
#######################################################
#                                                     #
#                        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   61 (   61),  selected   61 , name T0381TS393_5-D1
# Molecule2: number of CA atoms   61 (  477),  selected   61 , name T0381_D1.pdb
# PARAMETERS: T0381TS393_5-D1.T0381_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V      17      V      17           -
LGA    Q      18      Q      18           -
LGA    S      19      S      19           -
LGA    L      20      L      20           -
LGA    A      21      A      21           -
LGA    R      22      R      22           -
LGA    G      23      G      23           -
LGA    L      24      L      24           -
LGA    A      25      A      25           -
LGA    V      26      V      26           -
LGA    I      27      I      27           -
LGA    R      28      R      28           -
LGA    -       -      C      29           -
LGA    C      29      F      30           #
LGA    F      30      -       -           -
LGA    D      31      -       -           -
LGA    H      32      -       -           -
LGA    R      33      -       -           -
LGA    N      34      -       -           -
LGA    Q      35      D      31           #
LGA    R      36      H      32          2.750
LGA    R      37      R      33           #
LGA    T      38      N      34          1.012
LGA    -       -      Q      35           -
LGA    L      39      R      36          2.927
LGA    S      40      R      37          4.831
LGA    D      41      -       -           -
LGA    V      42      -       -           -
LGA    A      43      T      38          3.122
LGA    R      44      L      39           #
LGA    A      45      -       -           -
LGA    T      46      S      40          2.063
LGA    D      47      D      41           -
LGA    -       -      V      42           -
LGA    -       -      A      43           -
LGA    -       -      R      44           -
LGA    -       -      A      45           -
LGA    -       -      T      46           -
LGA    -       -      D      47           -
LGA    -       -      L      48           -
LGA    L      48      T      49          4.568
LGA    T      49      R      50          2.142
LGA    R      50      A      51          0.927
LGA    A      51      T      52          1.111
LGA    T      52      A      53          0.910
LGA    A      53      R      54          0.712
LGA    R      54      R      55          0.715
LGA    R      55      F      56          0.579
LGA    F      56      L      57          0.848
LGA    L      57      L      58          0.660
LGA    L      58      T      59          0.659
LGA    T      59      L      60          0.956
LGA    L      60      V      61          1.223
LGA    V      61      E      62          1.140
LGA    E      62      L      63          1.404
LGA    L      63      -       -           -
LGA    G      64      G      64          2.708
LGA    Y      65      Y      65          1.451
LGA    V      66      V      66          3.087
LGA    A      67      A      67           -
LGA    T      68      T      68           -
LGA    D      69      D      69           -
LGA    G      70      G      70           -
LGA    S      71      S      71           -
LGA    A      72      A      72           -
LGA    -       -      F      73           -
LGA    F      73      W      74          5.403
LGA    W      74      L      75          0.663
LGA    L      75      T      76          1.985
LGA    T      76      P      77          3.822
LGA    P      77      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   61   61    5.0     28    2.38    17.86     36.659     1.129

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.963001 * X  +   0.142289 * Y  +   0.228875 * Z  +  25.032917
  Y_new =   0.221454 * X  +   0.901778 * Y  +   0.371152 * Z  +  72.204819
  Z_new =  -0.153584 * X  +   0.408105 * Y  +  -0.899923 * Z  +  -0.137977 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.715841   -0.425752  [ DEG:   155.6062    -24.3938 ]
  Theta =   0.154194    2.987398  [ DEG:     8.8347    171.1653 ]
  Phi   =   2.915560   -0.226033  [ DEG:   167.0493    -12.9507 ]
 
# 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: T0381TS393_5-D1                               
REMARK     2: T0381_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS393_5-D1.T0381_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   61   61   5.0   28   2.38   17.86  36.659
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS393_5-D1
PFRMAT TS
TARGET T0381
MODEL 5
PARENT N/A
ATOM     17  CA  VAL    17      14.701  74.666  15.058  1.00 25.00           C
ATOM     18  CA  GLN    18      11.351  72.830  14.783  1.00 25.00           C
ATOM     19  CA  SER    19      11.725  72.667  10.975  1.00 25.00           C
ATOM     20  CA  LEU    20      15.271  71.271  11.356  1.00 25.00           C
ATOM     21  CA  ALA    21      13.992  68.630  13.818  1.00 25.00           C
ATOM     22  CA  ARG    22      11.217  67.653  11.367  1.00 25.00           C
ATOM     23  CA  GLY    23      13.785  67.345   8.543  1.00 25.00           C
ATOM     24  CA  LEU    24      15.995  65.140  10.760  1.00 25.00           C
ATOM     25  CA  ALA    25      12.986  62.926  11.599  1.00 25.00           C
ATOM     26  CA  VAL    26      12.147  62.611   7.876  1.00 25.00           C
ATOM     27  CA  ILE    27      15.774  61.646   7.115  1.00 25.00           C
ATOM     28  CA  ARG    28      15.679  59.007   9.888  1.00 25.00           C
ATOM     29  CA  CYS    29      12.411  57.600   8.471  1.00 25.00           C
ATOM     30  CA  PHE    30      13.967  57.439   4.976  1.00 25.00           C
ATOM     31  CA  ASP    31      17.021  55.613   6.393  1.00 25.00           C
ATOM     32  CA  HIS    32      16.757  52.618   3.973  1.00 25.00           C
ATOM     33  CA  ARG    33      17.361  49.508   6.135  1.00 25.00           C
ATOM     34  CA  ASN    34      14.251  47.917   4.778  1.00 25.00           C
ATOM     35  CA  GLN    35      10.432  48.372   4.866  1.00 25.00           C
ATOM     36  CA  ARG    36       7.986  46.948   7.404  1.00 25.00           C
ATOM     37  CA  ARG    37       9.461  49.582   9.719  1.00 25.00           C
ATOM     38  CA  THR    38       6.089  51.211   9.612  1.00 25.00           C
ATOM     39  CA  LEU    39       6.211  54.987   9.846  1.00 25.00           C
ATOM     40  CA  SER    40       2.389  55.045   9.618  1.00 25.00           C
ATOM     41  CA  ASP    41       2.143  55.458  13.417  1.00 25.00           C
ATOM     42  CA  VAL    42       4.658  58.343  13.291  1.00 25.00           C
ATOM     43  CA  ALA    43       2.637  60.015  10.499  1.00 25.00           C
ATOM     44  CA  ARG    44      -0.569  59.636  12.560  1.00 25.00           C
ATOM     45  CA  ALA    45       1.172  61.183  15.600  1.00 25.00           C
ATOM     46  CA  THR    46       2.381  64.111  13.448  1.00 25.00           C
ATOM     47  CA  ASP    47      -0.799  66.227  13.746  1.00 25.00           C
ATOM     48  CA  LEU    48      -0.716  65.422  17.481  1.00 25.00           C
ATOM     49  CA  THR    49       1.288  65.413  20.781  1.00 25.00           C
ATOM     50  CA  ARG    50       4.704  66.828  21.712  1.00 25.00           C
ATOM     51  CA  ALA    51       5.997  64.322  24.305  1.00 25.00           C
ATOM     52  CA  THR    52       6.694  61.776  21.530  1.00 25.00           C
ATOM     53  CA  ALA    53       8.584  64.437  19.528  1.00 25.00           C
ATOM     54  CA  ARG    54      10.654  65.331  22.623  1.00 25.00           C
ATOM     55  CA  ARG    55      11.470  61.630  23.176  1.00 25.00           C
ATOM     56  CA  PHE    56      12.540  61.293  19.515  1.00 25.00           C
ATOM     57  CA  LEU    57      14.777  64.382  19.858  1.00 25.00           C
ATOM     58  CA  LEU    58      16.355  62.918  23.026  1.00 25.00           C
ATOM     59  CA  THR    59      16.994  59.609  21.207  1.00 25.00           C
ATOM     60  CA  LEU    60      18.618  61.494  18.297  1.00 25.00           C
ATOM     61  CA  VAL    61      20.839  63.421  20.751  1.00 25.00           C
ATOM     62  CA  GLU    62      21.868  60.138  22.435  1.00 25.00           C
ATOM     63  CA  LEU    63      25.128  59.382  20.623  1.00 25.00           C
ATOM     64  CA  GLY    64      23.589  56.372  18.927  1.00 25.00           C
ATOM     65  CA  TYR    65      20.072  55.009  18.330  1.00 25.00           C
ATOM     66  CA  VAL    66      16.310  55.417  18.530  1.00 25.00           C
ATOM     67  CA  ALA    67      15.326  51.975  19.867  1.00 25.00           C
ATOM     68  CA  THR    68      12.192  51.394  22.027  1.00 25.00           C
ATOM     69  CA  ASP    69      12.590  47.988  23.754  1.00 25.00           C
ATOM     70  CA  GLY    70      12.603  46.081  20.452  1.00 25.00           C
ATOM     71  CA  SER    71      10.653  45.653  17.169  1.00 25.00           C
ATOM     72  CA  ALA    72       8.993  48.534  15.322  1.00 25.00           C
ATOM     73  CA  PHE    73      11.524  51.371  15.052  1.00 25.00           C
ATOM     74  CA  TRP    74      14.918  52.856  14.326  1.00 25.00           C
ATOM     75  CA  LEU    75      18.005  54.582  13.040  1.00 25.00           C
ATOM     76  CA  THR    76      21.614  53.457  13.318  1.00 25.00           C
ATOM     77  CA  PRO    77      23.149  56.901  13.266  1.00 25.00           C
TER
END
