
#######################################################
#                                                     #
#                        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 T0348TS393_5
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS393_5.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    A       3      K       4           -
LGA    K       4      F       5           -
LGA    F       5      L       6           -
LGA    L       6      E       7           -
LGA    E       7      I       8           -
LGA    I       8      -       -           -
LGA    L       9      -       -           -
LGA    V      10      -       -           -
LGA    C      11      L       9           #
LGA    P      12      V      10           #
LGA    L      13      C      11          2.784
LGA    C      14      P      12          1.253
LGA    K      15      L      13          2.487
LGA    G      16      C      14          3.503
LGA    P      17      K      15          3.083
LGA    L      18      G      16          3.239
LGA    V      19      P      17           #
LGA    F      20      L      18          3.437
LGA    D      21      V      19          4.704
LGA    K      22      F      20          4.324
LGA    S      23      D      21          4.872
LGA    -       -      K      22           -
LGA    -       -      S      23           -
LGA    -       -      K      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    -       -      L      27           -
LGA    K      24      I      28          1.992
LGA    -       -      C      29           -
LGA    -       -      K      30           -
LGA    -       -      G      31           -
LGA    -       -      D      32           -
LGA    -       -      R      33           -
LGA    -       -      L      34           -
LGA    -       -      A      35           -
LGA    D      25      F      36          3.235
LGA    E      26      P      37          4.768
LGA    L      27      I      38           -
LGA    I      28      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    -       -      M      44           -
LGA    C      29      M      45          5.035
LGA    K      30      L      46          2.509
LGA    G      31      E      47          4.983
LGA    -       -      S      48           -
LGA    D      32      E      49          3.824
LGA    R      33      A      50          3.667
LGA    L      34      R      51          1.528
LGA    A      35      E      52          4.493
LGA    F      36      L      53          4.090
LGA    P      37      A      54          3.807
LGA    I      38      P      55          3.424
LGA    K      39      E      56          4.239
LGA    D      40      E      57          2.972
LGA    -       -      E      58           -
LGA    G      41      V      59          2.725
LGA    I      42      K      60           -
LGA    P      43      L      61           -
LGA    M      44      E      62           -
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      -       -           -
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     26    3.65     0.00     23.645     0.694

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.953884 * X  +  -0.297865 * Y  +  -0.037175 * Z  +  11.349883
  Y_new =   0.229296 * X  +  -0.802960 * Y  +   0.550163 * Z  +  15.100963
  Z_new =  -0.193724 * X  +   0.516267 * Y  +   0.834230 * Z  +  63.702850 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.554168   -2.587424  [ DEG:    31.7515   -148.2485 ]
  Theta =   0.194957    2.946636  [ DEG:    11.1702    168.8298 ]
  Phi   =   2.905688   -0.235905  [ DEG:   166.4836    -13.5164 ]
 
# 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: T0348TS393_5                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS393_5.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   26   3.65    0.00  23.645
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS393_5
PFRMAT TS
TARGET T0348
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1       3.729   9.114  58.373  1.00 25.00           C
ATOM      2  CA  ASP     2       2.293  12.413  59.625  1.00 25.00           C
ATOM      3  CA  ALA     3       0.549  15.053  61.731  1.00 25.00           C
ATOM      4  CA  LYS     4       2.274  15.789  65.069  1.00 25.00           C
ATOM      5  CA  PHE     5       5.693  15.733  63.343  1.00 25.00           C
ATOM      6  CA  LEU     6       4.403  18.140  60.658  1.00 25.00           C
ATOM      7  CA  GLU     7       3.056  20.485  63.371  1.00 25.00           C
ATOM      8  CA  ILE     8       6.437  20.386  65.168  1.00 25.00           C
ATOM      9  CA  LEU     9       8.234  21.200  61.885  1.00 25.00           C
ATOM     10  CA  VAL    10       6.883  24.593  61.001  1.00 25.00           C
ATOM     11  CA  CYS    11       8.635  26.732  58.444  1.00 25.00           C
ATOM     12  CA  PRO    12       8.090  29.571  55.969  1.00 25.00           C
ATOM     13  CA  LEU    13       7.098  31.810  58.881  1.00 25.00           C
ATOM     14  CA  CYS    14       4.460  29.432  60.100  1.00 25.00           C
ATOM     15  CA  LYS    15       5.028  29.275  63.901  1.00 25.00           C
ATOM     16  CA  GLY    16       7.227  31.488  66.124  1.00 25.00           C
ATOM     17  CA  PRO    17       9.655  31.226  63.151  1.00 25.00           C
ATOM     18  CA  LEU    18      10.487  27.553  63.415  1.00 25.00           C
ATOM     19  CA  VAL    19      12.133  24.394  61.929  1.00 25.00           C
ATOM     20  CA  PHE    20      13.713  26.323  59.015  1.00 25.00           C
ATOM     21  CA  ASP    21      12.907  29.975  59.259  1.00 25.00           C
ATOM     22  CA  LYS    22      13.282  30.327  55.446  1.00 25.00           C
ATOM     23  CA  SER    23      13.098  28.378  52.155  1.00 25.00           C
ATOM     24  CA  LYS    24      12.822  25.086  54.091  1.00 25.00           C
ATOM     25  CA  ASP    25       9.918  24.471  51.715  1.00 25.00           C
ATOM     26  CA  GLU    26       6.828  25.168  53.823  1.00 25.00           C
ATOM     27  CA  LEU    27       4.984  23.346  56.528  1.00 25.00           C
ATOM     28  CA  ILE    28       1.378  23.348  57.820  1.00 25.00           C
ATOM     29  CA  CYS    29       1.009  27.036  56.856  1.00 25.00           C
ATOM     30  CA  LYS    30       2.160  28.069  53.401  1.00 25.00           C
ATOM     31  CA  GLY    31       1.595  24.362  52.615  1.00 25.00           C
ATOM     32  CA  ASP    32       1.770  20.613  53.338  1.00 25.00           C
ATOM     33  CA  ARG    33       5.083  20.736  51.357  1.00 25.00           C
ATOM     34  CA  LEU    34       6.631  18.901  54.317  1.00 25.00           C
ATOM     35  CA  ALA    35       9.381  20.853  56.081  1.00 25.00           C
ATOM     36  CA  PHE    36      11.747  19.269  58.571  1.00 25.00           C
ATOM     37  CA  PRO    37      12.453  16.686  55.849  1.00 25.00           C
ATOM     38  CA  ILE    38      11.687  12.981  56.062  1.00 25.00           C
ATOM     39  CA  LYS    39      13.223  12.509  52.595  1.00 25.00           C
ATOM     40  CA  ASP    40      16.702  12.490  54.248  1.00 25.00           C
ATOM     41  CA  GLY    41      19.742  12.447  56.592  1.00 25.00           C
ATOM     42  CA  ILE    42      19.150   8.759  57.361  1.00 25.00           C
ATOM     43  CA  PRO    43      17.640   5.229  57.539  1.00 25.00           C
ATOM     44  CA  MET    44      14.680   4.197  59.693  1.00 25.00           C
ATOM     45  CA  MET    45      17.343   2.332  61.683  1.00 25.00           C
ATOM     46  CA  LEU    46      14.741   2.531  64.410  1.00 25.00           C
ATOM     47  CA  GLU    47      12.762  -0.653  64.079  1.00 25.00           C
ATOM     48  CA  SER    48      15.982  -2.653  64.131  1.00 25.00           C
ATOM     49  CA  GLU    49      14.663  -4.793  66.942  1.00 25.00           C
ATOM     50  CA  ALA    50      10.856  -5.275  66.718  1.00 25.00           C
ATOM     51  CA  ARG    51       7.882  -4.324  68.951  1.00 25.00           C
ATOM     52  CA  GLU    52       7.037  -1.026  70.647  1.00 25.00           C
ATOM     53  CA  LEU    53       7.377   0.534  74.131  1.00 25.00           C
ATOM     54  CA  ALA    54       7.231   2.446  77.424  1.00 25.00           C
ATOM     55  CA  PRO    55      10.579   0.930  78.292  1.00 25.00           C
ATOM     56  CA  GLU    56      11.095  -2.181  80.505  1.00 25.00           C
ATOM     57  CA  GLU    57      14.737  -1.145  80.210  1.00 25.00           C
ATOM     58  CA  GLU    58      16.880   0.390  82.958  1.00 25.00           C
ATOM     59  CA  VAL    59      18.503   3.423  81.218  1.00 25.00           C
ATOM     60  CA  LYS    60      22.110   2.196  81.312  1.00 25.00           C
ATOM     61  CA  LEU    61      23.566   4.775  78.952  1.00 25.00           C
ATOM     62  CA  GLU    62      24.810   8.328  78.512  1.00 25.00           C
ATOM     63  CA  HIS    63      27.065   6.914  75.811  1.00 25.00           C
ATOM     64  CA  HIS    64      27.969  10.551  75.310  1.00 25.00           C
ATOM     65  CA  HIS    65      25.949  13.556  74.114  1.00 25.00           C
ATOM     66  CA  HIS    66      22.937  14.660  76.106  1.00 25.00           C
ATOM     67  CA  HIS    67      22.553  18.456  75.573  1.00 25.00           C
ATOM     68  CA  HIS    68      18.921  17.636  74.572  1.00 25.00           C
TER
END
