          1.582
LGA    I      13      N      14          2.233
LGA    N      14      I      15          2.438
LGA    I      15      E      16          1.983
LGA    E      16      I      17          1.923
LGA    I      17      A      18          1.391
LGA    A      18      Y      19          2.368
LGA    Y      19      A      20           #
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    A      20      E      23           #
LGA    F      21      R      24          1.849
LGA    P      22      Y      25           #
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    Y      26      -       -           -
LGA    L      27      Y      26          4.629
LGA    K      28      L      27          3.502
LGA    S      29      K      28          2.972
LGA    F      30      S      29          3.075
LGA    Q      31      F      30          3.355
LGA    V      32      Q      31           #
LGA    D      33      V      32          4.415
LGA    -       -      D      33           -
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    -       -      I      36           -
LGA    -       -      T      37           -
LGA    -       -      V      38           -
LGA    -       -      Q      39           -
LGA    E      34      T      40          2.314
LGA    G      35      A      41           #
LGA    I      36      I      42           #
LGA    -       -      T      43           -
LGA    T      37      Q      44          4.106
LGA    V      38      S      45          1.245
LGA    Q      39      G      46          4.242
LGA    T      40      -       -           -
LGA    A      41      -       -           -
LGA    I      42      I      47          0.869
LGA    T      43      L      48          1.275
LGA    Q      44      S      49          0.667
LGA    S      45      Q      50          1.629
LGA    G      46      F      51          2.046
LGA    I      47      -       -           -
LGA    L      48      P      52           #
LGA    S      49      E      53          1.435
LGA    Q      50      I      54          2.340
LGA    F      51      D      55          2.783
LGA    P      52      L      56          2.653
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     28    2.70     3.57     39.604     0.998

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.901410 * X  +  -0.243288 * Y  +  -0.358149 * Z  +  24.105919
  Y_new =  -0.271828 * X  +  -0.961854 * Y  +  -0.030773 * Z  +  14.363881
  Z_new =  -0.337000 * X  +   0.125094 * Y  +  -0.933157 * Z  +   3.352561 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.008332   -0.133261  [ DEG:   172.3647     -7.6353 ]
  Theta =   0.343729    2.797864  [ DEG:    19.6942    160.3058 ]
  Phi   =  -0.292886    2.848706  [ DEG:   -16.7812    163.2188 ]
 
# 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_3-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS168_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   28   2.70    3.57  39.604
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS168_3-D1
PFRMAT TS
TARGET T0363
MODEL 3
PARENT N/A
ATOM     11  CA  ASN    11      13.334   2.576   9.161  1.00 25.00           C
ATOM     12  CA  GLN    12      16.689   4.444   8.916  1.00 25.00           C
ATOM     13  CA  ILE    13      18.612   7.242   7.262  1.00 25.00           C
ATOM     14  CA  ASN    14      21.130  10.049   8.081  1.00 25.00           C
ATOM     15  CA  ILE    15      22.091  12.840   5.632  1.00 25.00           C
ATOM     16  CA  GLU    16      23.002  16.125   4.075  1.00 25.00           C
ATOM     17  CA  ILE    17      26.034  18.159   2.864  1.00 25.00           C
ATOM     18  CA  ALA    18      27.769  20.206   0.169  1.00 25.00           C
ATOM     19  CA  TYR    19      30.444  18.280  -1.732  1.00 25.00           C
ATOM     20  CA  ALA    20      30.207  18.802  -5.435  1.00 25.00           C
ATOM     21  CA  PHE    21      28.379  21.659  -7.114  1.00 25.00           C
ATOM     22  CA  PRO    22      28.140  24.769  -9.339  1.00 25.00           C
ATOM     23  CA  GLU    23      30.074  27.980 -10.079  1.00 25.00           C
ATOM     24  CA  ARG    24      30.222  30.869  -7.521  1.00 25.00           C
ATOM     25  CA  TYR    25      27.577  29.125  -5.401  1.00 25.00           C
ATOM     26  CA  TYR    26      27.502  25.554  -4.088  1.00 25.00           C
ATOM     27  CA  LEU    27      25.002  22.909  -3.054  1.00 25.00           C
ATOM     28  CA  LYS    28      24.905  19.289  -4.266  1.00 25.00           C
ATOM     29  CA  SER    29      24.883  16.483  -1.719  1.00 25.00           C
ATOM     30  CA  PHE    30      23.389  13.362  -0.099  1.00 25.00           C
ATOM     31  CA  GLN    31      24.674  10.371   1.961  1.00 25.00           C
ATOM     32  CA  VAL    32      25.407   8.225   5.058  1.00 25.00           C
ATOM     33  CA  ASP    33      26.103   5.910   8.007  1.00 25.00           C
ATOM     34  CA  GLU    34      29.290   6.638  10.028  1.00 25.00           C
ATOM     35  CA  GLY    35      31.005   3.360   9.142  1.00 25.00           C
ATOM     36  CA  ILE    36      31.449   5.081   5.772  1.00 25.00           C
ATOM     37  CA  THR    37      29.207   5.372   2.748  1.00 25.00           C
ATOM     38  CA  VAL    38      29.536   8.987   1.754  1.00 25.00           C
ATOM     39  CA  GLN    39      31.689  10.104   4.718  1.00 25.00           C
ATOM     40  CA  THR    40      34.797   8.605   3.058  1.00 25.00           C
ATOM     41  CA  ALA    41      33.965  10.431  -0.205  1.00 25.00           C
ATOM     42  CA  ILE    42      33.546  13.719   1.713  1.00 25.00           C
ATOM     43  CA  THR    43      36.924  13.174   3.434  1.00 25.00           C
ATOM     44  CA  GLN    44      38.570  12.498   0.043  1.00 25.00           C
ATOM     45  CA  SER    45      37.021  15.700  -1.375  1.00 25.00           C
ATOM     46  CA  GLY    46      35.049  18.448   0.336  1.00 25.00           C
ATOM     47  CA  ILE    47      32.581  19.826   2.831  1.00 25.00           C
ATOM     48  CA  LEU    48      35.329  22.200   4.091  1.00 25.00           C
ATOM     49  CA  SER    49      38.667  21.049   2.608  1.00 25.00           C
ATOM     50  CA  GLN    50      39.431  19.071   5.796  1.00 25.00           C
ATOM     51  CA  PHE    51      36.299  18.772   7.996  1.00 25.00           C
ATOM     52  CA  PRO    52      38.346  19.608  11.093  1.00 25.00           C
ATOM     53  CA  GLU    53      40.190  22.521   9.420  1.00 25.00           C
ATOM     54  CA  ILE    54      37.735  24.934   7.784  1.00 25.00           C
ATOM     55  CA  ASP    55      34.521  25.598   9.651  1.00 25.00           C
ATOM     56  CA  LEU    56      33.921  22.252  11.464  1.00 25.00           C
TER
END
