
#######################################################
#                                                     #
#                        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  106 (  106),  selected  106 , name T0314TS393_5
# Molecule2: number of CA atoms  106 ( 1704),  selected  106 , name T0314.pdb
# PARAMETERS: T0314TS393_5.T0314.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      M       1           -
LGA    -       -      S       2           -
LGA    -       -      I       3           -
LGA    -       -      T       4           -
LGA    -       -      S       5           -
LGA    -       -      T       6           -
LGA    M       1      D       7          4.590
LGA    S       2      I       8          4.939
LGA    I       3      C       9          2.486
LGA    T       4      Q      10          1.295
LGA    S       5      A      11          2.784
LGA    T       6      -       -           -
LGA    D       7      -       -           -
LGA    I       8      A      12          2.617
LGA    C       9      D      13          2.704
LGA    Q      10      A      14          3.271
LGA    A      11      L      15          1.557
LGA    A      12      -       -           -
LGA    D      13      K      16          2.045
LGA    A      14      G      17          2.164
LGA    L      15      -       -           -
LGA    K      16      -       -           -
LGA    G      17      F      18          1.605
LGA    F      18      V      19          1.421
LGA    V      19      G      20          1.299
LGA    G      20      F      21          2.449
LGA    F      21      N      22          0.657
LGA    -       -      R      23           -
LGA    N      22      K      24          5.124
LGA    R      23      T      25          5.544
LGA    K      24      G      26           -
LGA    T      25      -       -           -
LGA    G      26      -       -           -
LGA    R      27      -       -           -
LGA    Y      28      R      27           #
LGA    I      29      Y      28          2.949
LGA    V      30      I      29          4.178
LGA    R      31      V      30           #
LGA    -       -      R      31           -
LGA    -       -      F      32           -
LGA    -       -      S      33           -
LGA    -       -      E      34           -
LGA    -       -      D      35           -
LGA    -       -      S      36           -
LGA    -       -      F      37           -
LGA    -       -      G      38           -
LGA    -       -      M      39           -
LGA    -       -      D      40           -
LGA    -       -      V      41           -
LGA    -       -      A      42           -
LGA    -       -      D      43           -
LGA    -       -      D      44           -
LGA    -       -      S      45           -
LGA    F      32      I      46           #
LGA    S      33      T      47          3.583
LGA    E      34      P      48           -
LGA    D      35      T      49           -
LGA    -       -      S      50           -
LGA    -       -      E      51           -
LGA    S      36      F      52          4.355
LGA    F      37      V      53          2.568
LGA    -       -      W      54           -
LGA    -       -      S      55           -
LGA    -       -      S      56           -
LGA    -       -      V      57           -
LGA    -       -      R      58           -
LGA    -       -      D      59           -
LGA    -       -      D      60           -
LGA    -       -      V      61           -
LGA    -       -      M      62           -
LGA    -       -      R      63           -
LGA    -       -      L      64           -
LGA    -       -      G      65           -
LGA    -       -      R      66           -
LGA    G      38      E      67          2.466
LGA    M      39      Q      68          2.276
LGA    D      40      L      69          4.522
LGA    V      41      Q      70          3.667
LGA    A      42      -       -           -
LGA    D      43      -       -           -
LGA    D      44      -       -           -
LGA    S      45      -       -           -
LGA    I      46      -       -           -
LGA    T      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    S      50      -       -           -
LGA    E      51      -       -           -
LGA    F      52      I      71          3.731
LGA    V      53      L      72          3.363
LGA    W      54      L      73          2.094
LGA    S      55      E      74          4.565
LGA    S      56      Q      75          3.582
LGA    V      57      N      76          4.256
LGA    R      58      -       -           -
LGA    D      59      -       -           -
LGA    D      60      -       -           -
LGA    V      61      I      77          0.807
LGA    M      62      N      78          2.727
LGA    R      63      E      79          3.457
LGA    L      64      R      80          1.721
LGA    G      65      L      81          2.215
LGA    R      66      N      82           #
LGA    E      67      -       -           -
LGA    Q      68      -       -           -
LGA    L      69      I      83           #
LGA    Q      70      G      84           -
LGA    I      71      E      85           -
LGA    L      72      P      86           -
LGA    L      73      L      87           -
LGA    E      74      L      88           -
LGA    Q      75      V      89           -
LGA    N      76      Y      90           -
LGA    I      77      L      91           -
LGA    N      78      R      92           -
LGA    E      79      R      93           -
LGA    R      80      Q      94           -
LGA    L      81      D      95           -
LGA    N      82      L      96           -
LGA    I      83      P      97           -
LGA    G      84      E      98           -
LGA    E      85      I      99           -
LGA    P      86      T     100           -
LGA    L      87      A     101           -
LGA    L      88      Q     102           -
LGA    V      89      -       -           -
LGA    Y      90      -       -           -
LGA    L      91      -       -           -
LGA    R      92      -       -           -
LGA    R      93      -       -           -
LGA    Q      94      -       -           -
LGA    D      95      -       -           -
LGA    L      96      -       -           -
LGA    P      97      -       -           -
LGA    E      98      -       -           -
LGA    I      99      R     103           #
LGA    T     100      Q     104          3.593
LGA    A     101      L     105          2.038
LGA    Q     102      R     106          1.172
LGA    R     103      -       -           -
LGA    Q     104      -       -           -
LGA    L     105      -       -           -
LGA    R     106      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  106  106    5.0     41    3.14     0.00     22.090     1.265

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.227176 * X  +  -0.238116 * Y  +   0.944295 * Z  +  19.773598
  Y_new =   0.970421 * X  +  -0.136696 * Y  +   0.198992 * Z  +   9.252540
  Z_new =   0.081698 * X  +   0.961569 * Y  +   0.262126 * Z  + -13.694296 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.304660   -1.836932  [ DEG:    74.7515   -105.2485 ]
  Theta =  -0.081789   -3.059803  [ DEG:    -4.6862   -175.3138 ]
  Phi   =   1.800756   -1.340837  [ DEG:   103.1757    -76.8243 ]
 
# 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: T0314TS393_5                                  
REMARK     2: T0314.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0314TS393_5.T0314.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  106  106   5.0   41   3.14    0.00  22.090
REMARK  ---------------------------------------------------------- 
MOLECULE T0314TS393_5
PFRMAT TS
TARGET T0314
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1       5.353  12.415  -6.883  1.00 25.00           C
ATOM      2  CA  SER     2       6.895  15.534  -8.375  1.00 25.00           C
ATOM      3  CA  ILE     3      10.286  14.272  -9.654  1.00 25.00           C
ATOM      4  CA  THR     4      10.705  13.149  -5.986  1.00 25.00           C
ATOM      5  CA  SER     5      12.839  11.491  -3.252  1.00 25.00           C
ATOM      6  CA  THR     6      15.824   9.236  -2.435  1.00 25.00           C
ATOM      7  CA  ASP     7      14.382   6.477  -4.667  1.00 25.00           C
ATOM      8  CA  ILE     8      13.907   8.994  -7.514  1.00 25.00           C
ATOM      9  CA  CYS     9      17.525  10.182  -7.099  1.00 25.00           C
ATOM     10  CA  GLN    10      18.753   6.557  -7.201  1.00 25.00           C
ATOM     11  CA  ALA    11      16.719   5.931 -10.386  1.00 25.00           C
ATOM     12  CA  ALA    12      18.207   9.079 -11.983  1.00 25.00           C
ATOM     13  CA  ASP    13      21.734   7.914 -11.050  1.00 25.00           C
ATOM     14  CA  ALA    14      21.032   4.475 -12.583  1.00 25.00           C
ATOM     15  CA  LEU    15      19.759   6.137 -15.789  1.00 25.00           C
ATOM     16  CA  LYS    16      21.974   9.005 -17.039  1.00 25.00           C
ATOM     17  CA  GLY    17      24.746   6.476 -16.551  1.00 25.00           C
ATOM     18  CA  PHE    18      23.700   3.398 -18.538  1.00 25.00           C
ATOM     19  CA  VAL    19      24.272   3.036 -22.306  1.00 25.00           C
ATOM     20  CA  GLY    20      25.076  -0.641 -22.822  1.00 25.00           C
ATOM     21  CA  PHE    21      26.010  -3.855 -24.705  1.00 25.00           C
ATOM     22  CA  ASN    22      24.564  -6.891 -22.898  1.00 25.00           C
ATOM     23  CA  ARG    23      27.841  -6.718 -20.978  1.00 25.00           C
ATOM     24  CA  LYS    24      27.579  -9.432 -18.393  1.00 25.00           C
ATOM     25  CA  THR    25      24.158 -10.972 -18.721  1.00 25.00           C
ATOM     26  CA  GLY    26      22.379  -9.179 -15.875  1.00 25.00           C
ATOM     27  CA  ARG    27      19.583  -7.112 -17.422  1.00 25.00           C
ATOM     28  CA  TYR    28      17.918  -4.468 -19.505  1.00 25.00           C
ATOM     29  CA  ILE    29      17.462  -2.220 -22.593  1.00 25.00           C
ATOM     30  CA  VAL    30      19.569   0.247 -20.556  1.00 25.00           C
ATOM     31  CA  ARG    31      19.114   4.065 -20.685  1.00 25.00           C
ATOM     32  CA  PHE    32      17.718   6.801 -22.882  1.00 25.00           C
ATOM     33  CA  SER    33      19.894   9.798 -21.798  1.00 25.00           C
ATOM     34  CA  GLU    34      17.303  11.838 -23.758  1.00 25.00           C
ATOM     35  CA  ASP    35      14.932  11.380 -20.892  1.00 25.00           C
ATOM     36  CA  SER    36      13.034   8.042 -21.116  1.00 25.00           C
ATOM     37  CA  PHE    37      10.872   7.473 -18.039  1.00 25.00           C
ATOM     38  CA  GLY    38       7.771   5.715 -19.372  1.00 25.00           C
ATOM     39  CA  MET    39       9.359   2.483 -18.338  1.00 25.00           C
ATOM     40  CA  ASP    40       7.209  -0.369 -17.084  1.00 25.00           C
ATOM     41  CA  VAL    41       7.898  -1.860 -20.544  1.00 25.00           C
ATOM     42  CA  ALA    42       8.710  -4.442 -23.244  1.00 25.00           C
ATOM     43  CA  ASP    43       6.058  -5.150 -25.957  1.00 25.00           C
ATOM     44  CA  ASP    44       6.928  -3.850 -29.434  1.00 25.00           C
ATOM     45  CA  SER    45      10.082  -1.961 -30.419  1.00 25.00           C
ATOM     46  CA  ILE    46      12.775  -1.897 -27.763  1.00 25.00           C
ATOM     47  CA  THR    47      14.369   0.976 -29.709  1.00 25.00           C
ATOM     48  CA  PRO    48      16.962   3.706 -30.141  1.00 25.00           C
ATOM     49  CA  THR    49      18.737   6.358 -28.039  1.00 25.00           C
ATOM     50  CA  SER    50      19.806   3.383 -25.840  1.00 25.00           C
ATOM     51  CA  GLU    51      16.203   2.383 -24.969  1.00 25.00           C
ATOM     52  CA  PHE    52      14.271   1.665 -21.761  1.00 25.00           C
ATOM     53  CA  VAL    53      14.413  -0.820 -18.833  1.00 25.00           C
ATOM     54  CA  TRP    54      14.005  -3.515 -16.179  1.00 25.00           C
ATOM     55  CA  SER    55      17.133  -4.055 -14.069  1.00 25.00           C
ATOM     56  CA  SER    56      16.433  -7.428 -12.523  1.00 25.00           C
ATOM     57  CA  VAL    57      15.423  -9.772  -9.758  1.00 25.00           C
ATOM     58  CA  ARG    58      13.666  -6.818  -8.069  1.00 25.00           C
ATOM     59  CA  ASP    59      15.922  -7.198  -4.999  1.00 25.00           C
ATOM     60  CA  ASP    60      19.019  -7.257  -7.251  1.00 25.00           C
ATOM     61  CA  VAL    61      17.809  -4.092  -9.037  1.00 25.00           C
ATOM     62  CA  MET    62      17.256  -2.370  -5.662  1.00 25.00           C
ATOM     63  CA  ARG    63      20.780  -3.368  -4.546  1.00 25.00           C
ATOM     64  CA  LEU    64      22.232  -1.980  -7.806  1.00 25.00           C
ATOM     65  CA  GLY    65      20.325   1.300  -7.288  1.00 25.00           C
ATOM     66  CA  ARG    66      21.658   1.537  -3.705  1.00 25.00           C
ATOM     67  CA  GLU    67      25.225   0.938  -4.965  1.00 25.00           C
ATOM     68  CA  GLN    68      24.776   3.674  -7.608  1.00 25.00           C
ATOM     69  CA  LEU    69      23.489   6.087  -4.928  1.00 25.00           C
ATOM     70  CA  GLN    70      26.506   5.277  -2.714  1.00 25.00           C
ATOM     71  CA  ILE    71      28.869   5.910  -5.661  1.00 25.00           C
ATOM     72  CA  LEU    72      27.153   9.263  -6.348  1.00 25.00           C
ATOM     73  CA  LEU    73      27.509  10.230  -2.660  1.00 25.00           C
ATOM     74  CA  GLU    74      31.224   9.304  -2.751  1.00 25.00           C
ATOM     75  CA  GLN    75      31.700  11.423  -5.905  1.00 25.00           C
ATOM     76  CA  ASN    76      29.942  14.377  -4.216  1.00 25.00           C
ATOM     77  CA  ILE    77      32.199  13.996  -1.146  1.00 25.00           C
ATOM     78  CA  ASN    78      35.296  13.938  -3.399  1.00 25.00           C
ATOM     79  CA  GLU    79      34.086  17.103  -5.185  1.00 25.00           C
ATOM     80  CA  ARG    80      33.532  18.826  -1.810  1.00 25.00           C
ATOM     81  CA  LEU    81      37.056  17.827  -0.693  1.00 25.00           C
ATOM     82  CA  ASN    82      38.156  19.976  -3.616  1.00 25.00           C
ATOM     83  CA  ILE    83      35.712  22.122  -5.523  1.00 25.00           C
ATOM     84  CA  GLY    84      35.916  23.507  -9.103  1.00 25.00           C
ATOM     85  CA  GLU    85      32.617  21.854 -10.157  1.00 25.00           C
ATOM     86  CA  PRO    86      30.813  21.527 -13.519  1.00 25.00           C
ATOM     87  CA  LEU    87      27.610  20.442 -11.722  1.00 25.00           C
ATOM     88  CA  LEU    88      27.886  23.444  -9.362  1.00 25.00           C
ATOM     89  CA  VAL    89      28.353  25.785 -12.356  1.00 25.00           C
ATOM     90  CA  TYR    90      25.275  24.268 -14.055  1.00 25.00           C
ATOM     91  CA  LEU    91      23.236  24.752 -10.849  1.00 25.00           C
ATOM     92  CA  ARG    92      24.383  28.401 -10.642  1.00 25.00           C
ATOM     93  CA  ARG    93      23.383  28.948 -14.298  1.00 25.00           C
ATOM     94  CA  GLN    94      24.083  32.602 -15.092  1.00 25.00           C
ATOM     95  CA  ASP    95      22.756  35.362 -12.788  1.00 25.00           C
ATOM     96  CA  LEU    96      20.922  32.659 -10.826  1.00 25.00           C
ATOM     97  CA  PRO    97      17.493  31.756 -12.125  1.00 25.00           C
ATOM     98  CA  GLU    98      16.210  34.932 -13.836  1.00 25.00           C
ATOM     99  CA  ILE    99      16.296  33.167 -17.233  1.00 25.00           C
ATOM    100  CA  THR   100      14.356  30.206 -15.771  1.00 25.00           C
ATOM    101  CA  ALA   101      11.751  32.603 -14.310  1.00 25.00           C
ATOM    102  CA  GLN   102      11.402  34.333 -17.709  1.00 25.00           C
ATOM    103  CA  ARG   103      10.935  30.939 -19.417  1.00 25.00           C
ATOM    104  CA  GLN   104       8.253  29.989 -16.854  1.00 25.00           C
ATOM    105  CA  LEU   105       6.421  31.773 -13.972  1.00 25.00           C
ATOM    106  CA  ARG   106       5.531  34.090 -11.093  1.00 25.00           C
TER
END
