
#######################################################
#                                                     #
#                        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   31 (  124),  selected   31 , name T0348AL381_4
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348AL381_4.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    -       -      A       3           -
LGA    -       -      K       4           -
LGA    -       -      F       5           -
LGA    -       -      L       6           -
LGA    -       -      E       7           -
LGA    -       -      I       8           -
LGA    L       9      L       9          4.463
LGA    V      10      V      10          3.004
LGA    C      11      C      11          1.084
LGA    P      12      P      12          1.404
LGA    L      13      L      13          2.376
LGA    C      14      C      14          1.406
LGA    K      15      K      15          1.710
LGA    G      16      G      16          0.887
LGA    P      17      P      17          0.827
LGA    L      18      L      18          3.360
LGA    V      19      V      19          3.951
LGA    F      20      F      20          1.575
LGA    D      21      D      21          5.868
LGA    K      22      K      22          1.919
LGA    S      23      S      23          4.220
LGA    K      24      K      24          2.329
LGA    D      25      D      25          3.249
LGA    E      26      E      26          3.815
LGA    L      27      L      27          3.549
LGA    I      28      I      28          2.909
LGA    C      29      C      29          1.290
LGA    K      30      K      30          0.921
LGA    G      31      G      31          0.789
LGA    D      32      D      32          0.860
LGA    R      33      R      33          0.711
LGA    L      34      L      34          1.708
LGA    A      35      A      35          2.434
LGA    F      36      F      36          1.775
LGA    P      37      P      37          1.563
LGA    -       -      I      38           -
LGA    -       -      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    I      38      I      42           #
LGA    K      39      P      43          1.212
LGA    -       -      M      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    -       -      E      47           -
LGA    -       -      S      48           -
LGA    -       -      E      49           -
LGA    -       -      A      50           -
LGA    -       -      R      51           -
LGA    -       -      E      52           -
LGA    -       -      L      53           -
LGA    -       -      A      54           -
LGA    -       -      P      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      E      58           -
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    -       -      E      62           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   31   61    5.0     30    2.59    96.67     36.146     1.115

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.752235 * X  +  -0.324897 * Y  +  -0.573222 * Z  +  10.938825
  Y_new =  -0.370284 * X  +  -0.511152 * Y  +   0.775637 * Z  +  35.650173
  Z_new =  -0.545006 * X  +   0.795717 * Y  +   0.264203 * Z  +  45.846867 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.250218   -1.891375  [ DEG:    71.6322   -108.3678 ]
  Theta =   0.576396    2.565196  [ DEG:    33.0251    146.9749 ]
  Phi   =  -2.684168    0.457424  [ DEG:  -153.7915     26.2085 ]
 
# 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: T0348AL381_4                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348AL381_4.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   31   61   5.0   30   2.59   96.67  36.146
REMARK  ---------------------------------------------------------- 
MOLECULE T0348AL381_4
REMARK Aligment from pdb entry: 2ct7A
ATOM      1  N   LEU     9      13.248  33.168  55.858  1.00  0.00              
ATOM      2  CA  LEU     9      12.236  32.133  55.674  1.00  0.00              
ATOM      3  C   LEU     9      11.920  31.439  56.994  1.00  0.00              
ATOM      4  O   LEU     9      12.798  30.852  57.624  1.00  0.00              
ATOM      5  N   VAL    10      10.658  31.511  57.406  1.00  0.00              
ATOM      6  CA  VAL    10      10.225  30.887  58.652  1.00  0.00              
ATOM      7  C   VAL    10       8.801  30.358  58.529  1.00  0.00              
ATOM      8  O   VAL    10       8.093  30.669  57.571  1.00  0.00              
ATOM      9  N   CYS    11       8.386  29.555  59.504  1.00  0.00              
ATOM     10  CA  CYS    11       7.046  28.981  59.504  1.00  0.00              
ATOM     11  C   CYS    11       5.985  30.078  59.486  1.00  0.00              
ATOM     12  O   CYS    11       6.305  31.266  59.515  1.00  0.00              
ATOM     13  N   PRO    12       4.721  29.670  59.439  1.00  0.00              
ATOM     14  CA  PRO    12       3.613  30.616  59.420  1.00  0.00              
ATOM     15  C   PRO    12       2.868  30.617  60.751  1.00  0.00              
ATOM     16  O   PRO    12       1.945  31.404  60.955  1.00  0.00              
ATOM     17  N   LEU    13       3.275  29.729  61.652  1.00  0.00              
ATOM     18  CA  LEU    13       2.645  29.627  62.963  1.00  0.00              
ATOM     19  C   LEU    13       3.669  29.817  64.076  1.00  0.00              
ATOM     20  O   LEU    13       3.508  30.678  64.942  1.00  0.00              
ATOM     21  N   CYS    14       4.723  29.008  64.049  1.00  0.00              
ATOM     22  CA  CYS    14       5.775  29.088  65.055  1.00  0.00              
ATOM     23  C   CYS    14       6.709  30.261  64.776  1.00  0.00              
ATOM     24  O   CYS    14       7.253  30.867  65.699  1.00  0.00              
ATOM     25  N   LYS    15       6.889  30.575  63.498  1.00  0.00              
ATOM     26  CA  LYS    15       7.760  31.673  63.096  1.00  0.00              
ATOM     27  C   LYS    15       9.162  31.494  63.671  1.00  0.00              
ATOM     28  O   LYS    15       9.689  32.383  64.340  1.00  0.00              
ATOM     29  N   GLY    16       9.760  30.337  63.407  1.00  0.00              
ATOM     30  CA  GLY    16      11.099  30.039  63.898  1.00  0.00              
ATOM     31  C   GLY    16      12.070  31.162  63.546  1.00  0.00              
ATOM     32  O   GLY    16      12.525  31.901  64.417  1.00  0.00              
ATOM     33  N   PRO    17      12.385  31.282  62.259  1.00  0.00              
ATOM     34  CA  PRO    17      13.300  32.315  61.813  1.00  0.00              
ATOM     35  C   PRO    17      14.654  31.758  61.415  1.00  0.00              
ATOM     36  O   PRO    17      15.577  31.715  62.226  1.00  0.00              
ATOM     37  N   LEU    18      14.770  31.331  60.162  1.00  0.00              
ATOM     38  CA  LEU    18      16.019  30.772  59.658  1.00  0.00              
ATOM     39  C   LEU    18      16.212  31.114  58.184  1.00  0.00              
ATOM     40  O   LEU    18      15.267  31.070  57.396  1.00  0.00              
ATOM     41  N   VAL    19      17.443  31.455  57.818  1.00  0.00              
ATOM     42  CA  VAL    19      17.761  31.805  56.439  1.00  0.00              
ATOM     43  C   VAL    19      17.956  30.557  55.587  1.00  0.00              
ATOM     44  O   VAL    19      18.631  29.611  55.997  1.00  0.00              
ATOM     45  N   PHE    20      17.363  30.559  54.399  1.00  0.00              
ATOM     46  CA  PHE    20      17.470  29.426  53.487  1.00  0.00              
ATOM     47  C   PHE    20      18.147  29.838  52.184  1.00  0.00              
ATOM     48  O   PHE    20      18.952  29.092  51.627  1.00  0.00              
ATOM     49  N   ASP    21      17.814  31.032  51.702  1.00  0.00              
ATOM     50  CA  ASP    21      18.389  31.543  50.464  1.00  0.00              
ATOM     51  C   ASP    21      18.745  30.402  49.517  1.00  0.00              
ATOM     52  O   ASP    21      19.812  30.399  48.903  1.00  0.00              
ATOM     53  N   LYS    22      17.843  29.432  49.404  1.00  0.00              
ATOM     54  CA  LYS    22      18.062  28.282  48.534  1.00  0.00              
ATOM     55  C   LYS    22      17.202  28.382  47.276  1.00  0.00              
ATOM     56  O   LYS    22      16.226  29.131  47.239  1.00  0.00              
ATOM     57  N   SER    23      17.572  27.622  46.251  1.00  0.00              
ATOM     58  CA  SER    23      16.836  27.626  44.993  1.00  0.00              
ATOM     59  C   SER    23      15.859  26.455  44.930  1.00  0.00              
ATOM     60  O   SER    23      15.806  25.730  43.936  1.00  0.00              
ATOM     61  N   LYS    24      15.089  26.277  45.999  1.00  0.00              
ATOM     62  CA  LYS    24      14.115  25.193  46.066  1.00  0.00              
ATOM     63  C   LYS    24      12.856  25.639  46.803  1.00  0.00              
ATOM     64  O   LYS    24      12.814  26.724  47.382  1.00  0.00              
ATOM     65  N   ASP    25      11.832  24.793  46.776  1.00  0.00              
ATOM     66  CA  ASP    25      10.569  25.099  47.441  1.00  0.00              
ATOM     67  C   ASP    25      10.216  24.020  48.460  1.00  0.00              
ATOM     68  O   ASP    25       9.046  23.820  48.784  1.00  0.00              
ATOM     69  N   GLU    26      11.235  23.331  48.962  1.00  0.00              
ATOM     70  CA  GLU    26      11.030  22.273  49.945  1.00  0.00              
ATOM     71  C   GLU    26      11.748  22.600  51.252  1.00  0.00              
ATOM     72  O   GLU    26      12.648  21.876  51.675  1.00  0.00              
ATOM     73  N   LEU    27      11.341  23.695  51.886  1.00  0.00              
ATOM     74  CA  LEU    27      11.944  24.117  53.145  1.00  0.00              
ATOM     75  C   LEU    27      11.381  23.320  54.317  1.00  0.00              
ATOM     76  O   LEU    27      10.200  22.967  54.333  1.00  0.00              
ATOM     77  N   ILE    28      12.232  23.038  55.299  1.00  0.00              
ATOM     78  CA  ILE    28      11.818  22.282  56.475  1.00  0.00              
ATOM     79  C   ILE    28      12.205  23.008  57.759  1.00  0.00              
ATOM     80  O   ILE    28      13.366  23.367  57.956  1.00  0.00              
ATOM     81  N   CYS    29      11.224  23.221  58.630  1.00  0.00              
ATOM     82  CA  CYS    29      11.460  23.904  59.896  1.00  0.00              
ATOM     83  C   CYS    29      12.298  23.039  60.832  1.00  0.00              
ATOM     84  O   CYS    29      12.052  21.844  61.001  1.00  0.00              
ATOM     85  N   LYS    30      13.311  23.654  61.458  1.00  0.00              
ATOM     86  CA  LYS    30      14.206  22.960  62.389  1.00  0.00              
ATOM     87  C   LYS    30      13.506  22.579  63.690  1.00  0.00              
ATOM     88  O   LYS    30      14.124  22.018  64.595  1.00  0.00              
ATOM     89  N   GLY    31      12.217  22.887  63.774  1.00  0.00              
ATOM     90  CA  GLY    31      11.434  22.577  64.965  1.00  0.00              
ATOM     91  C   GLY    31      10.229  21.710  64.613  1.00  0.00              
ATOM     92  O   GLY    31      10.094  20.588  65.102  1.00  0.00              
ATOM     93  N   ASP    32       9.354  22.240  63.764  1.00  0.00              
ATOM     94  CA  ASP    32       8.159  21.517  63.347  1.00  0.00              
ATOM     95  C   ASP    32       8.509  20.412  62.355  1.00  0.00              
ATOM     96  O   ASP    32       7.837  19.382  62.292  1.00  0.00              
ATOM     97  N   ARG    33       9.568  20.633  61.582  1.00  0.00              
ATOM     98  CA  ARG    33      10.010  19.655  60.593  1.00  0.00              
ATOM     99  C   ARG    33       8.920  19.402  59.555  1.00  0.00              
ATOM    100  O   ARG    33       8.774  18.286  59.056  1.00  0.00              
ATOM    101  N   LEU    34       8.159  20.444  59.237  1.00  0.00              
ATOM    102  CA  LEU    34       7.082  20.333  58.261  1.00  0.00              
ATOM    103  C   LEU    34       7.445  21.051  56.966  1.00  0.00              
ATOM    104  O   LEU    34       7.853  22.213  56.980  1.00  0.00              
ATOM    105  N   ALA    35       7.296  20.353  55.844  1.00  0.00              
ATOM    106  CA  ALA    35       7.610  20.923  54.541  1.00  0.00              
ATOM    107  C   ALA    35       6.559  21.944  54.120  1.00  0.00              
ATOM    108  O   ALA    35       5.394  21.601  53.914  1.00  0.00              
ATOM    109  N   PHE    36       6.978  23.198  53.992  1.00  0.00              
ATOM    110  CA  PHE    36       6.071  24.269  53.595  1.00  0.00              
ATOM    111  C   PHE    36       6.730  25.186  52.568  1.00  0.00              
ATOM    112  O   PHE    36       7.919  25.489  52.661  1.00  0.00              
ATOM    113  N   PRO    37       5.947  25.624  51.587  1.00  0.00              
ATOM    114  CA  PRO    37       6.452  26.504  50.541  1.00  0.00              
ATOM    115  C   PRO    37       7.085  27.756  51.141  1.00  0.00              
ATOM    116  O   PRO    37       6.644  28.250  52.178  1.00  0.00              
ATOM    117  N   ILE    38       8.119  28.264  50.480  1.00  0.00              
ATOM    118  CA  ILE    38       8.813  29.459  50.947  1.00  0.00              
ATOM    119  C   ILE    38       8.177  30.721  50.374  1.00  0.00              
ATOM    120  O   ILE    38       8.578  31.836  50.710  1.00  0.00              
ATOM    121  N   LYS    39       7.186  30.539  49.509  1.00  0.00              
ATOM    122  CA  LYS    39       6.495  31.662  48.889  1.00  0.00              
ATOM    123  C   LYS    39       5.120  31.870  49.517  1.00  0.00              
ATOM    124  O   LYS    39       4.900  32.830  50.255  1.00  0.00              
END
