
#######################################################
#                                                     #
#                        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   76 (   76),  selected   76 , name T0309TS599_5
# Molecule2: number of CA atoms   62 (  501),  selected   62 , name T0309.pdb
# PARAMETERS: T0309TS599_5.T0309.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      A       2           -
LGA    A       2      S       3           -
LGA    S       3      K       4           -
LGA    K       4      K       5           -
LGA    K       5      V       6           -
LGA    V       6      -       -           -
LGA    H       7      -       -           -
LGA    Q       8      -       -           -
LGA    I       9      -       -           -
LGA    N      10      -       -           -
LGA    V      11      -       -           -
LGA    K      12      H       7          6.015
LGA    -       -      Q       8           -
LGA    G      13      I       9          1.413
LGA    F      14      N      10          2.582
LGA    F      15      V      11           #
LGA    D      16      -       -           -
LGA    M      17      -       -           -
LGA    D      18      -       -           -
LGA    V      19      -       -           -
LGA    M      20      -       -           -
LGA    E      21      -       -           -
LGA    V      22      -       -           -
LGA    T      23      -       -           -
LGA    E      24      -       -           -
LGA    Q      25      K      12           #
LGA    T      26      -       -           -
LGA    K      27      -       -           -
LGA    E      28      -       -           -
LGA    A      29      -       -           -
LGA    E      30      G      13          5.072
LGA    Y      31      F      14          4.496
LGA    T      32      F      15           #
LGA    -       -      D      16           -
LGA    -       -      M      17           -
LGA    -       -      D      18           -
LGA    -       -      V      19           -
LGA    -       -      M      20           -
LGA    -       -      E      21           -
LGA    -       -      V      22           -
LGA    Y      33      T      23          3.129
LGA    D      34      E      24           -
LGA    -       -      Q      25           -
LGA    -       -      T      26           -
LGA    -       -      K      27           -
LGA    -       -      E      28           -
LGA    -       -      A      29           -
LGA    -       -      E      30           -
LGA    -       -      Y      31           -
LGA    -       -      T      32           -
LGA    F      35      Y      33           #
LGA    K      36      D      34          3.364
LGA    E      37      -       -           -
LGA    I      38      F      35          0.469
LGA    L      39      K      36          0.840
LGA    S      40      E      37          1.144
LGA    E      41      I      38          1.073
LGA    F      42      L      39          1.097
LGA    N      43      S      40          1.505
LGA    -       -      E      41           -
LGA    G      44      F      42          2.969
LGA    K      45      N      43          5.456
LGA    -       -      G      44           -
LGA    -       -      K      45           -
LGA    -       -      N      46           -
LGA    -       -      V      47           -
LGA    N      46      S      48          4.226
LGA    V      47      I      49          2.918
LGA    S      48      T      50          1.353
LGA    I      49      V      51          1.336
LGA    T      50      K      52          1.347
LGA    V      51      E      53          0.888
LGA    K      52      E      54          1.699
LGA    E      53      N      55          2.182
LGA    E      54      E      56          2.805
LGA    N      55      L      57           -
LGA    E      56      P      58           -
LGA    L      57      V      59           -
LGA    P      58      K      60           -
LGA    V      59      G      61           -
LGA    K      60      V      62           -
LGA    G      61      E      63           -
LGA    V      62      -       -           -
LGA    E      63      -       -           -
LGA    M      64      -       -           -
LGA    A      65      -       -           -
LGA    G      66      -       -           -
LGA    D      67      -       -           -
LGA    P      68      -       -           -
LGA    L      69      -       -           -
LGA    E      70      -       -           -
LGA    H      71      -       -           -
LGA    H      72      -       -           -
LGA    H      73      -       -           -
LGA    H      74      -       -           -
LGA    H      75      -       -           -
LGA    H      76      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   76   62    5.0     24    2.93     4.17     25.977     0.793

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.575333 * X  +  -0.249552 * Y  +  -0.778920 * Z  +  -0.650189
  Y_new =  -0.285090 * X  +   0.953781 * Y  +  -0.094999 * Z  + -19.010569
  Z_new =   0.766626 * X  +   0.167407 * Y  +  -0.619886 * Z  +  -7.403207 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.877825   -0.263768  [ DEG:   164.8872    -15.1128 ]
  Theta =  -0.873570   -2.268023  [ DEG:   -50.0519   -129.9481 ]
  Phi   =  -2.681533    0.460059  [ DEG:  -153.6405     26.3595 ]
 
# 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: T0309TS599_5                                  
REMARK     2: T0309.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0309TS599_5.T0309.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   76   62   5.0   24   2.93    4.17  25.977
REMARK  ---------------------------------------------------------- 
MOLECULE T0309TS599_5
PFRMAT TS                                                                       
TARGET T0309                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       0.919 -32.424  -4.411  1.00  0.00              
ATOM      2  CA  ALA     2       3.040 -31.299  -7.084  1.00  0.00              
ATOM      3  CA  SER     3       0.123 -30.436  -5.186  1.00  0.00              
ATOM      4  CA  LYS     4       3.019 -30.728  -2.123  1.00  0.00              
ATOM      5  CA  LYS     5       4.442 -27.602  -3.785  1.00  0.00              
ATOM      6  CA  VAL     6       0.984 -25.978  -3.770  1.00  0.00              
ATOM      7  CA  HIS     7       0.567 -26.409  -0.017  1.00  0.00              
ATOM      8  CA  GLN     8       4.040 -24.873   0.630  1.00  0.00              
ATOM      9  CA  ILE     9       2.829 -21.792  -1.161  1.00  0.00              
ATOM     10  CA  ASN    10      -0.656 -21.077   0.017  1.00  0.00              
ATOM     11  CA  VAL    11      -2.974 -19.159  -2.192  1.00  0.00              
ATOM     12  CA  LYS    12      -6.432 -18.729  -1.132  1.00  0.00              
ATOM     13  CA  GLY    13      -7.634 -15.847  -3.365  1.00  0.00              
ATOM     14  CA  PHE    14      -5.994 -17.085  -6.535  1.00  0.00              
ATOM     15  CA  PHE    15      -6.890 -20.814  -6.310  1.00  0.00              
ATOM     16  CA  ASP    16      -7.722 -22.758  -9.466  1.00  0.00              
ATOM     17  CA  MET    17      -5.438 -25.712  -8.795  1.00  0.00              
ATOM     18  CA  ASP    18      -5.400 -28.428 -11.405  1.00  0.00              
ATOM     19  CA  VAL    19      -2.181 -30.228 -10.403  1.00  0.00              
ATOM     20  CA  MET    20      -0.669 -30.539 -13.879  1.00  0.00              
ATOM     21  CA  GLU    21      -1.405 -26.847 -14.627  1.00  0.00              
ATOM     22  CA  VAL    22       0.097 -25.510 -11.401  1.00  0.00              
ATOM     23  CA  THR    23       3.344 -27.517 -11.846  1.00  0.00              
ATOM     24  CA  GLU    24       3.973 -26.468 -15.414  1.00  0.00              
ATOM     25  CA  GLN    25       3.304 -22.752 -14.689  1.00  0.00              
ATOM     26  CA  THR    26       5.602 -22.720 -11.682  1.00  0.00              
ATOM     27  CA  LYS    27       8.538 -24.394 -13.534  1.00  0.00              
ATOM     28  CA  GLU    28       8.511 -21.648 -16.138  1.00  0.00              
ATOM     29  CA  ALA    29       8.238 -18.755 -13.656  1.00  0.00              
ATOM     30  CA  GLU    30       5.666 -16.543 -15.368  1.00  0.00              
ATOM     31  CA  TYR    31       3.289 -14.643 -13.251  1.00  0.00              
ATOM     32  CA  THR    32       2.108 -11.105 -13.919  1.00  0.00              
ATOM     33  CA  TYR    33       0.742  -8.874 -11.106  1.00  0.00              
ATOM     34  CA  ASP    34      -1.151  -5.670 -11.589  1.00  0.00              
ATOM     35  CA  PHE    35      -0.982  -3.699  -8.320  1.00  0.00              
ATOM     36  CA  LYS    36      -4.713  -3.006  -8.159  1.00  0.00              
ATOM     37  CA  GLU    37      -5.433  -6.666  -8.900  1.00  0.00              
ATOM     38  CA  ILE    38      -3.028  -7.802  -6.187  1.00  0.00              
ATOM     39  CA  LEU    39      -4.515  -5.393  -3.719  1.00  0.00              
ATOM     40  CA  SER    40      -8.022  -6.476  -4.452  1.00  0.00              
ATOM     41  CA  GLU    41      -7.174 -10.144  -4.004  1.00  0.00              
ATOM     42  CA  PHE    42      -5.442  -9.435  -0.674  1.00  0.00              
ATOM     43  CA  ASN    43      -8.241  -7.367   0.922  1.00  0.00              
ATOM     44  CA  GLY    44      -7.796  -8.602   4.509  1.00  0.00              
ATOM     45  CA  LYS    45      -7.386 -12.263   3.807  1.00  0.00              
ATOM     46  CA  ASN    46      -3.996 -13.805   4.270  1.00  0.00              
ATOM     47  CA  VAL    47      -2.355 -15.275   1.118  1.00  0.00              
ATOM     48  CA  SER    48       1.140 -16.678   1.528  1.00  0.00              
ATOM     49  CA  ILE    49       3.496 -16.805  -1.376  1.00  0.00              
ATOM     50  CA  THR    50       6.995 -18.409  -1.133  1.00  0.00              
ATOM     51  CA  VAL    51       9.364 -17.557  -3.981  1.00  0.00              
ATOM     52  CA  LYS    52      11.868 -20.211  -4.833  1.00  0.00              
ATOM     53  CA  GLU    53      15.036 -19.133  -6.584  1.00  0.00              
ATOM     54  CA  GLU    54      14.674 -21.239  -9.743  1.00  0.00              
ATOM     55  CA  ASN    55      11.129 -20.107 -10.335  1.00  0.00              
ATOM     56  CA  GLU    56      11.620 -16.494  -9.544  1.00  0.00              
ATOM     57  CA  LEU    57       8.947 -15.123  -7.402  1.00  0.00              
ATOM     58  CA  PRO    58       9.613 -12.589  -4.693  1.00  0.00              
ATOM     59  CA  VAL    59       7.474 -13.236  -1.589  1.00  0.00              
ATOM     60  CA  LYS    60       5.590  -9.931  -1.033  1.00  0.00              
ATOM     61  CA  GLY    61       4.869  -9.182  -4.710  1.00  0.00              
ATOM     62  CA  VAL    62       3.846 -12.547  -6.173  1.00  0.00              
ATOM     63  CA  GLU    63       0.805 -12.093  -8.427  1.00  0.00              
ATOM     64  CA  MET    64      -0.507 -14.598 -10.881  1.00  0.00              
ATOM     65  CA  ALA    65      -2.615 -13.326 -13.707  1.00  0.00              
ATOM     66  CA  GLY    66      -3.454 -16.356 -15.726  1.00  0.00              
ATOM     67  CA  ASP    67      -7.073 -16.846 -14.548  1.00  0.00              
ATOM     68  CA  PRO    68      -7.024 -20.389 -13.207  1.00  0.00              
ATOM     69  CA  LEU    69     -10.146 -21.912 -14.662  1.00  0.00              
ATOM     70  CA  GLU    70     -11.856 -23.715 -11.827  1.00  0.00              
ATOM     71  CA  HIS    71     -14.497 -26.110 -13.309  1.00  0.00              
ATOM     72  CA  HIS    72     -16.795 -26.524 -10.360  1.00  0.00              
ATOM     73  CA  HIS    73     -18.255 -30.077 -10.397  1.00  0.00              
ATOM     74  CA  HIS    74     -14.827 -31.254 -12.513  1.00  0.00              
ATOM     75  CA  HIS    75     -11.366 -33.541 -11.694  1.00  0.00              
ATOM     76  CA  HIS    76      -7.212 -33.524 -11.402  1.00  0.00              
TER                                                                             
END
