
#######################################################
#                                                     #
#                        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   75 (   75),  selected   75 , name T0349TS599_1
# Molecule2: number of CA atoms   75 ( 1131),  selected   75 , name T0349.pdb
# PARAMETERS: T0349TS599_1.T0349.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    R       2      -       -           -
LGA    E       3      -       -           -
LGA    L       4      -       -           -
LGA    L       5      -       -           -
LGA    R       6      -       -           -
LGA    T       7      M       1          3.093
LGA    N       8      R       2          2.148
LGA    D       9      E       3          3.672
LGA    A      10      L       4          4.501
LGA    V      11      L       5           #
LGA    L      12      R       6          3.896
LGA    L      13      -       -           -
LGA    S      14      -       -           -
LGA    A      15      -       -           -
LGA    V      16      T       7          1.084
LGA    G      17      N       8          1.749
LGA    A      18      -       -           -
LGA    L      19      -       -           -
LGA    L      20      -       -           -
LGA    D      21      -       -           -
LGA    G      22      -       -           -
LGA    A      23      -       -           -
LGA    D      24      -       -           -
LGA    I      25      D       9           #
LGA    G      26      A      10          5.464
LGA    -       -      V      11           -
LGA    H      27      L      12          1.355
LGA    L      28      L      13          1.367
LGA    -       -      S      14           -
LGA    -       -      A      15           -
LGA    V      29      V      16          3.703
LGA    L      30      G      17          4.529
LGA    D      31      A      18           -
LGA    -       -      L      19           -
LGA    -       -      L      20           -
LGA    -       -      D      21           -
LGA    -       -      G      22           -
LGA    -       -      A      23           -
LGA    -       -      D      24           -
LGA    -       -      I      25           -
LGA    Q      32      G      26          4.708
LGA    N      33      H      27          3.157
LGA    M      34      L      28          1.487
LGA    S      35      V      29          3.769
LGA    I      36      L      30          1.851
LGA    L      37      D      31          3.272
LGA    E      38      Q      32           #
LGA    G      39      N      33          3.863
LGA    -       -      M      34           -
LGA    -       -      S      35           -
LGA    -       -      I      36           -
LGA    -       -      L      37           -
LGA    -       -      E      38           -
LGA    -       -      G      39           -
LGA    -       -      S      40           -
LGA    -       -      L      41           -
LGA    -       -      G      42           -
LGA    -       -      V      43           -
LGA    S      40      I      44          5.052
LGA    L      41      P      45          3.535
LGA    G      42      R      46           #
LGA    V      43      R      47           -
LGA    I      44      -       -           -
LGA    P      45      -       -           -
LGA    R      46      -       -           -
LGA    R      47      -       -           -
LGA    V      48      -       -           -
LGA    L      49      -       -           -
LGA    V      50      V      48           #
LGA    -       -      L      49           -
LGA    H      51      V      50          4.405
LGA    -       -      H      51           -
LGA    -       -      E      52           -
LGA    -       -      D      53           -
LGA    -       -      D      54           -
LGA    E      52      L      55          3.102
LGA    D      53      A      56          1.978
LGA    D      54      G      57          1.283
LGA    L      55      A      58          4.274
LGA    -       -      R      59           -
LGA    A      56      R      60          2.290
LGA    G      57      L      61          1.889
LGA    A      58      L      62          1.968
LGA    R      59      T      63          1.705
LGA    R      60      D      64          2.827
LGA    L      61      A      65          2.852
LGA    -       -      G      66           -
LGA    L      62      L      67          2.625
LGA    T      63      A      68           #
LGA    D      64      -       -           -
LGA    A      65      -       -           -
LGA    G      66      -       -           -
LGA    L      67      H      69           #
LGA    A      68      -       -           -
LGA    H      69      -       -           -
LGA    E      70      -       -           -
LGA    L      71      E      70           #
LGA    R      72      L      71           -
LGA    S      73      R      72           -
LGA    D      74      S      73           -
LGA    D      75      D      74           -
LGA    -       -      D      75           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   75   75    5.0     33    3.22     9.09     25.729     0.994

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.193474 * X  +  -0.059779 * Y  +  -0.979283 * Z  +   1.150356
  Y_new =   0.868254 * X  +   0.475206 * Y  +   0.142530 * Z  +  -0.378055
  Z_new =   0.456840 * X  +  -0.877842 * Y  +   0.143843 * Z  +   4.215262 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.408379    1.733213  [ DEG:   -80.6942     99.3058 ]
  Theta =  -0.474440   -2.667153  [ DEG:   -27.1834   -152.8166 ]
  Phi   =   1.351548   -1.790045  [ DEG:    77.4380   -102.5620 ]
 
# 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: T0349TS599_1                                  
REMARK     2: T0349.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS599_1.T0349.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   75   75   5.0   33   3.22    9.09  25.729
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS599_1
PFRMAT TS                                                                       
TARGET T0349                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       2.515   0.092  -9.152  1.00  0.00              
ATOM      2  CA  ARG     2       1.030   3.361  -9.357  1.00  0.00              
ATOM      3  CA  GLU     3      -0.162   4.983 -13.045  1.00  0.00              
ATOM      4  CA  LEU     4       1.659   4.369  -9.788  1.00  0.00              
ATOM      5  CA  LEU     5       5.069   5.116 -11.421  1.00  0.00              
ATOM      6  CA  ARG     6       3.889   8.316 -12.982  1.00  0.00              
ATOM      7  CA  THR     7       2.349   9.846  -9.908  1.00  0.00              
ATOM      8  CA  ASN     8       5.109   8.737  -7.481  1.00  0.00              
ATOM      9  CA  ASP     9       2.567   7.259  -5.154  1.00  0.00              
ATOM     10  CA  ALA    10       3.673   3.648  -4.570  1.00  0.00              
ATOM     11  CA  VAL    11       0.968   1.083  -5.431  1.00  0.00              
ATOM     12  CA  LEU    12       1.358  -2.492  -4.128  1.00  0.00              
ATOM     13  CA  LEU    13      -1.867  -4.243  -3.144  1.00  0.00              
ATOM     14  CA  SER    14      -1.000  -7.819  -4.147  1.00  0.00              
ATOM     15  CA  ALA    15       2.491  -7.649  -2.594  1.00  0.00              
ATOM     16  CA  VAL    16       1.093  -6.263   0.647  1.00  0.00              
ATOM     17  CA  GLY    17      -1.512  -8.986   0.852  1.00  0.00              
ATOM     18  CA  ALA    18       0.753 -11.901   0.308  1.00  0.00              
ATOM     19  CA  LEU    19       3.225 -10.741   2.883  1.00  0.00              
ATOM     20  CA  LEU    20       0.669 -10.029   5.539  1.00  0.00              
ATOM     21  CA  ASP    21      -1.120 -13.306   5.222  1.00  0.00              
ATOM     22  CA  GLY    22       1.967 -15.410   5.422  1.00  0.00              
ATOM     23  CA  ALA    23       3.338 -13.758   8.492  1.00  0.00              
ATOM     24  CA  ASP    24       0.037 -13.706  10.434  1.00  0.00              
ATOM     25  CA  ILE    25       0.121  -9.899  10.671  1.00  0.00              
ATOM     26  CA  GLY    26      -2.956  -7.899   9.785  1.00  0.00              
ATOM     27  CA  HIS    27      -1.441  -4.533   8.908  1.00  0.00              
ATOM     28  CA  LEU    28      -2.877  -2.166   6.254  1.00  0.00              
ATOM     29  CA  VAL    29      -0.602   0.391   4.758  1.00  0.00              
ATOM     30  CA  LEU    30      -1.892   3.298   2.966  1.00  0.00              
ATOM     31  CA  ASP    31       0.398   5.475   0.943  1.00  0.00              
ATOM     32  CA  GLN    32      -0.924   8.963   0.538  1.00  0.00              
ATOM     33  CA  ASN    33      -2.256   8.459  -3.051  1.00  0.00              
ATOM     34  CA  MET    34      -3.413   4.898  -2.757  1.00  0.00              
ATOM     35  CA  SER    35      -7.018   4.116  -3.491  1.00  0.00              
ATOM     36  CA  ILE    36      -6.505   0.928  -5.578  1.00  0.00              
ATOM     37  CA  LEU    37      -3.851  -0.612  -3.298  1.00  0.00              
ATOM     38  CA  GLU    38      -5.949  -0.057  -0.151  1.00  0.00              
ATOM     39  CA  GLY    39      -9.107  -1.569  -1.497  1.00  0.00              
ATOM     40  CA  SER    40      -7.827  -4.479  -3.543  1.00  0.00              
ATOM     41  CA  LEU    41      -5.508  -6.116  -1.010  1.00  0.00              
ATOM     42  CA  GLY    42      -7.478  -5.157   2.050  1.00  0.00              
ATOM     43  CA  VAL    43      -6.383  -6.689   5.306  1.00  0.00              
ATOM     44  CA  ILE    44      -6.659  -3.701   7.707  1.00  0.00              
ATOM     45  CA  PRO    45      -5.346  -4.486  11.176  1.00  0.00              
ATOM     46  CA  ARG    46      -3.480  -1.548  12.438  1.00  0.00              
ATOM     47  CA  ARG    47      -3.711   1.002   9.733  1.00  0.00              
ATOM     48  CA  VAL    48      -0.652   2.844   8.795  1.00  0.00              
ATOM     49  CA  LEU    49      -0.783   5.938   6.718  1.00  0.00              
ATOM     50  CA  VAL    50       2.377   7.041   4.955  1.00  0.00              
ATOM     51  CA  HIS    51       2.589   9.964   2.543  1.00  0.00              
ATOM     52  CA  GLU    52       6.349  10.356   1.993  1.00  0.00              
ATOM     53  CA  ASP    53       6.423  14.092   2.883  1.00  0.00              
ATOM     54  CA  ASP    54       4.818  13.232   6.173  1.00  0.00              
ATOM     55  CA  LEU    55       7.528  10.517   6.585  1.00  0.00              
ATOM     56  CA  ALA    56       8.252  11.414  10.130  1.00  0.00              
ATOM     57  CA  GLY    57       4.554  11.320  11.003  1.00  0.00              
ATOM     58  CA  ALA    58       4.098   7.977   9.235  1.00  0.00              
ATOM     59  CA  ARG    59       7.081   6.491  11.126  1.00  0.00              
ATOM     60  CA  ARG    60       5.762   7.761  14.425  1.00  0.00              
ATOM     61  CA  LEU    61       2.355   6.238  13.758  1.00  0.00              
ATOM     62  CA  LEU    62       3.908   2.936  12.842  1.00  0.00              
ATOM     63  CA  THR    63       5.983   2.945  16.050  1.00  0.00              
ATOM     64  CA  ASP    64       3.021   3.771  18.211  1.00  0.00              
ATOM     65  CA  ALA    65       1.045   0.939  16.532  1.00  0.00              
ATOM     66  CA  GLY    66       3.692  -1.732  16.920  1.00  0.00              
ATOM     67  CA  LEU    67       4.668  -2.342  13.325  1.00  0.00              
ATOM     68  CA  ALA    68       8.438  -2.924  13.848  1.00  0.00              
ATOM     69  CA  HIS    69       7.681  -5.452  16.619  1.00  0.00              
ATOM     70  CA  GLU    70       5.184  -7.264  14.376  1.00  0.00              
ATOM     71  CA  LEU    71       7.588  -7.471  11.391  1.00  0.00              
ATOM     72  CA  ARG    72      10.456  -8.430  13.626  1.00  0.00              
ATOM     73  CA  SER    73       8.228 -11.541  15.404  1.00  0.00              
ATOM     74  CA  ASP    74       5.252 -12.915  16.868  1.00  0.00              
ATOM     75  CA  ASP    75       6.947 -13.185  13.452  1.00  0.00              
TER                                                                             
END
