
#######################################################
#                                                     #
#                        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   65 (   65),  selected   65 , name T0358TS168_3-D1
# Molecule2: number of CA atoms   65 ( 1035),  selected   65 , name T0358_D1.pdb
# PARAMETERS: T0358TS168_3-D1.T0358_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G      10      G      10           -
LGA    P      11      P      11           -
LGA    F      12      F      12           -
LGA    T      13      T      13           -
LGA    R      14      R      14           -
LGA    R      15      R      15           -
LGA    Q      16      Q      16           -
LGA    A      17      A      17           -
LGA    Q      18      Q      18           -
LGA    A      19      A      19           -
LGA    V      20      V      20           -
LGA    T      21      T      21           -
LGA    T      22      T      22           -
LGA    T      23      T      23           -
LGA    Y      24      -       -           -
LGA    S      25      Y      24           #
LGA    N      26      S      25          4.866
LGA    I      27      N      26           #
LGA    T      28      I      27          3.143
LGA    L      29      T      28          3.633
LGA    E      30      L      29          2.698
LGA    D      31      E      30          2.528
LGA    -       -      D      31           -
LGA    D      32      D      32          3.969
LGA    Q      33      Q      33          3.477
LGA    -       -      G      34           -
LGA    G      34      S      35           #
LGA    S      35      H      36          2.973
LGA    H      36      F      37          2.981
LGA    F      37      R      38          2.541
LGA    R      38      L      39          3.686
LGA    L      39      V      40          4.202
LGA    V      40      V      41          1.546
LGA    V      41      R      42          1.642
LGA    R      42      D      43          1.632
LGA    D      43      T      44          3.368
LGA    T      44      E      45          2.175
LGA    E      45      G      46           -
LGA    G      46      -       -           -
LGA    R      47      R      47          3.521
LGA    M      48      M      48          2.831
LGA    V      49      V      49           #
LGA    W      50      W      50          5.332
LGA    R      51      R      51          1.617
LGA    A      52      A      52          2.178
LGA    W      53      W      53          2.848
LGA    N      54      N      54          3.407
LGA    F      55      F      55          2.621
LGA    E      56      E      56           #
LGA    P      57      P      57           -
LGA    D      58      D      58           -
LGA    A      59      -       -           -
LGA    G      60      A      59          5.467
LGA    E      61      G      60          2.054
LGA    G      62      E      61          0.744
LGA    L      63      G      62          0.498
LGA    N      64      L      63          0.846
LGA    R      65      N      64          1.487
LGA    Y      66      R      65          1.321
LGA    I      67      Y      66          1.225
LGA    R      68      I      67          1.246
LGA    T      69      R      68          1.159
LGA    S      70      T      69          1.651
LGA    G      71      S      70           -
LGA    I      72      G      71           -
LGA    R      73      I      72           -
LGA    T      74      R      73           -
LGA    -       -      T      74           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   65   65    5.0     36    2.87    30.56     34.753     1.211

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.710029 * X  +   0.402426 * Y  +   0.577851 * Z  +   0.029483
  Y_new =   0.312107 * X  +   0.555755 * Y  +  -0.770536 * Z  +  -0.901508
  Z_new =  -0.631227 * X  +   0.727454 * Y  +   0.269003 * Z  +   8.653521 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.216604   -1.924989  [ DEG:    69.7063   -110.2937 ]
  Theta =   0.683135    2.458458  [ DEG:    39.1407    140.8593 ]
  Phi   =   0.414145   -2.727447  [ DEG:    23.7288   -156.2712 ]
 
# 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: T0358TS168_3-D1                               
REMARK     2: T0358_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS168_3-D1.T0358_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   65   65   5.0   36   2.87   30.56  34.753
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS168_3-D1
PFRMAT TS
TARGET T0358
MODEL 3
PARENT N/A
ATOM     10  CA  GLY    10      -6.823  10.327  17.880  1.00 25.00           C
ATOM     11  CA  PRO    11      -7.905   6.899  18.971  1.00 25.00           C
ATOM     12  CA  PHE    12      -6.604   4.501  16.374  1.00 25.00           C
ATOM     13  CA  THR    13      -8.480   6.802  13.991  1.00 25.00           C
ATOM     14  CA  ARG    14      -8.051   8.930  10.867  1.00 25.00           C
ATOM     15  CA  ARG    15     -10.910   6.946   9.269  1.00 25.00           C
ATOM     16  CA  GLN    16      -8.701   6.147   6.245  1.00 25.00           C
ATOM     17  CA  ALA    17      -5.896   4.975   8.575  1.00 25.00           C
ATOM     18  CA  GLN    18      -8.367   2.748  10.471  1.00 25.00           C
ATOM     19  CA  ALA    19      -9.602   1.260   7.164  1.00 25.00           C
ATOM     20  CA  VAL    20      -5.989   0.571   6.097  1.00 25.00           C
ATOM     21  CA  THR    21      -5.297  -1.135   9.455  1.00 25.00           C
ATOM     22  CA  THR    22      -8.437  -3.287   9.037  1.00 25.00           C
ATOM     23  CA  THR    23      -7.326  -4.267   5.506  1.00 25.00           C
ATOM     24  CA  TYR    24      -3.859  -5.209   6.831  1.00 25.00           C
ATOM     25  CA  SER    25      -3.090  -7.529   3.980  1.00 25.00           C
ATOM     26  CA  ASN    26      -2.803  -6.710   0.232  1.00 25.00           C
ATOM     27  CA  ILE    27      -0.566  -3.831  -0.941  1.00 25.00           C
ATOM     28  CA  THR    28      -2.186  -0.731  -2.543  1.00 25.00           C
ATOM     29  CA  LEU    29      -3.921   2.582  -3.064  1.00 25.00           C
ATOM     30  CA  GLU    30      -1.595   4.674  -5.324  1.00 25.00           C
ATOM     31  CA  ASP    31      -4.672   5.472  -7.471  1.00 25.00           C
ATOM     32  CA  ASP    32      -5.322   7.640 -10.458  1.00 25.00           C
ATOM     33  CA  GLN    33      -5.018  10.886  -8.415  1.00 25.00           C
ATOM     34  CA  GLY    34      -3.103  12.283  -5.442  1.00 25.00           C
ATOM     35  CA  SER    35      -0.558   9.651  -4.406  1.00 25.00           C
ATOM     36  CA  HIS    36      -1.137   8.187  -1.007  1.00 25.00           C
ATOM     37  CA  PHE    37       0.143   4.699  -0.279  1.00 25.00           C
ATOM     38  CA  ARG    38       0.861   1.251   1.226  1.00 25.00           C
ATOM     39  CA  LEU    39      -2.059  -0.539   2.921  1.00 25.00           C
ATOM     40  CA  VAL    40      -5.381  -1.554   1.234  1.00 25.00           C
ATOM     41  CA  VAL    41      -7.900  -4.309   0.463  1.00 25.00           C
ATOM     42  CA  ARG    42      -8.122  -7.833   1.884  1.00 25.00           C
ATOM     43  CA  ASP    43     -11.722  -8.765   2.576  1.00 25.00           C
ATOM     44  CA  THR    44     -14.569  -8.952   0.039  1.00 25.00           C
ATOM     45  CA  GLU    45     -16.966  -8.633   2.957  1.00 25.00           C
ATOM     46  CA  GLY    46     -18.913  -5.738   1.398  1.00 25.00           C
ATOM     47  CA  ARG    47     -15.791  -3.578   2.050  1.00 25.00           C
ATOM     48  CA  MET    48     -12.121  -2.945   2.981  1.00 25.00           C
ATOM     49  CA  VAL    49     -10.431   0.069   1.364  1.00 25.00           C
ATOM     50  CA  TRP    50      -7.811   2.809   1.989  1.00 25.00           C
ATOM     51  CA  ARG    51      -4.201   3.986   2.226  1.00 25.00           C
ATOM     52  CA  ALA    52      -2.131   4.042   5.425  1.00 25.00           C
ATOM     53  CA  TRP    53      -0.343   7.190   4.352  1.00 25.00           C
ATOM     54  CA  ASN    54       3.170   7.024   3.014  1.00 25.00           C
ATOM     55  CA  PHE    55       5.833   8.217   0.596  1.00 25.00           C
ATOM     56  CA  GLU    56       8.064   5.184   0.812  1.00 25.00           C
ATOM     57  CA  PRO    57      10.219   2.530  -0.945  1.00 25.00           C
ATOM     58  CA  ASP    58       8.576  -0.764  -2.036  1.00 25.00           C
ATOM     59  CA  ALA    59       5.878   0.241   0.451  1.00 25.00           C
ATOM     60  CA  GLY    60       8.114   0.802   3.512  1.00 25.00           C
ATOM     61  CA  GLU    61       6.078   3.376   5.448  1.00 25.00           C
ATOM     62  CA  GLY    62       6.679   1.853   8.909  1.00 25.00           C
ATOM     63  CA  LEU    63       2.935   1.135   9.272  1.00 25.00           C
ATOM     64  CA  ASN    64       2.895  -0.532   5.824  1.00 25.00           C
ATOM     65  CA  ARG    65       5.916  -2.676   6.800  1.00 25.00           C
ATOM     66  CA  TYR    66       4.168  -3.704  10.047  1.00 25.00           C
ATOM     67  CA  ILE    67       1.016  -4.643   8.085  1.00 25.00           C
ATOM     68  CA  ARG    68       3.122  -6.729   5.657  1.00 25.00           C
ATOM     69  CA  THR    69       4.803  -8.505   8.604  1.00 25.00           C
ATOM     70  CA  SER    70       7.414 -10.485   6.729  1.00 25.00           C
ATOM     71  CA  GLY    71      10.008  -9.701   9.469  1.00 25.00           C
ATOM     72  CA  ILE    72       7.796 -10.099  12.531  1.00 25.00           C
ATOM     73  CA  ARG    73       9.199 -13.600  13.049  1.00 25.00           C
ATOM     74  CA  THR    74      11.993 -15.508  14.898  1.00 25.00           C
TER
END
