
#######################################################
#                                                     #
#                        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   86 (   86),  selected   86 , name T0292TS168_4-D1
# Molecule2: number of CA atoms   77 (  591),  selected   77 , name T0292_D1.pdb
# PARAMETERS: T0292TS168_4-D1.T0292_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1          3.376
LGA    R       2      R       2          2.643
LGA    A       3      A       3          2.131
LGA    E       4      E       4          1.256
LGA    D       5      D       5          4.090
LGA    Y       6      Y       6          3.942
LGA    E       7      E       7          1.491
LGA    V       8      V       8          1.331
LGA    L       9      L       9          3.628
LGA    Y      10      Y      10          1.567
LGA    T      11      T      11          4.196
LGA    I      12      I      12          1.228
LGA    G      13      G      13          1.881
LGA    T      14      T      14          3.668
LGA    G      15      G      15          2.792
LGA    S      16      S      16          4.851
LGA    Y      17      Y      17          4.146
LGA    G      18      G      18          4.074
LGA    R      19      R      19          2.174
LGA    C      20      C      20          1.032
LGA    Q      21      Q      21          1.528
LGA    K      22      K      22          2.469
LGA    I      23      I      23          0.672
LGA    R      24      R      24          3.391
LGA    R      25      R      25          1.368
LGA    K      26      K      26          4.440
LGA    S      27      S      27          2.168
LGA    D      28      D      28          2.458
LGA    G      29      G      29          2.466
LGA    K      30      K      30          3.798
LGA    I      31      I      31          1.259
LGA    L      32      L      32          1.437
LGA    V      33      V      33          2.044
LGA    W      34      W      34          1.605
LGA    K      35      K      35          1.213
LGA    E      36      E      36          0.932
LGA    L      37      L      37          0.720
LGA    D      38      D      38          2.339
LGA    Y      39      Y      39          3.394
LGA    G      40      G      40          1.388
LGA    -       -      S      41           -
LGA    S      41      M      42          4.008
LGA    M      42      -       -           -
LGA    T      43      -       -           -
LGA    E      44      -       -           -
LGA    A      45      -       -           -
LGA    E      46      T      43           #
LGA    K      47      -       -           -
LGA    Q      48      -       -           -
LGA    M      49      M      49          2.591
LGA    L      50      L      50          2.740
LGA    V      51      V      51          2.632
LGA    S      52      S      52          2.040
LGA    E      53      E      53          1.143
LGA    V      54      V      54          1.614
LGA    N      55      N      55          1.306
LGA    L      56      L      56          1.246
LGA    L      57      L      57          1.296
LGA    R      58      R      58          1.307
LGA    E      59      E      59          0.471
LGA    L      60      L      60          2.245
LGA    K      61      K      61          3.663
LGA    H      62      H      62          3.665
LGA    P      63      P      63          3.793
LGA    N      64      N      64          3.295
LGA    I      65      I      65          3.203
LGA    V      66      V      66          1.850
LGA    R      67      R      67          1.082
LGA    Y      68      Y      68          0.673
LGA    Y      69      Y      69          0.880
LGA    D      70      D      70          2.121
LGA    R      71      R      71          1.947
LGA    I      72      I      72          1.778
LGA    I      73      I      73          1.517
LGA    D      74      D      74          4.073
LGA    R      75      -       -           -
LGA    T      76      -       -           -
LGA    N      77      -       -           -
LGA    T      78      -       -           -
LGA    T      79      T      79          1.671
LGA    L      80      L      80          1.553
LGA    Y      81      Y      81          2.053
LGA    I      82      I      82          1.145
LGA    V      83      V      83          0.709
LGA    M      84      M      84          0.961
LGA    E      85      E      85          1.024
LGA    Y      86      Y      86          1.257

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   86   77    5.0     75    2.47    98.67     65.120     2.913

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.764982 * X  +   0.637885 * Y  +  -0.088907 * Z  +   6.509912
  Y_new =  -0.555944 * X  +  -0.584317 * Y  +   0.591184 * Z  +  15.048285
  Z_new =   0.325158 * X  +   0.501673 * Y  +   0.801621 * Z  +  15.869591 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.559191   -2.582402  [ DEG:    32.0393   -147.9607 ]
  Theta =  -0.331179   -2.810414  [ DEG:   -18.9751   -161.0249 ]
  Phi   =  -2.513144    0.628449  [ DEG:  -143.9926     36.0075 ]
 
# 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: T0292TS168_4-D1                               
REMARK     2: T0292_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0292TS168_4-D1.T0292_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   86   77   5.0   75   2.47   98.67  65.120
REMARK  ---------------------------------------------------------- 
MOLECULE T0292TS168_4-D1
PFRMAT TS
TARGET T0292
MODEL 4
PARENT N/A
ATOM      1  CA  SER     1      -7.626 -10.892   5.895  1.00 25.00           C
ATOM      2  CA  ARG     2     -11.057  -9.262   5.421  1.00 25.00           C
ATOM      3  CA  ALA     3     -11.853  -5.779   6.766  1.00 25.00           C
ATOM      4  CA  GLU     4     -15.000  -6.018   8.884  1.00 25.00           C
ATOM      5  CA  ASP     5     -15.458  -8.663  11.512  1.00 25.00           C
ATOM      6  CA  TYR     6     -14.997  -6.586  14.621  1.00 25.00           C
ATOM      7  CA  GLU     7     -15.882  -2.906  15.009  1.00 25.00           C
ATOM      8  CA  VAL     8     -15.542   0.815  14.284  1.00 25.00           C
ATOM      9  CA  LEU     9     -16.641   3.965  16.008  1.00 25.00           C
ATOM     10  CA  TYR    10     -15.261   5.407  19.296  1.00 25.00           C
ATOM     11  CA  THR    11     -12.344   7.813  19.904  1.00 25.00           C
ATOM     12  CA  ILE    12      -9.508  10.077  18.626  1.00 25.00           C
ATOM     13  CA  GLY    13      -8.295  12.911  16.446  1.00 25.00           C
ATOM     14  CA  THR    14     -10.209  15.783  14.717  1.00 25.00           C
ATOM     15  CA  GLY    15      -7.991  15.119  11.658  1.00 25.00           C
ATOM     16  CA  SER    16      -4.949  16.208   9.760  1.00 25.00           C
ATOM     17  CA  TYR    17      -2.947  13.365   8.116  1.00 25.00           C
ATOM     18  CA  GLY    18      -4.954  10.407   6.819  1.00 25.00           C
ATOM     19  CA  ARG    19      -7.874  10.487   9.256  1.00 25.00           C
ATOM     20  CA  CYS    20      -8.917   9.368  12.676  1.00 25.00           C
ATOM     21  CA  GLN    21     -11.239   7.201  14.737  1.00 25.00           C
ATOM     22  CA  LYS    22     -11.284   3.532  15.837  1.00 25.00           C
ATOM     23  CA  ILE    23     -10.745  -0.177  16.583  1.00 25.00           C
ATOM     24  CA  ARG    24     -10.967  -3.873  15.487  1.00 25.00           C
ATOM     25  CA  ARG    25      -8.809  -6.967  16.035  1.00 25.00           C
ATOM     26  CA  LYS    26      -8.693 -10.074  13.841  1.00 25.00           C
ATOM     27  CA  SER    27     -10.490 -11.849  16.657  1.00 25.00           C
ATOM     28  CA  ASP    28     -10.015 -10.477  20.189  1.00 25.00           C
ATOM     29  CA  GLY    29     -11.648  -7.094  20.685  1.00 25.00           C
ATOM     30  CA  LYS    30      -9.960  -3.678  20.971  1.00 25.00           C
ATOM     31  CA  ILE    31      -7.415  -0.798  20.740  1.00 25.00           C
ATOM     32  CA  LEU    32      -5.911   1.004  17.701  1.00 25.00           C
ATOM     33  CA  VAL    33      -5.846   4.715  16.823  1.00 25.00           C
ATOM     34  CA  TRP    34      -6.230   4.655  13.000  1.00 25.00           C
ATOM     35  CA  LYS    35      -5.030   5.279   9.446  1.00 25.00           C
ATOM     36  CA  GLU    36      -8.122   5.105   7.225  1.00 25.00           C
ATOM     37  CA  LEU    37      -7.863   7.042   3.995  1.00 25.00           C
ATOM     38  CA  ASP    38     -10.998   8.142   2.230  1.00 25.00           C
ATOM     39  CA  TYR    39      -9.963   8.219  -1.414  1.00 25.00           C
ATOM     40  CA  GLY    40      -8.964   8.336  -5.049  1.00 25.00           C
ATOM     41  CA  SER    41      -6.031   6.357  -6.551  1.00 25.00           C
ATOM     42  CA  MET    42      -6.006   3.012  -8.432  1.00 25.00           C
ATOM     43  CA  THR    43      -3.096   1.626 -10.455  1.00 25.00           C
ATOM     44  CA  GLU    44       0.091   3.707 -10.894  1.00 25.00           C
ATOM     45  CA  ALA    45       0.675   5.594  -7.636  1.00 25.00           C
ATOM     46  CA  GLU    46      -0.591   7.341  -4.472  1.00 25.00           C
ATOM     47  CA  LYS    47      -1.704   3.973  -3.028  1.00 25.00           C
ATOM     48  CA  GLN    48       1.735   2.477  -3.802  1.00 25.00           C
ATOM     49  CA  MET    49       3.440   5.445  -2.085  1.00 25.00           C
ATOM     50  CA  LEU    50       1.195   4.991   0.984  1.00 25.00           C
ATOM     51  CA  VAL    51       2.056   1.261   1.092  1.00 25.00           C
ATOM     52  CA  SER    52       5.789   2.091   0.877  1.00 25.00           C
ATOM     53  CA  GLU    53       5.418   4.614   3.735  1.00 25.00           C
ATOM     54  CA  VAL    54       3.600   1.988   5.849  1.00 25.00           C
ATOM     55  CA  ASN    55       6.389  -0.542   5.149  1.00 25.00           C
ATOM     56  CA  LEU    56       9.024   2.043   6.169  1.00 25.00           C
ATOM     57  CA  LEU    57       7.107   2.756   9.407  1.00 25.00           C
ATOM     58  CA  ARG    58       6.924  -0.995  10.153  1.00 25.00           C
ATOM     59  CA  GLU    59      10.692  -1.325   9.548  1.00 25.00           C
ATOM     60  CA  LEU    60      11.929   1.411  11.838  1.00 25.00           C
ATOM     61  CA  LYS    61      10.865   1.559  15.538  1.00 25.00           C
ATOM     62  CA  HIS    62      13.569   2.304  18.099  1.00 25.00           C
ATOM     63  CA  PRO    63      11.567   3.385  21.152  1.00 25.00           C
ATOM     64  CA  ASN    64       9.800   6.332  19.403  1.00 25.00           C
ATOM     65  CA  ILE    65       8.088   6.647  16.014  1.00 25.00           C
ATOM     66  CA  VAL    66       4.537   5.340  16.147  1.00 25.00           C
ATOM     67  CA  ARG    67       4.976   1.576  16.213  1.00 25.00           C
ATOM     68  CA  TYR    68       2.631  -0.145  13.780  1.00 25.00           C
ATOM     69  CA  TYR    69       1.204  -3.647  13.762  1.00 25.00           C
ATOM     70  CA  ASP    70       0.763  -3.255   9.995  1.00 25.00           C
ATOM     71  CA  ARG    71      -0.769  -3.336   6.544  1.00 25.00           C
ATOM     72  CA  ILE    72      -4.088  -3.033   4.611  1.00 25.00           C
ATOM     73  CA  ILE    73      -7.157  -3.194   2.392  1.00 25.00           C
ATOM     74  CA  ASP    74      -9.425  -5.345   0.159  1.00 25.00           C
ATOM     75  CA  ARG    75     -11.951  -4.429  -2.590  1.00 25.00           C
ATOM     76  CA  THR    76     -13.502  -1.496  -4.385  1.00 25.00           C
ATOM     77  CA  ASN    77     -15.152   1.408  -2.507  1.00 25.00           C
ATOM     78  CA  THR    78     -11.865   3.032  -1.619  1.00 25.00           C
ATOM     79  CA  THR    79      -9.509   1.932   1.133  1.00 25.00           C
ATOM     80  CA  LEU    80      -5.758   1.947   1.859  1.00 25.00           C
ATOM     81  CA  TYR    81      -4.710   2.051   5.547  1.00 25.00           C
ATOM     82  CA  ILE    82      -2.044   1.572   8.255  1.00 25.00           C
ATOM     83  CA  VAL    83      -3.044   0.861  11.859  1.00 25.00           C
ATOM     84  CA  MET    84      -1.738   2.262  15.163  1.00 25.00           C
ATOM     85  CA  GLU    85       0.368   1.176  18.212  1.00 25.00           C
ATOM     86  CA  TYR    86      -1.947   3.078  20.582  1.00 25.00           C
TER
END
