
#######################################################
#                                                     #
#                        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 T0292TS393_5-D1
# Molecule2: number of CA atoms   77 (  591),  selected   77 , name T0292_D1.pdb
# PARAMETERS: T0292TS393_5-D1.T0292_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      S       1           -
LGA    S       1      R       2          1.748
LGA    R       2      A       3          2.347
LGA    A       3      E       4          4.546
LGA    E       4      D       5          3.478
LGA    D       5      Y       6          4.755
LGA    Y       6      E       7          2.398
LGA    E       7      V       8          1.975
LGA    V       8      -       -           -
LGA    L       9      L       9          1.473
LGA    Y      10      Y      10          0.942
LGA    T      11      T      11          1.745
LGA    I      12      I      12          1.349
LGA    G      13      G      13          0.784
LGA    T      14      T      14          4.059
LGA    G      15      G      15          3.531
LGA    S      16      S      16          2.693
LGA    Y      17      Y      17          2.484
LGA    G      18      G      18          1.869
LGA    R      19      R      19          2.976
LGA    C      20      C      20          0.927
LGA    Q      21      Q      21          0.869
LGA    K      22      K      22          1.389
LGA    I      23      I      23          1.989
LGA    R      24      R      24          3.804
LGA    R      25      R      25          3.589
LGA    K      26      K      26          2.260
LGA    S      27      S      27          2.467
LGA    D      28      D      28          2.851
LGA    G      29      G      29          1.333
LGA    K      30      K      30          3.769
LGA    I      31      I      31          2.523
LGA    L      32      L      32          0.584
LGA    V      33      V      33          1.042
LGA    W      34      W      34          2.636
LGA    K      35      K      35          1.136
LGA    E      36      E      36          1.245
LGA    L      37      L      37          0.347
LGA    D      38      D      38          1.593
LGA    Y      39      Y      39          3.000
LGA    G      40      G      40          2.173
LGA    S      41      S      41          5.215
LGA    M      42      -       -           -
LGA    T      43      -       -           -
LGA    E      44      M      42          4.009
LGA    A      45      T      43          1.851
LGA    E      46      -       -           -
LGA    K      47      -       -           -
LGA    Q      48      M      49          2.702
LGA    M      49      L      50          2.445
LGA    L      50      -       -           -
LGA    V      51      V      51          1.758
LGA    S      52      S      52          2.025
LGA    E      53      E      53          2.062
LGA    V      54      V      54          1.324
LGA    N      55      N      55          1.678
LGA    L      56      L      56          1.911
LGA    L      57      L      57          1.434
LGA    R      58      R      58          1.504
LGA    E      59      E      59          2.065
LGA    L      60      L      60          1.878
LGA    K      61      K      61          1.769
LGA    H      62      H      62          1.354
LGA    P      63      P      63          1.668
LGA    N      64      N      64          0.693
LGA    I      65      I      65          0.736
LGA    V      66      V      66          1.072
LGA    R      67      R      67          1.614
LGA    Y      68      Y      68          1.622
LGA    Y      69      Y      69          1.711
LGA    D      70      D      70          2.066
LGA    R      71      R      71          1.418
LGA    I      72      I      72          2.582
LGA    I      73      I      73          3.273
LGA    D      74      D      74          3.595
LGA    R      75      -       -           -
LGA    T      76      -       -           -
LGA    N      77      -       -           -
LGA    T      78      -       -           -
LGA    T      79      T      79          2.683
LGA    L      80      L      80          1.270
LGA    Y      81      Y      81          1.717
LGA    I      82      I      82          1.289
LGA    V      83      V      83          1.480
LGA    M      84      M      84          0.501
LGA    E      85      E      85          1.436
LGA    Y      86      Y      86          0.432

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   86   77    5.0     76    2.31    85.53     72.024     3.154

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.661880 * X  +   0.715104 * Y  +   0.224813 * Z  +   6.707488
  Y_new =  -0.302010 * X  +  -0.528879 * Y  +   0.793144 * Z  +  14.385637
  Z_new =   0.686080 * X  +   0.457070 * Y  +   0.566023 * Z  +  16.016533 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.679305   -2.462288  [ DEG:    38.9213   -141.0787 ]
  Theta =  -0.756087   -2.385506  [ DEG:   -43.3206   -136.6794 ]
  Phi   =  -2.713519    0.428073  [ DEG:  -155.4732     24.5268 ]
 
# 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: T0292TS393_5-D1                               
REMARK     2: T0292_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0292TS393_5-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   76   2.31   85.53  72.024
REMARK  ---------------------------------------------------------- 
MOLECULE T0292TS393_5-D1
PFRMAT TS
TARGET T0292
MODEL 5
PARENT N/A
ATOM      1  CA  SER     1     -10.939  -8.100   5.350  1.00 25.00           C
ATOM      2  CA  ARG     2     -10.215  -6.141   8.484  1.00 25.00           C
ATOM      3  CA  ALA     3     -10.601  -9.534  10.209  1.00 25.00           C
ATOM      4  CA  GLU     4     -14.337  -9.350  10.283  1.00 25.00           C
ATOM      5  CA  ASP     5     -14.568  -8.546  13.942  1.00 25.00           C
ATOM      6  CA  TYR     6     -15.283  -4.828  13.831  1.00 25.00           C
ATOM      7  CA  GLU     7     -14.548  -1.106  14.076  1.00 25.00           C
ATOM      8  CA  VAL     8     -16.399   2.228  14.185  1.00 25.00           C
ATOM      9  CA  LEU     9     -16.040   2.814  17.910  1.00 25.00           C
ATOM     10  CA  TYR    10     -15.284   6.508  17.407  1.00 25.00           C
ATOM     11  CA  THR    11     -12.987   9.496  17.364  1.00 25.00           C
ATOM     12  CA  ILE    12      -9.205   9.426  17.529  1.00 25.00           C
ATOM     13  CA  GLY    13      -9.198  12.762  15.761  1.00 25.00           C
ATOM     14  CA  THR    14      -7.248  15.580  14.031  1.00 25.00           C
ATOM     15  CA  GLY    15      -5.132  16.693  11.002  1.00 25.00           C
ATOM     16  CA  SER    16      -5.474  17.798   7.337  1.00 25.00           C
ATOM     17  CA  TYR    17      -4.160  14.269   6.618  1.00 25.00           C
ATOM     18  CA  GLY    18      -7.028  11.809   6.797  1.00 25.00           C
ATOM     19  CA  ARG    19      -7.673  11.877  10.551  1.00 25.00           C
ATOM     20  CA  CYS    20      -8.959   8.789  12.412  1.00 25.00           C
ATOM     21  CA  GLN    21     -10.798   5.880  14.019  1.00 25.00           C
ATOM     22  CA  LYS    22     -10.376   3.213  16.750  1.00 25.00           C
ATOM     23  CA  ILE    23     -11.258   0.124  18.814  1.00 25.00           C
ATOM     24  CA  ARG    24     -14.284  -2.096  19.410  1.00 25.00           C
ATOM     25  CA  ARG    25     -12.441  -5.115  18.141  1.00 25.00           C
ATOM     26  CA  LYS    26     -10.147  -7.564  16.432  1.00 25.00           C
ATOM     27  CA  SER    27     -10.703 -10.757  18.428  1.00 25.00           C
ATOM     28  CA  ASP    28     -10.524 -10.377  22.210  1.00 25.00           C
ATOM     29  CA  GLY    29     -10.485  -6.633  22.497  1.00 25.00           C
ATOM     30  CA  LYS    30      -9.177  -3.020  22.670  1.00 25.00           C
ATOM     31  CA  ILE    31      -6.119  -3.767  20.488  1.00 25.00           C
ATOM     32  CA  LEU    32      -5.592  -0.211  19.116  1.00 25.00           C
ATOM     33  CA  VAL    33      -5.588   1.904  15.988  1.00 25.00           C
ATOM     34  CA  TRP    34      -5.055   5.010  13.758  1.00 25.00           C
ATOM     35  CA  LYS    35      -4.878   6.690  10.315  1.00 25.00           C
ATOM     36  CA  GLU    36      -7.298   6.294   7.480  1.00 25.00           C
ATOM     37  CA  LEU    37      -7.044   7.609   3.874  1.00 25.00           C
ATOM     38  CA  ASP    38     -10.066   6.735   1.738  1.00 25.00           C
ATOM     39  CA  TYR    39      -9.519   8.361  -1.659  1.00 25.00           C
ATOM     40  CA  GLY    40      -9.100   9.209  -5.283  1.00 25.00           C
ATOM     41  CA  SER    41      -9.569   5.777  -6.811  1.00 25.00           C
ATOM     42  CA  MET    42      -6.156   4.241  -5.990  1.00 25.00           C
ATOM     43  CA  THR    43      -5.160   5.907  -9.281  1.00 25.00           C
ATOM     44  CA  GLU    44      -5.686   9.700  -9.780  1.00 25.00           C
ATOM     45  CA  ALA    45      -2.857  10.522  -7.359  1.00 25.00           C
ATOM     46  CA  GLU    46      -0.597  10.747  -4.306  1.00 25.00           C
ATOM     47  CA  LYS    47      -1.714   7.131  -3.719  1.00 25.00           C
ATOM     48  CA  GLN    48       1.812   5.882  -4.541  1.00 25.00           C
ATOM     49  CA  MET    49       3.307   8.422  -2.096  1.00 25.00           C
ATOM     50  CA  LEU    50       0.866   7.278   0.624  1.00 25.00           C
ATOM     51  CA  VAL    51       1.821   3.626  -0.019  1.00 25.00           C
ATOM     52  CA  SER    52       5.535   4.528   0.231  1.00 25.00           C
ATOM     53  CA  GLU    53       4.893   6.357   3.535  1.00 25.00           C
ATOM     54  CA  VAL    54       3.006   3.309   4.884  1.00 25.00           C
ATOM     55  CA  ASN    55       5.907   1.028   3.858  1.00 25.00           C
ATOM     56  CA  LEU    56       8.390   3.358   5.611  1.00 25.00           C
ATOM     57  CA  LEU    57       6.231   3.319   8.774  1.00 25.00           C
ATOM     58  CA  ARG    58       6.102  -0.507   8.669  1.00 25.00           C
ATOM     59  CA  GLU    59       9.909  -0.650   8.290  1.00 25.00           C
ATOM     60  CA  LEU    60       9.907   0.018  12.013  1.00 25.00           C
ATOM     61  CA  LYS    61      10.640  -0.462  15.729  1.00 25.00           C
ATOM     62  CA  HIS    62      11.753   1.139  18.978  1.00 25.00           C
ATOM     63  CA  PRO    63       8.689   1.154  21.260  1.00 25.00           C
ATOM     64  CA  ASN    64       9.281   4.942  21.627  1.00 25.00           C
ATOM     65  CA  ILE    65       7.834   4.916  18.071  1.00 25.00           C
ATOM     66  CA  VAL    66       4.303   3.476  18.138  1.00 25.00           C
ATOM     67  CA  ARG    67       4.829   1.223  15.070  1.00 25.00           C
ATOM     68  CA  TYR    68       3.531  -1.773  13.118  1.00 25.00           C
ATOM     69  CA  TYR    69       1.119  -4.537  12.086  1.00 25.00           C
ATOM     70  CA  ASP    70      -0.691  -5.455   8.903  1.00 25.00           C
ATOM     71  CA  ARG    71      -1.016  -2.440   6.675  1.00 25.00           C
ATOM     72  CA  ILE    72      -3.686  -4.268   4.702  1.00 25.00           C
ATOM     73  CA  ILE    73      -6.603  -5.044   2.441  1.00 25.00           C
ATOM     74  CA  ASP    74      -9.770  -4.977   0.264  1.00 25.00           C
ATOM     75  CA  ARG    75     -10.809  -2.309  -2.293  1.00 25.00           C
ATOM     76  CA  THR    76     -14.521  -1.598  -1.854  1.00 25.00           C
ATOM     77  CA  ASN    77     -13.612   1.435  -4.013  1.00 25.00           C
ATOM     78  CA  THR    78     -11.216   3.022  -1.512  1.00 25.00           C
ATOM     79  CA  THR    79      -8.123   1.829   0.296  1.00 25.00           C
ATOM     80  CA  LEU    80      -5.370   2.101   2.978  1.00 25.00           C
ATOM     81  CA  TYR    81      -4.641   1.450   6.648  1.00 25.00           C
ATOM     82  CA  ILE    82      -1.939   1.988   9.277  1.00 25.00           C
ATOM     83  CA  VAL    83      -2.246  -0.743  11.981  1.00 25.00           C
ATOM     84  CA  MET    84      -0.734   1.666  14.517  1.00 25.00           C
ATOM     85  CA  GLU    85      -0.756   2.903  18.096  1.00 25.00           C
ATOM     86  CA  TYR    86      -3.275   3.478  20.868  1.00 25.00           C
TER
END
