
#######################################################
#                                                     #
#                        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 T0381TS168_2-D1
# Molecule2: number of CA atoms   61 (  477),  selected   61 , name T0381_D1.pdb
# PARAMETERS: T0381TS168_2-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           -
LGA    Q      18      S      19          4.059
LGA    S      19      -       -           -
LGA    L      20      -       -           -
LGA    A      21      -       -           -
LGA    R      22      L      20           #
LGA    G      23      A      21           -
LGA    -       -      R      22           -
LGA    L      24      G      23          4.744
LGA    A      25      L      24          2.945
LGA    V      26      A      25          2.473
LGA    I      27      V      26          3.306
LGA    R      28      I      27          1.623
LGA    C      29      R      28          0.607
LGA    F      30      C      29          2.366
LGA    D      31      F      30          1.922
LGA    H      32      D      31          3.092
LGA    R      33      H      32          1.528
LGA    N      34      R      33          2.266
LGA    Q      35      N      34          1.502
LGA    R      36      Q      35           #
LGA    R      37      R      36          4.565
LGA    T      38      R      37          4.603
LGA    L      39      T      38          4.325
LGA    -       -      L      39           -
LGA    S      40      S      40          1.903
LGA    D      41      D      41          4.159
LGA    V      42      V      42          3.698
LGA    A      43      A      43          1.326
LGA    R      44      R      44          3.995
LGA    -       -      A      45           -
LGA    -       -      T      46           -
LGA    A      45      D      47          1.196
LGA    T      46      L      48          1.736
LGA    -       -      T      49           -
LGA    -       -      R      50           -
LGA    D      47      A      51           #
LGA    L      48      T      52           #
LGA    T      49      A      53           -
LGA    R      50      R      54           -
LGA    A      51      -       -           -
LGA    T      52      -       -           -
LGA    A      53      -       -           -
LGA    R      54      R      55           #
LGA    R      55      -       -           -
LGA    F      56      -       -           -
LGA    L      57      -       -           -
LGA    L      58      F      56           #
LGA    -       -      L      57           -
LGA    -       -      L      58           -
LGA    T      59      T      59           #
LGA    L      60      L      60          3.263
LGA    V      61      V      61          2.624
LGA    E      62      E      62          2.577
LGA    L      63      L      63          3.615
LGA    G      64      G      64          2.790
LGA    Y      65      Y      65          2.508
LGA    V      66      V      66          1.275
LGA    A      67      A      67          1.398
LGA    T      68      T      68          1.911
LGA    D      69      D      69          2.968
LGA    G      70      G      70          2.629
LGA    S      71      S      71          2.502
LGA    A      72      A      72          1.706
LGA    F      73      F      73          0.825
LGA    W      74      W      74          0.469
LGA    L      75      L      75          1.301
LGA    T      76      T      76          1.376
LGA    P      77      P      77          4.397

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   61   61    5.0     41    2.80    58.54     43.705     1.415

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.871122 * X  +  -0.107110 * Y  +  -0.479243 * Z  +  13.140763
  Y_new =   0.222488 * X  +  -0.956097 * Y  +  -0.190730 * Z  +  43.167942
  Z_new =  -0.437774 * X  +  -0.272775 * Y  +   0.856707 * Z  +  34.788105 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.308250    2.833342  [ DEG:   -17.6615    162.3385 ]
  Theta =   0.453121    2.688471  [ DEG:    25.9619    154.0381 ]
  Phi   =   2.891535   -0.250058  [ DEG:   165.6727    -14.3273 ]
 
# 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: T0381TS168_2-D1                               
REMARK     2: T0381_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS168_2-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   41   2.80   58.54  43.705
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS168_2-D1
PFRMAT TS
TARGET T0381
MODEL 2
PARENT N/A
ATOM     17  CA  VAL    17       9.961  65.783  27.227  1.00 25.00           C
ATOM     18  CA  GLN    18       8.788  62.626  29.050  1.00 25.00           C
ATOM     19  CA  SER    19       5.806  62.326  26.666  1.00 25.00           C
ATOM     20  CA  LEU    20       8.144  62.702  23.656  1.00 25.00           C
ATOM     21  CA  ALA    21      10.444  59.987  25.071  1.00 25.00           C
ATOM     22  CA  ARG    22       7.437  57.669  25.575  1.00 25.00           C
ATOM     23  CA  GLY    23       6.311  58.305  21.970  1.00 25.00           C
ATOM     24  CA  LEU    24       9.838  57.516  20.704  1.00 25.00           C
ATOM     25  CA  ALA    25       9.868  54.270  22.734  1.00 25.00           C
ATOM     26  CA  VAL    26       6.460  53.301  21.281  1.00 25.00           C
ATOM     27  CA  ILE    27       7.743  54.000  17.740  1.00 25.00           C
ATOM     28  CA  ARG    28      10.835  51.841  18.410  1.00 25.00           C
ATOM     29  CA  CYS    29       8.608  49.007  19.703  1.00 25.00           C
ATOM     30  CA  PHE    30       6.419  49.265  16.571  1.00 25.00           C
ATOM     31  CA  ASP    31       9.536  49.125  14.350  1.00 25.00           C
ATOM     32  CA  HIS    32      10.496  45.764  12.708  1.00 25.00           C
ATOM     33  CA  ARG    33       8.055  46.702   9.934  1.00 25.00           C
ATOM     34  CA  ASN    34       5.610  47.405   7.103  1.00 25.00           C
ATOM     35  CA  GLN    35       5.301  50.876   8.577  1.00 25.00           C
ATOM     36  CA  ARG    36       2.470  52.963  10.065  1.00 25.00           C
ATOM     37  CA  ARG    37       4.870  55.823  10.708  1.00 25.00           C
ATOM     38  CA  THR    38       2.145  58.499  10.604  1.00 25.00           C
ATOM     39  CA  LEU    39       3.462  58.762  14.214  1.00 25.00           C
ATOM     40  CA  SER    40       0.377  60.990  14.641  1.00 25.00           C
ATOM     41  CA  ASP    41      -1.626  58.005  15.961  1.00 25.00           C
ATOM     42  CA  VAL    42       1.178  57.187  18.437  1.00 25.00           C
ATOM     43  CA  ALA    43       1.231  60.829  19.619  1.00 25.00           C
ATOM     44  CA  ARG    44      -2.569  60.755  20.095  1.00 25.00           C
ATOM     45  CA  ALA    45      -2.278  57.511  22.110  1.00 25.00           C
ATOM     46  CA  THR    46       0.444  59.085  24.296  1.00 25.00           C
ATOM     47  CA  ASP    47       0.749  60.284  27.930  1.00 25.00           C
ATOM     48  CA  LEU    48       3.341  60.689  30.699  1.00 25.00           C
ATOM     49  CA  THR    49       5.809  62.166  33.248  1.00 25.00           C
ATOM     50  CA  ARG    50       9.563  62.469  33.783  1.00 25.00           C
ATOM     51  CA  ALA    51      12.984  64.178  33.977  1.00 25.00           C
ATOM     52  CA  THR    52      14.725  60.774  33.768  1.00 25.00           C
ATOM     53  CA  ALA    53      12.607  59.851  30.713  1.00 25.00           C
ATOM     54  CA  ARG    54      13.510  63.181  29.051  1.00 25.00           C
ATOM     55  CA  ARG    55      17.222  62.551  29.750  1.00 25.00           C
ATOM     56  CA  PHE    56      16.937  59.044  28.237  1.00 25.00           C
ATOM     57  CA  LEU    57      15.231  60.496  25.131  1.00 25.00           C
ATOM     58  CA  LEU    58      18.017  63.103  24.789  1.00 25.00           C
ATOM     59  CA  THR    59      20.663  60.350  25.081  1.00 25.00           C
ATOM     60  CA  LEU    60      18.867  58.304  22.388  1.00 25.00           C
ATOM     61  CA  VAL    61      18.751  61.371  20.099  1.00 25.00           C
ATOM     62  CA  GLU    62      22.495  61.957  20.655  1.00 25.00           C
ATOM     63  CA  LEU    63      24.511  58.733  20.918  1.00 25.00           C
ATOM     64  CA  GLY    64      23.810  56.319  18.101  1.00 25.00           C
ATOM     65  CA  TYR    65      20.228  56.714  17.017  1.00 25.00           C
ATOM     66  CA  VAL    66      16.692  58.068  16.839  1.00 25.00           C
ATOM     67  CA  ALA    67      16.211  59.789  13.518  1.00 25.00           C
ATOM     68  CA  THR    68      15.486  63.227  11.959  1.00 25.00           C
ATOM     69  CA  ASP    69      16.692  65.501   9.114  1.00 25.00           C
ATOM     70  CA  GLY    70      13.487  65.320   7.073  1.00 25.00           C
ATOM     71  CA  SER    71      10.371  63.091   7.021  1.00 25.00           C
ATOM     72  CA  ALA    72      10.992  59.837   8.905  1.00 25.00           C
ATOM     73  CA  PHE    73      11.165  58.560  12.454  1.00 25.00           C
ATOM     74  CA  TRP    74      13.207  55.416  11.558  1.00 25.00           C
ATOM     75  CA  LEU    75      16.074  53.408  13.030  1.00 25.00           C
ATOM     76  CA  THR    76      19.253  52.302  14.812  1.00 25.00           C
ATOM     77  CA  PRO    77      18.863  50.320  18.094  1.00 25.00           C
TER
END
