
#######################################################
#                                                     #
#                        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   67 (   67),  selected   67 , name T0379TS168_1-D2
# Molecule2: number of CA atoms   64 (  528),  selected   64 , name T0379_D2.pdb
# PARAMETERS: T0379TS168_1-D2.T0379_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    N      17      N      17          1.844
LGA    R      18      R      18          1.544
LGA    E      19      E      19          1.737
LGA    E      20      E      20          1.192
LGA    S      21      S      21          0.886
LGA    I      22      I      22          1.321
LGA    R      23      R      23          1.305
LGA    R      24      R      24          1.149
LGA    F      25      F      25          1.720
LGA    K      26      K      26          2.180
LGA    A      27      A      27          1.958
LGA    I      28      I      28          2.645
LGA    G      29      G      29          3.141
LGA    V      30      V      30          2.752
LGA    A      31      A      31          0.773
LGA    D      32      D      32          4.885
LGA    I      33      I      33          2.734
LGA    E      34      E      34          3.524
LGA    E      35      E      35          5.181
LGA    M      36      M      36          2.650
LGA    L      37      L      37          2.328
LGA    D      38      D      38          4.849
LGA    -       -      P      39           -
LGA    P      39      K      43           #
LGA    Y      40      G      44          1.134
LGA    L      41      L      45          2.142
LGA    Q      42      F      46          3.690
LGA    K      43      L      47          2.863
LGA    G      44      D      48          1.807
LGA    L      45      L      49          3.432
LGA    F      46      E      50          5.028
LGA    L      47      S      51          4.755
LGA    D      48      G      52          3.357
LGA    L      49      R      53           #
LGA    E      50      -       -           -
LGA    S      51      -       -           -
LGA    G      52      -       -           -
LGA    R      53      -       -           -
LGA    K      54      -       -           -
LGA    S      55      -       -           -
LGA    E      56      -       -           -
LGA    E      57      K      54           #
LGA    E      58      S      55          0.586
LGA    F      59      E      56          2.040
LGA    R      60      E      57          2.552
LGA    T      61      E      58          0.847
LGA    E      62      F      59          1.859
LGA    L      63      R      60          3.119
LGA    S      64      T      61          2.673
LGA    R      65      E      62          2.004
LGA    Y      66      L      63          3.512
LGA    I      67      S      64          3.988
LGA    G      68      R      65          3.429
LGA    K      69      Y      66          4.056
LGA    -       -      I      67           -
LGA    E      70      G      68          2.712
LGA    L      71      K      69          2.865
LGA    T      72      E      70          2.240
LGA    Y      73      L      71          2.106
LGA    -       -      T      72           -
LGA    -       -      Y      73           -
LGA    Q      74      Q      74           #
LGA    Q      75      Q      75          4.337
LGA    V      76      V      76          2.170
LGA    Y      77      Y      77          3.772
LGA    D      78      D      78          3.134
LGA    A      79      A      79          0.853
LGA    L      80      L      80          3.052
LGA    L      81      L      81          4.036
LGA    G      82      G      82          2.466
LGA    F      83      F      83          3.115

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   67   64    5.0     56    2.89    58.93     54.545     1.872

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.942423 * X  +  -0.312257 * Y  +   0.119722 * Z  +  62.649990
  Y_new =  -0.333668 * X  +  -0.902000 * Y  +   0.273972 * Z  +  12.950326
  Z_new =   0.022439 * X  +  -0.298145 * Y  +  -0.954257 * Z  +   7.975380 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.838765    0.302828  [ DEG:  -162.6493     17.3507 ]
  Theta =  -0.022441   -3.119152  [ DEG:    -1.2858   -178.7142 ]
  Phi   =  -0.340281    2.801311  [ DEG:   -19.4967    160.5033 ]
 
# 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: T0379TS168_1-D2                               
REMARK     2: T0379_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0379TS168_1-D2.T0379_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   67   64   5.0   56   2.89   58.93  54.545
REMARK  ---------------------------------------------------------- 
MOLECULE T0379TS168_1-D2
PFRMAT TS
TARGET T0379
MODEL 1
PARENT N/A
ATOM     17  CA  ASN    17      68.545   8.910  13.311  1.00 25.00           C
ATOM     18  CA  ARG    18      67.340   5.837  15.276  1.00 25.00           C
ATOM     19  CA  GLU    19      70.291   3.778  16.586  1.00 25.00           C
ATOM     20  CA  GLU    20      71.322   6.668  18.878  1.00 25.00           C
ATOM     21  CA  SER    21      67.735   6.938  20.193  1.00 25.00           C
ATOM     22  CA  ILE    22      67.673   3.168  20.865  1.00 25.00           C
ATOM     23  CA  ARG    23      71.004   3.421  22.738  1.00 25.00           C
ATOM     24  CA  ARG    24      69.632   6.317  24.836  1.00 25.00           C
ATOM     25  CA  PHE    25      66.500   4.272  25.657  1.00 25.00           C
ATOM     26  CA  LYS    26      68.683   1.301  26.694  1.00 25.00           C
ATOM     27  CA  ALA    27      70.780   3.592  28.934  1.00 25.00           C
ATOM     28  CA  ILE    28      68.841   5.460  31.641  1.00 25.00           C
ATOM     29  CA  GLY    29      67.693   2.113  33.030  1.00 25.00           C
ATOM     30  CA  VAL    30      64.945   2.275  30.473  1.00 25.00           C
ATOM     31  CA  ALA    31      63.070  -0.725  29.179  1.00 25.00           C
ATOM     32  CA  ASP    32      60.014   1.581  29.241  1.00 25.00           C
ATOM     33  CA  ILE    33      60.887   2.873  25.742  1.00 25.00           C
ATOM     34  CA  GLU    34      61.229  -0.724  24.473  1.00 25.00           C
ATOM     35  CA  GLU    35      57.825  -1.609  25.989  1.00 25.00           C
ATOM     36  CA  MET    36      56.253   1.454  24.309  1.00 25.00           C
ATOM     37  CA  LEU    37      57.791   0.433  20.954  1.00 25.00           C
ATOM     38  CA  ASP    38      54.389  -1.051  20.114  1.00 25.00           C
ATOM     39  CA  PRO    39      53.244   2.365  18.889  1.00 25.00           C
ATOM     40  CA  TYR    40      50.477   2.653  21.521  1.00 25.00           C
ATOM     41  CA  LEU    41      51.670   6.178  22.426  1.00 25.00           C
ATOM     42  CA  GLN    42      51.655   7.160  18.724  1.00 25.00           C
ATOM     43  CA  LYS    43      48.098   5.787  18.350  1.00 25.00           C
ATOM     44  CA  GLY    44      46.980   7.776  21.426  1.00 25.00           C
ATOM     45  CA  LEU    45      48.556  10.951  19.977  1.00 25.00           C
ATOM     46  CA  PHE    46      46.759  10.353  16.648  1.00 25.00           C
ATOM     47  CA  LEU    47      43.439   9.879  18.498  1.00 25.00           C
ATOM     48  CA  ASP    48      44.022  13.135  20.429  1.00 25.00           C
ATOM     49  CA  LEU    49      44.771  14.972  17.153  1.00 25.00           C
ATOM     50  CA  GLU    50      41.560  13.572  15.605  1.00 25.00           C
ATOM     51  CA  SER    51      39.801  15.738  18.118  1.00 25.00           C
ATOM     52  CA  GLY    52      41.784  18.607  19.740  1.00 25.00           C
ATOM     53  CA  ARG    53      43.848  20.721  22.177  1.00 25.00           C
ATOM     54  CA  LYS    54      46.846  18.350  21.740  1.00 25.00           C
ATOM     55  CA  SER    55      49.008  20.887  23.510  1.00 25.00           C
ATOM     56  CA  GLU    56      52.206  19.179  24.835  1.00 25.00           C
ATOM     57  CA  GLU    57      50.197  18.153  27.929  1.00 25.00           C
ATOM     58  CA  GLU    58      48.527  15.337  25.941  1.00 25.00           C
ATOM     59  CA  PHE    59      51.953  14.133  24.723  1.00 25.00           C
ATOM     60  CA  ARG    60      53.269  14.159  28.319  1.00 25.00           C
ATOM     61  CA  THR    61      50.223  12.145  29.473  1.00 25.00           C
ATOM     62  CA  GLU    62      50.801   9.611  26.662  1.00 25.00           C
ATOM     63  CA  LEU    63      54.482   9.296  27.669  1.00 25.00           C
ATOM     64  CA  SER    64      53.462   8.732  31.316  1.00 25.00           C
ATOM     65  CA  ARG    65      50.970   6.034  30.228  1.00 25.00           C
ATOM     66  CA  TYR    66      53.692   4.327  28.144  1.00 25.00           C
ATOM     67  CA  ILE    67      56.075   4.409  31.142  1.00 25.00           C
ATOM     68  CA  GLY    68      53.303   2.489  32.972  1.00 25.00           C
ATOM     69  CA  LYS    69      54.065   4.741  35.869  1.00 25.00           C
ATOM     70  CA  GLU    70      57.657   5.294  37.130  1.00 25.00           C
ATOM     71  CA  LEU    71      60.101   7.217  34.941  1.00 25.00           C
ATOM     72  CA  THR    72      60.974  10.769  35.988  1.00 25.00           C
ATOM     73  CA  TYR    73      62.094  11.920  32.603  1.00 25.00           C
ATOM     74  CA  GLN    74      65.846  12.628  32.302  1.00 25.00           C
ATOM     75  CA  GLN    75      66.269   9.561  30.048  1.00 25.00           C
ATOM     76  CA  VAL    76      63.360  10.743  27.854  1.00 25.00           C
ATOM     77  CA  TYR    77      64.937  14.223  27.594  1.00 25.00           C
ATOM     78  CA  ASP    78      68.288  12.657  26.601  1.00 25.00           C
ATOM     79  CA  ALA    79      66.537  10.544  23.929  1.00 25.00           C
ATOM     80  CA  LEU    80      64.785  13.668  22.573  1.00 25.00           C
ATOM     81  CA  LEU    81      68.134  15.519  22.439  1.00 25.00           C
ATOM     82  CA  GLY    82      69.714  12.578  20.565  1.00 25.00           C
ATOM     83  CA  PHE    83      66.805  12.571  18.073  1.00 25.00           C
TER
END
