
#######################################################
#                                                     #
#                        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 T0348TS168_4
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS168_4.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      -       -           -
LGA    P      12      -       -           -
LGA    L      13      L       9          4.781
LGA    C      14      V      10          0.772
LGA    K      15      C      11          3.803
LGA    G      16      P      12          2.097
LGA    P      17      L      13          2.001
LGA    L      18      C      14          1.601
LGA    V      19      K      15          1.908
LGA    F      20      G      16          1.615
LGA    D      21      P      17          0.537
LGA    K      22      L      18          1.033
LGA    S      23      V      19          1.872
LGA    K      24      F      20           -
LGA    -       -      D      21           -
LGA    -       -      K      22           -
LGA    -       -      S      23           -
LGA    -       -      K      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    -       -      L      27           -
LGA    -       -      I      28           -
LGA    D      25      C      29          4.148
LGA    E      26      K      30          1.937
LGA    -       -      G      31           -
LGA    L      27      D      32          2.620
LGA    I      28      R      33          3.912
LGA    C      29      L      34          3.115
LGA    K      30      A      35           -
LGA    -       -      F      36           -
LGA    -       -      P      37           -
LGA    -       -      I      38           -
LGA    -       -      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    -       -      M      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    G      31      E      47          2.412
LGA    -       -      S      48           -
LGA    D      32      E      49          3.421
LGA    R      33      A      50          1.512
LGA    L      34      R      51           #
LGA    A      35      -       -           -
LGA    F      36      E      52           #
LGA    P      37      L      53          1.852
LGA    I      38      A      54          3.706
LGA    K      39      P      55          3.768
LGA    -       -      E      56           -
LGA    D      40      E      57          1.976
LGA    -       -      E      58           -
LGA    -       -      V      59           -
LGA    G      41      K      60          2.146
LGA    -       -      L      61           -
LGA    I      42      E      62           #
LGA    P      43      -       -           -
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      -       -           -
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     24    2.68     4.17     26.126     0.863

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.454149 * X  +  -0.148252 * Y  +   0.878505 * Z  +  16.327324
  Y_new =   0.671981 * X  +  -0.590434 * Y  +  -0.447024 * Z  +  17.086222
  Z_new =   0.584971 * X  +   0.793353 * Y  +  -0.168522 * Z  +  65.121040 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.780103   -1.361490  [ DEG:   101.9924    -78.0076 ]
  Theta =  -0.624844   -2.516748  [ DEG:   -35.8009   -144.1991 ]
  Phi   =   0.976472   -2.165120  [ DEG:    55.9477   -124.0523 ]
 
# 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: T0348TS168_4                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS168_4.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   24   2.68    4.17  26.126
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS168_4
PFRMAT TS
TARGET T0348
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      11.592  11.664  66.768  1.00 25.00           C
ATOM      2  CA  ASP     2       8.321  13.396  67.486  1.00 25.00           C
ATOM      3  CA  ALA     3       6.702  16.302  69.231  1.00 25.00           C
ATOM      4  CA  LYS     4       9.874  18.024  70.512  1.00 25.00           C
ATOM      5  CA  PHE     5      10.526  19.470  67.026  1.00 25.00           C
ATOM      6  CA  LEU     6       6.923  20.759  66.859  1.00 25.00           C
ATOM      7  CA  GLU     7       7.319  22.380  70.308  1.00 25.00           C
ATOM      8  CA  ILE     8      10.580  24.041  69.179  1.00 25.00           C
ATOM      9  CA  LEU     9       8.848  25.357  66.027  1.00 25.00           C
ATOM     10  CA  VAL    10       6.468  24.199  63.237  1.00 25.00           C
ATOM     11  CA  CYS    11       9.111  25.736  60.930  1.00 25.00           C
ATOM     12  CA  PRO    12       6.544  28.137  59.364  1.00 25.00           C
ATOM     13  CA  LEU    13       7.443  30.647  56.690  1.00 25.00           C
ATOM     14  CA  CYS    14       8.896  32.995  59.387  1.00 25.00           C
ATOM     15  CA  LYS    15       5.376  32.839  60.903  1.00 25.00           C
ATOM     16  CA  GLY    16       2.301  31.265  59.450  1.00 25.00           C
ATOM     17  CA  PRO    17       2.460  28.821  62.417  1.00 25.00           C
ATOM     18  CA  LEU    18       5.427  28.845  64.794  1.00 25.00           C
ATOM     19  CA  VAL    19       8.568  30.912  65.376  1.00 25.00           C
ATOM     20  CA  PHE    20      11.637  29.558  63.707  1.00 25.00           C
ATOM     21  CA  ASP    21      13.414  31.654  61.103  1.00 25.00           C
ATOM     22  CA  LYS    22      12.529  28.913  58.578  1.00 25.00           C
ATOM     23  CA  SER    23      16.233  28.007  58.224  1.00 25.00           C
ATOM     24  CA  LYS    24      16.513  27.562  62.017  1.00 25.00           C
ATOM     25  CA  ASP    25      13.971  24.870  62.966  1.00 25.00           C
ATOM     26  CA  GLU    26      13.235  22.857  59.755  1.00 25.00           C
ATOM     27  CA  LEU    27      10.253  20.797  60.937  1.00 25.00           C
ATOM     28  CA  ILE    28       7.028  18.823  61.547  1.00 25.00           C
ATOM     29  CA  CYS    29       5.552  20.176  58.283  1.00 25.00           C
ATOM     30  CA  LYS    30       2.884  22.051  60.246  1.00 25.00           C
ATOM     31  CA  GLY    31       2.695  25.091  58.002  1.00 25.00           C
ATOM     32  CA  ASP    32       1.716  22.736  55.162  1.00 25.00           C
ATOM     33  CA  ARG    33       5.019  22.991  53.322  1.00 25.00           C
ATOM     34  CA  LEU    34       6.665  26.273  54.376  1.00 25.00           C
ATOM     35  CA  ALA    35       9.091  23.941  56.249  1.00 25.00           C
ATOM     36  CA  PHE    36      11.949  21.802  54.835  1.00 25.00           C
ATOM     37  CA  PRO    37      10.882  18.143  54.971  1.00 25.00           C
ATOM     38  CA  ILE    38      12.621  15.709  57.383  1.00 25.00           C
ATOM     39  CA  LYS    39      14.779  14.341  54.565  1.00 25.00           C
ATOM     40  CA  ASP    40      18.441  15.239  54.013  1.00 25.00           C
ATOM     41  CA  GLY    41      21.925  15.960  55.277  1.00 25.00           C
ATOM     42  CA  ILE    42      22.374  12.610  56.931  1.00 25.00           C
ATOM     43  CA  PRO    43      22.460   9.003  55.771  1.00 25.00           C
ATOM     44  CA  MET    44      22.443   6.571  58.653  1.00 25.00           C
ATOM     45  CA  MET    45      24.331   7.601  61.839  1.00 25.00           C
ATOM     46  CA  LEU    46      21.599   5.855  63.893  1.00 25.00           C
ATOM     47  CA  GLU    47      20.127   3.081  66.039  1.00 25.00           C
ATOM     48  CA  SER    48      21.316  -0.112  64.286  1.00 25.00           C
ATOM     49  CA  GLU    49      23.590  -2.196  66.523  1.00 25.00           C
ATOM     50  CA  ALA    50      26.215  -1.499  63.900  1.00 25.00           C
ATOM     51  CA  ARG    51      29.027   0.811  65.165  1.00 25.00           C
ATOM     52  CA  GLU    52      31.519  -0.083  67.887  1.00 25.00           C
ATOM     53  CA  LEU    53      30.846  -0.984  71.526  1.00 25.00           C
ATOM     54  CA  ALA    54      34.135  -0.398  73.449  1.00 25.00           C
ATOM     55  CA  PRO    55      34.422   1.180  76.906  1.00 25.00           C
ATOM     56  CA  GLU    56      31.355  -0.790  77.930  1.00 25.00           C
ATOM     57  CA  GLU    57      28.121   0.509  79.418  1.00 25.00           C
ATOM     58  CA  GLU    58      28.275   3.187  82.098  1.00 25.00           C
ATOM     59  CA  VAL    59      25.997   5.866  80.706  1.00 25.00           C
ATOM     60  CA  LYS    60      23.285   8.230  81.969  1.00 25.00           C
ATOM     61  CA  LEU    61      25.902  10.910  82.446  1.00 25.00           C
ATOM     62  CA  GLU    62      24.783  14.203  80.789  1.00 25.00           C
ATOM     63  CA  HIS    63      26.072  16.971  78.542  1.00 25.00           C
ATOM     64  CA  HIS    64      29.748  17.499  77.557  1.00 25.00           C
ATOM     65  CA  HIS    65      32.637  19.153  75.635  1.00 25.00           C
ATOM     66  CA  HIS    66      31.154  18.366  72.257  1.00 25.00           C
ATOM     67  CA  HIS    67      29.647  21.863  71.828  1.00 25.00           C
ATOM     68  CA  HIS    68      25.970  22.136  72.933  1.00 25.00           C
TER
END
