
#######################################################
#                                                     #
#                        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   68 (   68),  selected   68 , name T0348TS599_3
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS599_3.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D       2           -
LGA    D       2      A       3           -
LGA    -       -      K       4           -
LGA    A       3      F       5           #
LGA    K       4      -       -           -
LGA    F       5      L       6           #
LGA    -       -      E       7           -
LGA    L       6      I       8           #
LGA    E       7      -       -           -
LGA    I       8      -       -           -
LGA    L       9      L       9          2.904
LGA    V      10      V      10          0.972
LGA    C      11      C      11          0.970
LGA    P      12      P      12          0.226
LGA    L      13      L      13          0.769
LGA    C      14      C      14          0.750
LGA    K      15      K      15          0.313
LGA    G      16      G      16          0.200
LGA    P      17      P      17          0.198
LGA    L      18      L      18          0.710
LGA    V      19      V      19          0.422
LGA    F      20      F      20          0.536
LGA    D      21      D      21          0.526
LGA    K      22      K      22          0.661
LGA    S      23      S      23          1.302
LGA    K      24      K      24          1.494
LGA    D      25      D      25          0.776
LGA    E      26      E      26          1.255
LGA    L      27      L      27          1.187
LGA    I      28      I      28          0.571
LGA    C      29      C      29          1.068
LGA    K      30      K      30          1.958
LGA    G      31      G      31          1.877
LGA    D      32      D      32          0.579
LGA    R      33      R      33          0.887
LGA    L      34      L      34          0.712
LGA    A      35      A      35          1.631
LGA    F      36      F      36          1.626
LGA    P      37      P      37          1.231
LGA    I      38      I      38          1.099
LGA    K      39      K      39          4.044
LGA    D      40      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    G      41      P      43          4.858
LGA    I      42      M      44          2.866
LGA    P      43      M      45          3.305
LGA    M      44      L      46          2.346
LGA    M      45      E      47           -
LGA    L      46      S      48           -
LGA    E      47      E      49           -
LGA    S      48      A      50           -
LGA    E      49      R      51           -
LGA    A      50      E      52           -
LGA    R      51      L      53           -
LGA    E      52      A      54           -
LGA    L      53      P      55           -
LGA    A      54      E      56           -
LGA    P      55      E      57           -
LGA    E      56      E      58           -
LGA    E      57      V      59           -
LGA    E      58      K      60           -
LGA    V      59      L      61           -
LGA    K      60      E      62           -
LGA    L      61      -       -           -
LGA    E      62      -       -           -
LGA    H      63      -       -           -
LGA    H      64      -       -           -
LGA    H      65      -       -           -
LGA    H      66      -       -           -
LGA    H      67      -       -           -
LGA    H      68      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   68   61    5.0     35    1.72    88.57     54.666     1.919

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.890205 * X  +  -0.049378 * Y  +  -0.452877 * Z  +  10.615984
  Y_new =   0.174188 * X  +  -0.955463 * Y  +  -0.238219 * Z  +  32.650188
  Z_new =  -0.420945 * X  +  -0.290949 * Y  +   0.859159 * Z  +  53.208839 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.326523    2.815070  [ DEG:   -18.7084    161.2916 ]
  Theta =   0.434486    2.707106  [ DEG:    24.8942    155.1058 ]
  Phi   =   2.948362   -0.193231  [ DEG:   168.9287    -11.0713 ]
 
# 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: T0348TS599_3                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS599_3.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   68   61   5.0   35   1.72   88.57  54.666
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS599_3
PFRMAT TS                                                                       
TARGET T0348                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      15.801  42.248  61.027  1.00  0.00              
ATOM      2  CA  ASP     2      15.952  42.412  56.826  1.00  0.00              
ATOM      3  CA  ALA     3      13.649  42.835  53.335  1.00  0.00              
ATOM      4  CA  LYS     4      13.964  42.777  57.162  1.00  0.00              
ATOM      5  CA  PHE     5      10.896  40.464  57.408  1.00  0.00              
ATOM      6  CA  LEU     6      12.239  38.113  54.804  1.00  0.00              
ATOM      7  CA  GLU     7      15.618  37.897  56.588  1.00  0.00              
ATOM      8  CA  ILE     8      13.788  36.968  59.804  1.00  0.00              
ATOM      9  CA  LEU     9      11.671  34.252  58.232  1.00  0.00              
ATOM     10  CA  VAL    10       8.226  33.815  59.842  1.00  0.00              
ATOM     11  CA  CYS    11       6.927  30.267  59.886  1.00  0.00              
ATOM     12  CA  PRO    12       3.297  29.669  60.346  1.00  0.00              
ATOM     13  CA  LEU    13       3.369  26.958  62.936  1.00  0.00              
ATOM     14  CA  CYS    14       6.096  27.874  65.292  1.00  0.00              
ATOM     15  CA  LYS    15       7.001  31.413  64.375  1.00  0.00              
ATOM     16  CA  GLY    16      10.663  30.600  64.143  1.00  0.00              
ATOM     17  CA  PRO    17      13.191  31.538  61.649  1.00  0.00              
ATOM     18  CA  LEU    18      12.963  30.288  58.106  1.00  0.00              
ATOM     19  CA  VAL    19      15.758  28.328  56.334  1.00  0.00              
ATOM     20  CA  PHE    20      16.029  28.436  52.558  1.00  0.00              
ATOM     21  CA  ASP    21      17.379  25.600  50.489  1.00  0.00              
ATOM     22  CA  LYS    22      18.755  27.176  47.293  1.00  0.00              
ATOM     23  CA  SER    23      19.202  24.027  45.324  1.00  0.00              
ATOM     24  CA  LYS    24      15.631  22.929  45.589  1.00  0.00              
ATOM     25  CA  ASP    25      13.882  26.272  46.043  1.00  0.00              
ATOM     26  CA  GLU    26      12.173  25.093  49.198  1.00  0.00              
ATOM     27  CA  LEU    27      11.631  26.820  52.479  1.00  0.00              
ATOM     28  CA  ILE    28      12.392  24.810  55.548  1.00  0.00              
ATOM     29  CA  CYS    29      10.880  25.591  58.884  1.00  0.00              
ATOM     30  CA  LYS    30      13.286  24.892  61.692  1.00  0.00              
ATOM     31  CA  GLY    31      10.825  24.129  64.404  1.00  0.00              
ATOM     32  CA  ASP    32       8.635  21.650  62.649  1.00  0.00              
ATOM     33  CA  ARG    33      11.062  20.323  59.995  1.00  0.00              
ATOM     34  CA  LEU    34       8.654  20.785  57.181  1.00  0.00              
ATOM     35  CA  ALA    35       9.632  21.296  53.599  1.00  0.00              
ATOM     36  CA  PHE    36       7.642  24.203  52.142  1.00  0.00              
ATOM     37  CA  PRO    37       7.528  25.147  48.528  1.00  0.00              
ATOM     38  CA  ILE    38       7.587  28.947  48.227  1.00  0.00              
ATOM     39  CA  LYS    39       3.831  29.613  47.895  1.00  0.00              
ATOM     40  CA  ASP    40       2.346  27.585  50.778  1.00  0.00              
ATOM     41  CA  GLY    41       5.166  28.656  53.088  1.00  0.00              
ATOM     42  CA  ILE    42       4.645  32.393  52.393  1.00  0.00              
ATOM     43  CA  PRO    43       0.895  32.210  53.106  1.00  0.00              
ATOM     44  CA  MET    44       1.336  30.337  56.430  1.00  0.00              
ATOM     45  CA  MET    45       3.920  32.894  57.662  1.00  0.00              
ATOM     46  CA  LEU    46       2.116  36.065  56.743  1.00  0.00              
ATOM     47  CA  GLU    47       2.943  39.450  58.281  1.00  0.00              
ATOM     48  CA  SER    48       0.974  41.734  55.927  1.00  0.00              
ATOM     49  CA  GLU    49       3.980  43.432  54.291  1.00  0.00              
ATOM     50  CA  ALA    50       5.719  40.167  53.530  1.00  0.00              
ATOM     51  CA  ARG    51       2.592  38.686  51.995  1.00  0.00              
ATOM     52  CA  GLU    52       2.080  41.607  49.673  1.00  0.00              
ATOM     53  CA  LEU    53       5.564  41.580  48.216  1.00  0.00              
ATOM     54  CA  ALA    54       5.319  42.047  44.469  1.00  0.00              
ATOM     55  CA  PRO    55       6.695  39.379  42.178  1.00  0.00              
ATOM     56  CA  GLU    56       9.750  41.411  41.330  1.00  0.00              
ATOM     57  CA  GLU    57      10.577  42.034  44.948  1.00  0.00              
ATOM     58  CA  GLU    58      10.227  38.292  45.763  1.00  0.00              
ATOM     59  CA  VAL    59      12.690  37.393  43.020  1.00  0.00              
ATOM     60  CA  LYS    60      15.148  39.968  44.295  1.00  0.00              
ATOM     61  CA  LEU    61      14.764  38.583  47.801  1.00  0.00              
ATOM     62  CA  GLU    62      15.363  34.987  46.676  1.00  0.00              
ATOM     63  CA  HIS    63      18.514  35.956  44.749  1.00  0.00              
ATOM     64  CA  HIS    64      19.979  38.094  47.562  1.00  0.00              
ATOM     65  CA  HIS    65      19.288  35.154  49.876  1.00  0.00              
ATOM     66  CA  HIS    66      21.299  32.521  47.913  1.00  0.00              
ATOM     67  CA  HIS    67      23.857  30.256  45.464  1.00  0.00              
ATOM     68  CA  HIS    68      26.427  30.885  42.232  1.00  0.00              
TER                                                                             
END
